| AGE DEPENDENT CIRCADIAN CHANGES ADRENAL AGED: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age groups |
Mus musculus |
Adrenal Gland |
Aged |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES ADRENAL OLD: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age groups |
Mus musculus |
Adrenal Gland |
Old |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES ADRENAL YOUNG: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age groups |
Mus musculus |
Adrenal Gland |
Young |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES HEART AGED: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Heart |
Aged |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES HEART OLD: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Heart |
Old |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES HEART YOUNG: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Heart |
Young |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES HYPOTHALAMUS AGED: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Hypothalamus |
Aged |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES HYPOTHALAMUS OLD: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Hypothalamus |
Old |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES HYPOTHALAMUS YOUNG: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Hypothalamus |
Young |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES KIDNEY AGED: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Kidney |
Aged |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES KIDNEY OLD: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Kidney |
Old |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES KIDNEY YOUNG: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Kidney |
Young |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES LUNG AGED: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Lung |
Aged |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES LUNG OLD: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Lung |
Old |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES LUNG YOUNG: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Lung |
Young |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES MUSCLE AGED: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Skeletal Muscle |
Aged |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES MUSCLE OLD: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Skeletal Muscle |
Old |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGE DEPENDENT CIRCADIAN CHANGES MUSCLE YOUNG: Defining age-dependent changes at the systems level, profiling the circadian transcriptome in the hypothalamus, lung, heart, kidney, skeletal muscle, and adrenal gland in 3 age group |
Mus musculus |
Skeletal Muscle |
Young |
Age |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | CPM |
|
| AGING EPIDERMAL STEM CELLS ADULT CONTROL-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Epidermis |
Ad Libitum |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING EPIDERMAL STEM CELLS ADULT RESTRICTED-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Epidermis |
Caloric Restriction |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING EPIDERMAL STEM CELLS AGED: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Epidermis |
Aged |
Age |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING EPIDERMAL STEM CELLS CONTROL-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Epidermis |
Ad Libitum |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING EPIDERMAL STEM CELLS HIGH-FAT-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Epidermis |
High-Fat Diet |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING EPIDERMAL STEM CELLS ND-CONTROL-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Epidermis |
Ad Libitum |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING EPIDERMAL STEM CELLS RESTRICTED-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Epidermis |
Caloric Restriction |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING EPIDERMAL STEM CELLS YOUNG: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Epidermis |
Young |
Age |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING SATELLITE CELLS ADULT CONTROL-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Skeletal Muscle |
Ad Libitum |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING SATELLITE CELLS ADULT RESTRICTED-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Skeletal Muscle |
Caloric Restriction |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING SATELLITE CELLS AGED CONTROL-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Skeletal Muscle |
Ad Libitum |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING SATELLITE CELLS AGED RESTRICTED-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Skeletal Muscle |
Caloric Restriction |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING SATELLITE CELLS CONTROL-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Skeletal Muscle |
Ad Libitum |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| AGING SATELLITE CELLS HIGH-FAT-DIET: Effects of aging, diet, and circadian clock disruption on daily rhythmic gene expression in mouse epidermal and skeletal muscle stem cells. |
Mus musculus |
Skeletal Muscle |
High-Fat Diet |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix HT MG-430 PM Array Plate |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA |
| Expression Unit | RMA intensity |
|
| ARABIDOPSIS EDWARDS 2007 PLANT WT: Study the circadian expression of genes to model the Arabidopsis circadian clock |
Arabidopsis thaliana |
Whole Seedling |
Control |
Control |
26, 30, 34, 38, 42, 46, 50, 54, 58, 62, 66, 70, 74 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Arabidopsis ATH1 Genome Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | Affymetrix MAS5 |
| Expression Unit | MAS5 signal intensity |
|
| ARABIDOPSIS EXTENDED PHOTOPERIOD FLOWERING CONTROL: RNA-seq of Arabidopsis recombinant inbred lines to assess circadian and photoperiod responses linked to flowering timing. |
Arabidopsis thaliana |
Whole Seedling |
Control |
Light-Dark |
1, 2, 3, 4, 5, 6, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 34, 35, 36, 38, 39, 40, 41, 42, 44, 45, 46, 47, 48, 49, 50, 51, 52, 54, 55, 56, 57, 58, 59, 61, 62, 63, 64, 65, 66, 68, 69, 71, 73, 74, 76, 77, 78 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq X Plus |
| Molecule | polyA RNA |
| Genome Build | TAIR10 |
| Aligner | Salmon v1.6.0 |
| Quantifier | Salmon v1.6.0 |
| Expression Unit | TPM |
|
| ARABIDOPSIS EXTENDED PHOTOPERIOD FLOWERING EXTENDED-LIGHT: RNA-seq of Arabidopsis recombinant inbred lines to assess circadian and photoperiod responses linked to flowering timing. |
Arabidopsis thaliana |
Whole Seedling |
Extended Light |
Light-Dark |
1, 2, 3, 4, 5, 6, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 34, 35, 36, 38, 39, 40, 41, 42, 44, 45, 46, 47, 48, 49, 50, 51, 52, 54, 55, 56, 57, 58, 59, 61, 62, 63, 64, 65, 66, 68, 69, 71, 73, 74, 76, 77, 78 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq X Plus |
| Molecule | polyA RNA |
| Genome Build | TAIR10 |
| Aligner | Salmon v1.6.0 |
| Quantifier | Salmon v1.6.0 |
| Expression Unit | TPM |
|
| BABOON MURE 2018 ADRENAL CORTEX WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Adrenal Cortex |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 ADRENAL MEDULLA WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Adrenal Medulla |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 AMYGDALA WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Amygdala |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 ANTRUM WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Antrum |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 AORTA ENDOTHELIUM WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Aorta |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 ARCUATE NUCLEUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Arcuate Nucleus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 ASCENDING COLON WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Ascending Colon |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 AXILLARY LYMPHONODES WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Axillary Lymph Nodes |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 BLADDER WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Bladder |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 BONE MARROW WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Bone Marrow |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 CECUM WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Cecum |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 CORNEA WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Cornea |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 DESCENDING COLON WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Descending Colon |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 DORSOMEDIAL HYPOTHALAMUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Dorsomedial Hypothalamus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 DUODENUM WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Duodenum |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 HABENULA WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Habenula |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 HEART WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Heart |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 HIPPOCAMPUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Hippocampus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 ILEUM WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Ileum |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 IRIS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Iris |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 KIDNEY CORTEX WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Kidney Cortex |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 KIDNEY MEDULLA WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Kidney Medulla |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 LATERAL GLOBUS PALLIDUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Lateral Globus Pallidus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 LATERAL HYPOTHALAMUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Lateral Hypothalamus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 LIVER WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Liver |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 LUNG WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Lung |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 MAMMILARY BODIES WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Mammillary Body |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 MEDIAL GLOBUS PALLIDUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Medial Globus Pallidus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 MESENTERIC LYMPHONODES WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Mesenteric Lymph Nodes |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 MUSCLE ABDOMINAL WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Muscle Abdominal |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 MUSCLE GASTROCNEMIAN WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Gastrocnemius |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 OESOPHAGUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Oesophagus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 OLFACTORY BULB WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Olfactory Bulb |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 OMENTAL FAT WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Omental Fat |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 OPTIC NERVE HEAD WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Optic Nerve Head |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 PANCREAS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Pancreas |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 PARAVENTRICULAR NUCLEUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Paraventricular Nucleus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 PINEAL WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Pineal Gland |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 PITUITARY WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Pituitary |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 PONS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Pons |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 PREFRONTAL CORTEX WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Prefrontal Cortex |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 PREOPTIC AREA WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Preoptic Area |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 PROSTATE WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Prostate |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 PUTAMEN WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Putamen |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 RETINA WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Retina |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 RETINAL PIGMENT EPITHELIUM WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Retinal Pigment Epithelium |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 SKIN WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Skin |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 SMOOTH MUSCLE WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Smooth Muscle |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 SPLEEN WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Spleen |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 STOMACH FUNDUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Stomach Fundus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 SUBSTANTIA NIGRA WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Substantia Nigra |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 SUPRACHIASMATIC NUCLEUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Suprachiasmatic Nucleus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 SUPRAOPTIC NUCLEUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Supraoptic Nucleus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 TESTICLES WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Testis |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 THALAMUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Thalamus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 THYROID WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Thyroid |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 VENTRO MEDIAL HYPOTHALAMUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Ventromedial Hypothalamus |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 VISUAL CORTEX WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Visual Cortex |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 WHITE ADIPOSE MESENTERIC WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Mesenteric White Adipose Tissue |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 WHITE ADIPOSE PERICARDIAL WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
White Adipose Tissue |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 WHITE ADIPOSE PERIRENAL WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
White Adipose Tissue |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 WHITE ADIPOSE RETROPERITONEAL WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
White Adipose Tissue |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOON MURE 2018 WHITE ADIPOSE SUBCUTANEOUS WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
White Adipose Tissue |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| BABOONMURE 2018 CEREBELLUM WT: Diurnal transcriptome of 64 tissues sampled every 2 hours over 24 hours. |
Papio anubis |
Cerebellum |
Control |
Control |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | polyA RNA |
| Genome Build | PapAnu2.0 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| C. ELEGANS 2024 NHR-23 KO: C. elegans were cultivated under temperature cycles. Then, depleted NHR-23, and sampled worms under constant(CC) condition every 2 h. |
Caenorhabditis elegans |
Whole Body |
Nuclear Receptor Knockout |
Knockout |
1, 3, 5, 7, 9, 11, 13, 15, 17, 19, 21, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | DNBSEQ-G400 |
| Molecule | polyA RNA |
| Genome Build | ce10 |
| Aligner | Salmon |
| Quantifier | Salmon |
| Expression Unit | TPM |
|
| C.ELEGANS DEVELOPMENT ON FOOD WT: Synchronized L1 stage larvae were placed on food at 25C, and samples collected hourly over a 16 hr period that covered development from L3 to the young adult stage. |
Caenorhabditis elegans |
Whole Body |
Control |
Control |
1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | ce6 |
| Aligner | QuasR (SpliceMap) |
| Quantifier | QuasR (qCount) |
| Expression Unit | counts |
|
| CANCER FOXP1 MUSCLE CACHEXIA KPC-FOXP1-KO: Circadian analysis of muscle from pancreatic-cancer cachectic mice (KPC) and non-tumor controls (Sham), with and without muscle-specific FoxP1 knockout. |
Mus musculus |
Tibialis Anterior |
Pancreatic Cancer, Transcription Factor Knockout |
Cancer, Knockout |
18, 22, 26, 30, 34, 38 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm39 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| CANCER FOXP1 MUSCLE CACHEXIA KPC-WT: Circadian analysis of muscle from pancreatic-cancer cachectic mice (KPC) and non-tumor controls (Sham), with and without muscle-specific FoxP1 knockout. |
Mus musculus |
Tibialis Anterior |
Pancreatic Cancer |
Cancer, Knockout |
18, 22, 26, 30, 34, 38 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm39 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| CANCER FOXP1 MUSCLE CACHEXIA SHAM-FOXP1-KO: Circadian analysis of muscle from pancreatic-cancer cachectic mice (KPC) and non-tumor controls (Sham), with and without muscle-specific FoxP1 knockout. |
Mus musculus |
Tibialis Anterior |
Transcription Factor Knockout |
Cancer, Knockout |
18, 22, 26, 30, 34, 38 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm39 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| CANCER FOXP1 MUSCLE CACHEXIA SHAM-WT: Circadian analysis of muscle from pancreatic-cancer cachectic mice (KPC) and non-tumor controls (Sham), with and without muscle-specific FoxP1 knockout. |
Mus musculus |
Tibialis Anterior |
Control |
Cancer, Knockout |
18, 22, 26, 30, 34, 38 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm39 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| CDKL5 IMPACT IN HIPPOCAMPUS KO: Gene expression profiling of the hippocampus in wild-type and Cdkl5 knockout mice to assess the transcriptional effects of Cdkl5 deficiency in a region central to learning and memory. |
Mus musculus |
Hippocampus |
Neurodevelopmental Signaling Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| CDKL5 IMPACT IN HIPPOCAMPUS WT: Gene expression profiling of the hippocampus in wild-type and Cdkl5 knockout mice to assess the transcriptional effects of Cdkl5 deficiency in a region central to learning and memory. |
Mus musculus |
Hippocampus |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| CDKL5 IMPACT IN SCN KO: Gene expression profiling of the suprachiasmatic nucleus (SCN) in wild-type and Cdkl5 knockout mice to determine how Cdkl5 loss alters circadian regulation in the central clock. |
Mus musculus |
Suprachiasmatic Nucleus |
Neurodevelopmental Signaling Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| CDKL5 IMPACT IN SCN WT: Gene expression profiling of the suprachiasmatic nucleus (SCN) in wild-type and Cdkl5 knockout mice to determine how Cdkl5 loss alters circadian regulation in the central clock. |
Mus musculus |
Suprachiasmatic Nucleus |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| CHICKEN ERYTHROID PROGENITORS DAMIOLA 2004 WT: Global gene expression profile of immature avian erythrocytic progenitor cells, comparing self-renewal vs differentiation states (SAGE analysis) to identify factors involved in the switch from progenitor self-renewal to differentiation. |
Gallus gallus |
Erythroid Progenitors Cells |
Control |
Control |
12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64, 66, 68, 70, 72 |
Publication             |
View
| Assay Type | SAGE |
| Platform | SAGE (NlaIII), Gallus gallus |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| CIRCADIAN VS SLEEP-WAKE CORTEX SLEEP-DEPRIVED: Cortical gene expression rhythms under total sleep deprivation vs normal sleep. |
Mus musculus |
Cortex |
Sleep Deprivation |
Sleep |
27, 30, 36, 42, 48, 54, 60, 66, 72, 78, 192, 198 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.0e |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | CPM |
|
| CIRCADIAN VS SLEEP-WAKE CORTEX WT: Cortical gene expression rhythms under total sleep deprivation vs normal sleep. |
Mus musculus |
Cortex |
Control |
Sleep |
27, 30, 36, 42, 48, 54, 60, 66, 72, 78, 192, 198 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.0e |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | CPM |
|
| CIRCADIAN VS SLEEP-WAKE LIVER SLEEP-DEPRIVED: Liver gene expression rhythms with sleep deprivation vs normal sleep. |
Mus musculus |
Liver |
Sleep Deprivation |
Sleep |
27, 30, 36, 42, 48, 54, 60, 66, 72, 78, 192, 198 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.0e |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | CPM |
|
| CIRCADIAN VS SLEEP-WAKE LIVER WT: Liver gene expression rhythms with sleep deprivation vs normal sleep. |
Mus musculus |
Liver |
Control |
Sleep |
27, 30, 36, 42, 48, 54, 60, 66, 72, 78, 192, 198 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.0e |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | CPM |
|
| DROSOPHILA DPPIL4 CIRCADIAN KD: Circadian transcriptome profiling of Drosophila clock cells following Drosophila Peptidyl-Prolyl cis/trans Isomerase-like 4 (dPPIL4) knockdown (KD) versus Wild-Type. |
Drosophila melanogaster |
Head |
Knockdown |
Genetic Perturbation |
8, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | dm6 |
| Aligner | STAR v2.6.0c |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| DROSOPHILA DPPIL4 CIRCADIAN WT: Circadian transcriptome profiling of Drosophila clock cells following Drosophila Peptidyl-Prolyl cis/trans Isomerase-like 4 (dPPIL4) knockdown (KD) versus Wild-Type. |
Drosophila melanogaster |
Head |
Control |
Genetic Perturbation |
8, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | dm6 |
| Aligner | STAR v2.6.0c |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| DROSOPHILA KADENER 2015 CABUT OVEREXPRESSION: Circadian RNA-seq profiling of Drosophila heads under light-dark conditions after cabut overexpression or RNAi-mediated cabut knockdown. |
Drosophila melanogaster |
Head |
Overexpression |
Genetic Perturbation |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | dm3 |
| Aligner | TopHat |
| Quantifier | NA |
| Expression Unit | normalized read counts |
|
| DROSOPHILA KADENER 2015 CABUT OVEREXPRESSION CONTROL: Circadian RNA-seq profiling of Drosophila heads under light-dark conditions after cabut overexpression or RNAi-mediated cabut knockdown. |
Drosophila melanogaster |
Head |
Overexpression |
Genetic Perturbation |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | dm3 |
| Aligner | TopHat |
| Quantifier | NA |
| Expression Unit | normalized read counts |
|
| DROSOPHILA KADENER 2015 CABUT RNAI: Circadian RNA-seq profiling of Drosophila heads under light-dark conditions after cabut overexpression or RNAi-mediated cabut knockdown. |
Drosophila melanogaster |
Head |
Knockdown |
Genetic Perturbation |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | dm3 |
| Aligner | TopHat |
| Quantifier | NA |
| Expression Unit | normalized read counts |
|
| DROSOPHILA KADENER 2015 CABUT RNAI-CONTROL: Circadian RNA-seq profiling of Drosophila heads under light-dark conditions after cabut overexpression or RNAi-mediated cabut knockdown. |
Drosophila melanogaster |
Head |
Knockdown |
Genetic Perturbation |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | dm3 |
| Aligner | TopHat |
| Quantifier | NA |
| Expression Unit | normalized read counts |
|
| DROSOPHILA KADENER 2019 TEMPERATURE 18C: RNA seq from fly heads at 3 temperatures (18, 25, 29C) and circadian timepoints (zt3, zt7, zt11, zt15, zt18, zt23) |
Drosophila melanogaster |
Head |
18C |
Temperature |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | dm3 |
| Aligner | TopHat |
| Quantifier | Cufflinks |
| Expression Unit | FPKM |
|
| DROSOPHILA KADENER 2019 TEMPERATURE 25C: RNA seq from fly heads at 3 temperatures (18, 25, 29C) and circadian timepoints (zt3, zt7, zt11, zt15, zt18, zt23) |
Drosophila melanogaster |
Head |
25C |
Temperature |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | dm3 |
| Aligner | TopHat |
| Quantifier | Cufflinks |
| Expression Unit | FPKM |
|
| DROSOPHILA KADENER 2019 TEMPERATURE 29C: RNA seq from fly heads at 3 temperatures (18, 25, 29C) and circadian timepoints (zt3, zt7, zt11, zt15, zt18, zt23) |
Drosophila melanogaster |
Head |
29C |
Temperature |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | dm3 |
| Aligner | TopHat |
| Quantifier | Cufflinks |
| Expression Unit | FPKM |
|
| DROSOPHILA TIM PROMOTER ENHANCER 10 BP UPSTREAM DELETION: Effects of upstream and intronic regulatory element deletions in the Drosophila timeless gene on circadian gene expression. |
Drosophila melanogaster |
Head |
Deletion |
Genetic Perturbation |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | polyA RNA |
| Genome Build | dm6 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| DROSOPHILA TIM PROMOTER ENHANCER 122 BP UPSTREAM DELETION: Effects of upstream and intronic regulatory element deletions in the Drosophila timeless gene on circadian gene expression. |
Drosophila melanogaster |
Head |
Deletion |
Genetic Perturbation |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | polyA RNA |
| Genome Build | dm6 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| DROSOPHILA TIM PROMOTER ENHANCER 126 BP UPSTREAM DELETION: Effects of upstream and intronic regulatory element deletions in the Drosophila timeless gene on circadian gene expression. |
Drosophila melanogaster |
Head |
Deletion |
Genetic Perturbation |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | polyA RNA |
| Genome Build | dm6 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| DROSOPHILA TIM PROMOTER ENHANCER 24 BP INTRONIC DELETION: Effects of upstream and intronic regulatory element deletions in the Drosophila timeless gene on circadian gene expression. |
Drosophila melanogaster |
Head |
Deletion |
Genetic Perturbation |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | polyA RNA |
| Genome Build | dm6 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| DROSOPHILA TIM PROMOTER ENHANCER WT: Effects of upstream and intronic regulatory element deletions in the Drosophila timeless gene on circadian gene expression. |
Drosophila melanogaster |
Head |
Control |
Genetic Perturbation |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | polyA RNA |
| Genome Build | dm6 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| EMBRYONIC HEART E10: Involvement of posttranscriptional regulation of Clock in the emergence of circadian clock oscillation during mouse development, embryonic or young mouse heart |
Mus musculus |
Heart |
Early-Embryonic |
Age |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| EMBRYONIC HEART E17: Involvement of posttranscriptional regulation of Clock in the emergence of circadian clock oscillation during mouse development, embryonic or young mouse heart |
Mus musculus |
Heart |
Late-Embryonic |
Age |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| EMBRYONIC HEART YOUNG: Involvement of posttranscriptional regulation of Clock in the emergence of circadian clock oscillation during mouse development, embryonic or young mouse heart |
Mus musculus |
Heart |
Young |
Age |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| ENERGY BALANCE DIURNAL NOCTURNAL ARCUATE NUCLEUS HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Arcuate Nucleus |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL ARCUATE NUCLEUS LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Arcuate Nucleus |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL BRAINSTEM HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Brainstem |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL BRAINSTEM LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Brainstem |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL BROWN ADIPOSE HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Brown Adipose Tissue |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL BROWN ADIPOSE LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Brown Adipose Tissue |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL CEREBELLUM HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Cerebellum |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL CEREBELLUM LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Cerebellum |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL CORTEX HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Cortex |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL CORTEX LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Cortex |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL DORSOMEDIAL HYPOTHALAMUS HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Dorsomedial Hypothalamus |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL DORSOMEDIAL HYPOTHALAMUS LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Dorsomedial Hypothalamus |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL HABENULA HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Habenula |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL HABENULA LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Habenula |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL HIPPOCAMPUS HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Hippocampus |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL HIPPOCAMPUS LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Hippocampus |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL LATERAL HYPOTHALAMUS CAUDAL HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Lateral Hypothalamus Caudal |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL LATERAL HYPOTHALAMUS CAUDAL LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Lateral Hypothalamus Caudal |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL LATERAL HYPOTHALAMUS ROSTRAL HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Lateral Hypothalamus Rostral |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL LATERAL HYPOTHALAMUS ROSTRAL LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Lateral Hypothalamus Rostral |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL LIVER HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Liver |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL LIVER LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Liver |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL OLFACTORY BULB HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Olfactory Bulb |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL OLFACTORY BULB LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Olfactory Bulb |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PARAVENTRICULAR NUCLEUS HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Paraventricular Nucleus |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PARAVENTRICULAR NUCLEUS LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Paraventricular Nucleus |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PARAVENTRICULAR NUCLEUS THALAMUS HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Paraventricular Nucleus Thalamus |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PARAVENTRICULAR NUCLEUS THALAMUS LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Paraventricular Nucleus Thalamus |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PERIVENTRICULAR ZONE HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Periventricular Zone |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PERIVENTRICULAR ZONE LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Periventricular Zone |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PREFRONTAL CORTEX HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Prefrontal Cortex |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PREFRONTAL CORTEX LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Prefrontal Cortex |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PREOPTIC AREA HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Preoptic Area |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL PREOPTIC AREA LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Preoptic Area |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL QUADRICEPS HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Quadriceps |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL QUADRICEPS LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Quadriceps |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL SUPRACHIASMATIC NUCLEUS HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Suprachiasmatic Nucleus |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL SUPRACHIASMATIC NUCLEUS LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Suprachiasmatic Nucleus |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL TESTIS HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Testis |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL TESTIS LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Testis |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL VENTROMEDIAL HYPOTHALAMUS HIGH-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Ventromedial Hypothalamus |
High Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| ENERGY BALANCE DIURNAL NOCTURNAL VENTROMEDIAL HYPOTHALAMUS LOW-WORKLOAD: Regulating wheel-running activity with food rewards, Switching between nocturnality and diurnality, and revealing distinct rhythmic gene expression in various tissues and brain regions. |
Mus musculus |
Ventromedial Hypothalamus |
Low Exercise |
Exercise |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN DUODENUM GERM-FREE: Rolee of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
Duodenum |
Germ-Free |
Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN DUODENUM WT: Rolee of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
Duodenum |
Control |
Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN ILEUM GERM-FREE: Role of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
Ileum |
Germ-Free |
Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN ILEUM WT: Role of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
Ileum |
Control |
Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN LIVER FEMALE GERM-FREE: Role of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
Liver |
Female, Germ-Free |
Sex, Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN LIVER FEMALE WT: Role of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
Liver |
Female, Control |
Sex, Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN LIVER MALE GERM-FREE: Role of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
Liver |
Male, Germ-Free |
Sex, Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN LIVER MALE WT: Role of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
Liver |
Male, Control |
Sex, Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN MALE CRY KO: Role of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN WHITE ADIPOSE MALE GERM-FREE: Role of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
White Adipose Tissue |
Germ-Free |
Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT MICROBIOTA AFFECT IN WHITE ADIPOSE MALE WT: Role of gut microbiota in daily rhythms of gene expression and physiology |
Mus musculus |
White Adipose Tissue |
Control |
Microbiome |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.4.0i |
| Quantifier | custom Perl script |
| Expression Unit | counts |
|
| GUT TOMOKI 2021 KO: Circadian analysis of the digestive system under Wild-Type and knockout conditions |
Mus musculus |
Intestine |
Core Clock Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| GUT TOMOKI 2021 RE RE: Circadian transcriptomic analysis of mouse intestine under wild-type, knockout, and rescue (re-expression) conditions. |
Mus musculus |
Intestine |
Rescue |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| GUT TOMOKI 2021 RE TOTAL-KO: Circadian transcriptomic analysis of mouse intestine under wild-type, knockout, and rescue (re-expression) conditions. |
Mus musculus |
Intestine |
Core Clock Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| GUT TOMOKI 2021 RE WT: Circadian transcriptomic analysis of mouse intestine under wild-type, knockout, and rescue (re-expression) conditions. |
Mus musculus |
Intestine |
Rescue |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| GUT TOMOKI 2021 WT: Circadian analysis of the digestive system under Wild-Type and knockout conditions |
Mus musculus |
Intestine |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUGHES 2009 HUMAN U2 OS OSTEOSARCOMA: Comparison of oscillating transcription from mouse liver, NIH3T3, and U2OS cells showing 12-hour oscillatory transcripts. |
Homo sapiens |
Cells |
Control |
Control |
1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48 |
Publication             |
View
| Assay Type | microarray |
| Platform | NA |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | Affymetrix Microarray Suite 5.0 (MAS5) |
| Expression Unit | MAS5 signal intensity |
|
| HUGHES 2009 MOUSE 3T3 WT: Comparison of oscillating transcription from mouse liver, NIH3T3, and U2OS cells showing 12-hour oscillatory transcripts. |
Mus musculus |
Cells |
Control |
Control |
1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Genome 430 2.0 Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | Affymetrix Microarray Suite 5.0 (MAS5) |
| Expression Unit | MAS5 signal intensity |
|
| HUGHES 2009 MOUSE LIVER WT: Circadian microarray of mouse liver over a 48 hour time course |
Mus musculus |
Liver |
Control |
Control |
1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| HUMAN FIBROBLAST CANCER VS NORMAL CANCER: Circadian transcriptome of human fibroblasts: comparing normal fibroblasts to cancer-associated fibroblasts (CAFs). |
Homo sapiens |
Fibroblast |
Ameloblastoma |
Cancer |
0, 8, 16, 24, 32, 40, 48 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | GRCh38.107 |
| Aligner | Bowtie v1.2.3 |
| Quantifier | Subread v2.0.3 |
| Expression Unit | counts |
|
| HUMAN FIBROBLAST CANCER VS NORMAL NORMAL: Circadian transcriptome of human fibroblasts: comparing normal fibroblasts to cancer-associated fibroblasts (CAFs). |
Homo sapiens |
Fibroblast |
Control |
Cancer |
0, 8, 16, 24, 32, 40, 48 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | GRCh38.107 |
| Aligner | Bowtie v1.2.3 |
| Quantifier | Subread v2.0.3 |
| Expression Unit | counts |
|
| HUMAN GUTIERREZ 2016 BREAST CANCER: Gene expression analysis of cancerous breast cell lines determine the degree to which the circadian clock is damaged. |
Homo sapiens |
Breast Cancer Epithelial Cell Line |
Breast Cancer |
Cancer |
0, 4, 8, 12, 16, 20, 24, 28 |
Publication             |
View
| Assay Type | microarray (two-color) |
| Platform | Human Exonic Evidence Based Oligonucleotide (HEEBO) array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | Limma |
| Expression Unit | log2 ratio |
|
| HUMAN LIU 2017 FIBROBLAST MYOGENIC-REPROGRAMMING: Human Fibroblast Reprogrammed to Myogenic Lineage via MyoD1 |
Homo sapiens |
Fibroblast |
Reprogramming |
Genetic Perturbation |
0, 8, 16, 24, 32, 40 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN PANCREATIC DUCTAL ADENOCARCINOMA ASPC1: Explored the presence of the circadian transcriptome in PDA using patient-derived organoids (PDOs) and validated these findings by comparing PDA data from TCGA with non-cancerous healthy pancreas data from GTeX |
Homo sapiens |
Pancreatic Cancer Cells |
Pancreatic Cancer |
Cancer |
0, 4, 8, 12, 16, 20, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCh38 |
| Aligner | STAR |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| HUMAN PANCREATIC DUCTAL ADENOCARCINOMA CAPAN1: Explored the presence of the circadian transcriptome in PDA using patient-derived organoids (PDOs) and validated these findings by comparing PDA data from TCGA with non-cancerous healthy pancreas data from GTeX |
Homo sapiens |
Pancreatic Cancer Cells |
Pancreatic Cancer |
Cancer |
0, 4, 8, 12, 16, 20, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCh38 |
| Aligner | STAR |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| HUMAN PANCREATIC DUCTAL ADENOCARCINOMA MIAPACA2: Explored the presence of the circadian transcriptome in PDA using patient-derived organoids (PDOs) and validated these findings by comparing PDA data from TCGA with non-cancerous healthy pancreas data from GTeX |
Homo sapiens |
Pancreatic Cancer Cells |
Pancreatic Cancer |
Cancer |
0, 4, 8, 12, 16, 20, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCh38 |
| Aligner | STAR |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| HUMAN PANCREATIC DUCTAL ADENOCARCINOMA ORGANOID: Explored the presence of the circadian transcriptome in PDA using patient-derived organoids (PDOs) and validated these findings by comparing PDA data from TCGA with non-cancerous healthy pancreas data from GTeX |
Homo sapiens |
Pancreatic Cancer Organoid |
Pancreatic Cancer |
Cancer |
0, 4, 8, 12, 16, 20, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCh38 |
| Aligner | STAR |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| HUMAN PANCREATIC DUCTAL ADENOCARCINOMA PANC1: Explored the presence of the circadian transcriptome in PDA using patient-derived organoids (PDOs) and validated these findings by comparing PDA data from TCGA with non-cancerous healthy pancreas data from GTeX |
Homo sapiens |
Pancreatic Cancer Cells |
Pancreatic Cancer |
Cancer |
0, 4, 8, 12, 16, 20, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCh38 |
| Aligner | STAR |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| HUMAN SERUM AGING MAIN OLD: Luminescent clock reporter cells treated with human serum from young vs old donors (main experiment). |
Homo sapiens |
Foreskin |
Old |
Age |
32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCh38 |
| Aligner | STAR v2.7.10a |
| Quantifier | PORT v0.8.5 |
| Expression Unit | counts |
|
| HUMAN SERUM AGING MAIN YOUNG: Luminescent clock reporter cells treated with human serum from young vs old donors (main experiment). |
Homo sapiens |
Foreskin |
Young |
Age |
32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCh38 |
| Aligner | STAR v2.7.10a |
| Quantifier | PORT v0.8.5 |
| Expression Unit | counts |
|
| HUMAN SERUM AGING PRELIMINARY OLD: Preliminary pilot of serum factor aging effect: clock reporter cells exposed to young vs old human serum (small-scale). |
Homo sapiens |
Foreskin |
Old |
Age |
12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCh38 |
| Aligner | STAR v2.7.10a |
| Quantifier | PORT v0.8.5 |
| Expression Unit | counts |
|
| HUMAN SERUM AGING PRELIMINARY YOUNG: Preliminary pilot of serum factor aging effect: clock reporter cells exposed to young vs old human serum (small-scale). |
Homo sapiens |
Foreskin |
Young |
Age |
12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCh38 |
| Aligner | STAR v2.7.10a |
| Quantifier | PORT v0.8.5 |
| Expression Unit | counts |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-1: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-10: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-11: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-12: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-2: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-3: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-4: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-5: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-6: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-7: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-8: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMAN SERUM NA 2017 TBI-PATIENT-9: Patients with inconsistent chrono-types diagnosed with TBI |
Homo sapiens |
Blood |
Traumatic Brain Injury |
Injury |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| HUMANIZED FU 2024 HCC MOUSE CJ-HCC: Mouse tumor microenvironment in humanized hepatocellular carcinoma under control and chronic jet lag to examine circadian disruption in liver cancer. |
Mus musculus |
Humanized Hepatocellular Carcinoma |
Liver Cancer, Chronic Jet Lag |
Cancer, Light-Dark |
2, 10, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | hg38 and mm10 |
| Aligner | STAR |
| Quantifier | featureCounts (Subread) |
| Expression Unit | counts |
|
| HUMANIZED FU 2024 HCC MOUSE CONTROL-HCC: Mouse tumor microenvironment in humanized hepatocellular carcinoma under control and chronic jet lag to examine circadian disruption in liver cancer. |
Mus musculus |
Humanized Hepatocellular Carcinoma |
Liver Cancer |
Cancer, Light-Dark |
2, 10, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | hg38 and mm10 |
| Aligner | STAR |
| Quantifier | featureCounts (Subread) |
| Expression Unit | counts |
|
| HUMANIZED FU 2024 LIVER MOUSE CONTROL-LIVER: mouse host liver from humanized mice under control, NASH, and NASH with chronic jet lag to assess circadian effects on liver disease progression. |
Mus musculus |
Humanized Liver |
Control |
Disease, Light-Dark |
2, 10, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | hg38 and mm10 |
| Aligner | STAR |
| Quantifier | featureCounts (Subread) |
| Expression Unit | counts |
|
| HUMANIZED FU 2024 LIVER MOUSE NASH-CJ-LIVER: mouse host liver from humanized mice under control, NASH, and NASH with chronic jet lag to assess circadian effects on liver disease progression. |
Mus musculus |
Humanized Liver |
Nonalcoholic Steatohepatitis, Chronic Jet Lag |
Disease, Light-Dark |
2, 10, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | hg38 and mm10 |
| Aligner | STAR |
| Quantifier | featureCounts (Subread) |
| Expression Unit | counts |
|
| HUMANIZED FU 2024 LIVER MOUSE NASH-CONTROL-LIVER: mouse host liver from humanized mice under control, NASH, and NASH with chronic jet lag to assess circadian effects on liver disease progression. |
Mus musculus |
Humanized Liver |
Nonalcoholic Steatohepatitis |
Disease, Light-Dark |
2, 10, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | hg38 and mm10 |
| Aligner | STAR |
| Quantifier | featureCounts (Subread) |
| Expression Unit | counts |
|
| HUMANIZED LIVER HCV CONTROL: Circadian gene expression in human hepatocytes (in chimeric mouse liver) under control vs hepatitis C virus (HCV) infection. |
Mus musculus |
Liver |
Control |
Disease |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCh38 and GRCm38 |
| Aligner | HISAT2 |
| Quantifier | htseq-count |
| Expression Unit | counts |
|
| HUMANIZED LIVER HCV HCV: Circadian gene expression in human hepatocytes (in chimeric mouse liver) under control vs hepatitis C virus (HCV) infection. |
Mus musculus |
Liver |
Hepatitis C Virus Infection |
Disease |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCh38 and GRCm38 |
| Aligner | HISAT2 |
| Quantifier | htseq-count |
| Expression Unit | counts |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA CER HYPOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Cerebellum |
Intermittent Hypoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA CER NORMOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Cerebellum |
Normoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA HEART HYPOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Heart |
Intermittent Hypoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA HEART NORMOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Heart |
Normoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA KIDNEY HYPOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Kidney |
Intermittent Hypoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA KIDNEY NORMOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Kidney |
Normoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA LIVER HYPOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Liver |
Intermittent Hypoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA LIVER NORMOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Liver |
Normoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA LUNG HYPOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Lung |
Intermittent Hypoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA LUNG NORMOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Lung |
Normoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA MUSCLE HYPOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Muscle |
Intermittent Hypoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| HYPOXIA AND OBSTRUCTIVE SLEEP APNEA MUSCLE NORMOXIC: Effect of intermittent hypoxia on 24-hour expression in lung, heart, liver, kidney, muscle, and cerebellum. |
Mus musculus |
Muscle |
Normoxia |
Oxygen-Level |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Kallisto |
| Quantifier | Kallisto |
| Expression Unit | TPM |
|
| INSULIN AND LEPTIN OSCILLATIONS AD-LIB: Effect of timed-feeding (Ad-Lib or twice-a-night) on causing biphasic oscillations of circulating insulin and leptin. |
Mus musculus |
IWAT |
Ad Libitum |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | TopHat v1.3.3 |
| Quantifier | SeqMonk |
| Expression Unit | FPKM |
|
| INSULIN AND LEPTIN OSCILLATIONS TWICE-A-NIGHT: Effect of timed-feeding (Ad-Lib or twice-a-night) on causing biphasic oscillations of circulating insulin and leptin. |
Mus musculus |
IWAT |
Time-Restricted Feeding |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | TopHat v1.3.3 |
| Quantifier | SeqMonk |
| Expression Unit | FPKM |
|
| INTESTINAL EPITHELIUM BMAL1 KO: Intestinal-epithelium Bmal1 knockout linking the local clock to colonic inflammation. |
Mus musculus |
Colon |
Core Clock Knockout |
Knockout |
0, 6, 12, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | STAR |
| Quantifier | NA |
| Expression Unit | NA |
|
| KETONE BODIES AND KETOGENESIS FEMALE AD-LIBITUM: Sex difference in liver transcriptome of mice on caloric restriction (CR) diet versus ad libitum (AL) fed mice |
Mus musculus |
Liver |
Ad Libitum |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Bowtie |
| Quantifier | RSEM v1.2.3 |
| Expression Unit | TPM |
|
| KETONE BODIES AND KETOGENESIS FEMALE CALORIE-RESTRICTION: Sex difference in liver transcriptome of mice on caloric restriction (CR) diet versus ad libitum (AL) fed mice |
Mus musculus |
Liver |
Caloric Restriction |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Bowtie |
| Quantifier | RSEM v1.2.3 |
| Expression Unit | TPM |
|
| KETONE BODIES AND KETOGENESIS MALE AD-LIBITUM: Liver transcriptome of mice on caloric restriction (CR) diet versus ad libitum (AL) fed mice |
Mus musculus |
Liver |
Ad Libitum |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| KETONE BODIES AND KETOGENESIS MALE CALORIE-RESTRICTION: Liver transcriptome of mice on caloric restriction (CR) diet versus ad libitum (AL) fed mice |
Mus musculus |
Liver |
Caloric Restriction |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | FPKM |
|
| KIDNEY TUMOR CCRCC CONTROL: Circadian transcriptome profiling of kidney clear cell carcinoma (ccRCC) xenograft tumors treated with vehicle or HIF2a inhibitor PT2399. |
Homo sapiens |
CcRCC |
Kidney Cancer |
Cancer, Drug-Treatment |
0, 12 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Element AVITI |
| Molecule | total RNA |
| Genome Build | hg38 |
| Aligner | STAR (SeqMan NGen 17) |
| Quantifier | ArrayStar 17 |
| Expression Unit | counts |
|
| KIDNEY TUMOR CCRCC HIF2A-INHIBITOR: Circadian transcriptome profiling of kidney clear cell carcinoma (ccRCC) xenograft tumors treated with vehicle or HIF2a inhibitor PT2399. |
Homo sapiens |
CcRCC |
Kidney Cancer, Oncogenic Pathway Inhibition |
Cancer, Drug-Treatment |
0, 12 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Element AVITI |
| Molecule | total RNA |
| Genome Build | hg38 |
| Aligner | STAR (SeqMan NGen 17) |
| Quantifier | ArrayStar 17 |
| Expression Unit | counts |
|
| LIVER ZHANG BMAL1 FLOX: RNA-seq at CT2 and CT14 comparing wild-type, floxed controls, whole-body Bmal1 knockout, and hepatocyte-specific Bmal1 Knockout mice. |
Mus musculus |
Liver |
Control |
Knockout |
2, 14 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | HISAT2 v2.2.1 |
| Quantifier | StringTie v1.3.1 |
| Expression Unit | TPM |
|
| LIVER ZHANG BMAL1 GLOBAL-KO: RNA-seq at CT2 and CT14 comparing wild-type, floxed controls, whole-body Bmal1 knockout, and hepatocyte-specific Bmal1 Knockout mice. |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
2, 14 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | HISAT2 v2.2.1 |
| Quantifier | StringTie v1.3.1 |
| Expression Unit | TPM |
|
| LIVER ZHANG BMAL1 LIVER-KO: RNA-seq at CT2 and CT14 comparing wild-type, floxed controls, whole-body Bmal1 knockout, and hepatocyte-specific Bmal1 Knockout mice. |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
2, 14 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | HISAT2 v2.2.1 |
| Quantifier | StringTie v1.3.1 |
| Expression Unit | TPM |
|
| LIVER ZHANG BMAL1 WT: RNA-seq at CT2 and CT14 comparing wild-type, floxed controls, whole-body Bmal1 knockout, and hepatocyte-specific Bmal1 Knockout mice. |
Mus musculus |
Liver |
Control |
Knockout |
2, 14 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | HISAT2 v2.2.1 |
| Quantifier | StringTie v1.3.1 |
| Expression Unit | TPM |
|
| MATERNAL DIET AFFECT ON 16 WEEKS OFFSPRING HIGH-FAT: Maternal diet's impact on circadian rhythms of 4-week and 16-week offspring |
Mus musculus |
Liver |
High-Fat Diet |
Age, Diet |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | featureCounts v1.5.0-p3 |
| Expression Unit | counts |
|
| MATERNAL DIET AFFECT ON 16 WEEKS OFFSPRING NORMAL-CHOW: Maternal diet's impact on circadian rhythms of 4-week and 16-week offspring |
Mus musculus |
Liver |
Normal Chow |
Age, Diet |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | featureCounts v1.5.0-p3 |
| Expression Unit | counts |
|
| MATERNAL DIET AFFECT ON 4 WEEKS OFFSPRING HIGH-FAT: Maternal diet's impact on circadian rhythms of 4-week and 16-week offspring |
Mus musculus |
Liver |
High-Fat Diet |
Age, Diet |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | featureCounts v1.5.0-p3 |
| Expression Unit | counts |
|
| MATERNAL DIET AFFECT ON 4 WEEKS OFFSPRING NORMAL-CHOW: Maternal diet's impact on circadian rhythms of 4-week and 16-week offspring |
Mus musculus |
Liver |
Normal Chow |
Age, Diet |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm38 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | featureCounts v1.5.0-p3 |
| Expression Unit | counts |
|
| MICROGLIA LAWRENCE DIURNAL BBB BREAKDOWN CONTROL: Evening vs morning systemic lipopolysaccharide (LPS) highlighting microglia-dependent time-of-day differences in blood-brain barrier (BBB) disruption. |
Mus musculus |
Cortex |
Control |
Inflammation |
1, 13 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Illumina DRAGEN v4.0.3-8 |
| Quantifier | Illumina DRAGEN v4.0.3-8 |
| Expression Unit | CPM |
|
| MICROGLIA LAWRENCE DIURNAL BBB BREAKDOWN LPS: Evening vs morning systemic lipopolysaccharide (LPS) highlighting microglia-dependent time-of-day differences in blood-brain barrier (BBB) disruption. |
Mus musculus |
Cortex |
Lipopolysaccharide Treatment |
Inflammation |
1, 13 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Illumina DRAGEN v4.0.3-8 |
| Quantifier | Illumina DRAGEN v4.0.3-8 |
| Expression Unit | CPM |
|
| MONKEY LEMOS 2006 ADRENAL GLAND WT: Genome-wide expression profiling to determine whether the adrenal gland of rhesus monkeys shows temporal gene expression across a 24-h period. |
Macaca mulatta |
Adrenal Gland |
Control |
Control |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Human Genome U133A Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | signal intensity |
|
| MOSQUITO CHOI 2014 THORAX LIVERPOOL-INFECTED: Dual RNA-seq time course analysis of Brugia Malayi parasite and host mosquito. |
Aedes aegypti |
Thorax |
Brugia malayi Infection |
Disease |
24, 48, 72, 96 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOSQUITO CHOI 2014 THORAX RED-INFECTED: Dual RNA-seq time course analysis of Brugia Malayi parasite and host mosquito. |
Aedes aegypti |
Thorax |
Brugia malayi Infection |
Disease |
24, 48, 72, 96 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOSQUITO GOLTSEV 2009 EMBRYO DEVELOPMENT: Detailed temporal microarray assays of mosquito gene expression profiles revealed that the cuticular genes display biphasic expression during A. gambiae embryogenesi |
Anopheles gambiae |
Embryo |
Control |
Control |
2, 4, 6, 7, 8, 10, 13, 16, 19, 22, 25, 28, 31, 34, 37, 40, 43, 46 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Plasmodium/Anopheles Genome Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMAexpress |
| Expression Unit | RMA intensity |
|
| MOSQUITO KOUTSOS 2007 LARVA DEVELOPMENT: Genome-wide survey of mosquito gene expression profiles clustered temporally into developmental programs and spatially into adult tissue-specific patterns. |
Anopheles gambiae |
Larva |
Control |
Control |
48, 96, 144, 192, 240 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOSQUITO MARINOTTI 2006 MID GUT BLOOD-FED: Examining sex-differential changes in gene expression after blood meal. |
Anopheles gambiae |
Digestive |
Control |
Control |
3, 24, 48, 72, 96 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOSQUITO PTITSYN 2011 HEAD WT: Document circadian rhythms in multiple molecular pathways essential for growth, development, immune response, detoxification/pesticide resistance. |
Aedes aegypti |
Head |
Control |
Control |
72, 76, 80, 84, 88, 92 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOSQUITO RUND 2011 HEAD LIGHT-DARK: DNA microarray analysis of An. gambiae under light/dark cycle (LD) and constant dark (DD) conditions. |
Anopheles gambiae |
Head |
Control |
Light-Dark |
12, 16, 20, 24, 28, 32, 36, 40, 44, 48, 52, 56, 60 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Plasmodium/Anopheles Genome Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (GeneSpring GX11) |
| Expression Unit | GC-RMA intensity |
|
| MOSQUITOE CIRCADIAN DISRUPTION BY AECYC KO: Impact of disrupting the circadian clock through a Cycle gene knockout (KO) on the transcriptome of Aedes aegypti mosquitoes. |
Aedes aegypti |
Whole Body |
Core Clock Knockout |
Knockout |
7, 11, 15, 19 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | AaegL5_2 |
| Aligner | HISAT2 v2.2.1 |
| Quantifier | HTSeq v0.11.3 |
| Expression Unit | counts |
|
| MOSQUITOE CIRCADIAN DISRUPTION BY AECYC WT: Impact of disrupting the circadian clock through a Cycle gene knockout (KO) on the transcriptome of Aedes aegypti mosquitoes. |
Aedes aegypti |
Whole Body |
Control |
Knockout |
7, 11, 15, 19 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | AaegL5_2 |
| Aligner | HISAT2 v2.2.1 |
| Quantifier | HTSeq v0.11.3 |
| Expression Unit | counts |
|
| MOUSE ADRENAL GLAND 2018 WT: Mouse Adrenal Gland Transcriptome |
Mus musculus |
Adrenal Gland |
Control |
Control |
38, 42, 46, 50, 54, 58, 62, 66, 70, 74, 78, 82 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE ANDREWS 2010 MUSCLE WT: Skeletal muscle with Bmal1(-/-) condition |
Mus musculus |
Muscle |
Core Clock Knockout |
Knockout |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE BALLANCE 2015 SUPRACHIASMATIC NUCLEUS WT: Circadian RNA expression profile of the mammalian biological clock, the suprachiasmatic nucleus (SCN) in C57/BL6 mice, at 2-hour resolution using microarrays. |
Mus musculus |
Suprachiasmatic Nucleus |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA (Affymetrix Expression Console) |
| Expression Unit | RMA intensity |
|
| MOUSE BMAL1 EFFECTS ON AGING AND SURVIVAL KO: Bmal1 elimination and certain aging-related phenotypes without affecting lifespan or metabolism, suggesting a nuanced role of Bmal1 beyond its traditional circadian functions. |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR v2.4.0f1 |
| Quantifier | PORT (itmat Normalization) |
| Expression Unit | counts |
|
| MOUSE BMAL1 EFFECTS ON AGING AND SURVIVAL WT: Bmal1 elimination and certain aging-related phenotypes without affecting lifespan or metabolism, suggesting a nuanced role of Bmal1 beyond its traditional circadian functions. |
Mus musculus |
Liver |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR v2.4.0f1 |
| Quantifier | PORT (itmat Normalization) |
| Expression Unit | counts |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION CONTROL-27C: Circadian analysis of skin fibroblasts. Morning Skin Fibroblasts (MSFs) collected 12 hours apart under different temperatures with BMAL1 knockout. |
Mus musculus |
Skin |
27C |
Knockout, Light-Dark, Temperature |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION CONTROL-32C: Circadian analysis of skin fibroblasts. Morning Skin Fibroblasts (MSFs) collected 12 hours apart under different temperatures with BMAL1 knockout. |
Mus musculus |
Skin |
32C |
Knockout, Light-Dark, Temperature |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION CONTROL-37C: Circadian analysis of skin fibroblasts. Morning Skin Fibroblasts (MSFs) collected 12 hours apart under different temperatures with BMAL1 knockout. |
Mus musculus |
Skin |
37C |
Knockout, Light-Dark, Temperature |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION CONTROL-AM: Circadian analysis of skin fibroblasts. Morning Skin Fibroblasts (MSFs) collected 12 hours apart experimenting the knockout of BMAL1. |
Mus musculus |
Skin |
Control |
Knockout, Light-Dark, Temperature |
0, 3, 6, 9, 12, 15, 18, 21, 24, 27, 30, 33, 36, 39, 42, 45, 48 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION CONTROL-PM: Circadian analysis of skin fibroblasts. Morning Skin Fibroblasts (MSFs) collected 12 hours apart experimenting the knockout of BMAL1. |
Mus musculus |
Skin |
Control |
Knockout, Light-Dark, Temperature |
0, 3, 6, 9, 12, 15, 18, 21, 24, 27, 30, 33, 36, 39, 42, 45, 48 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION KO-27C: MSFs kept in different temperatures and experimenting the knockout of BMAL1. |
Mus musculus |
Skin |
Core Clock Knockout, 27C |
Knockout, Light-Dark, Temperature |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION KO-32C: MSFs kept in different temperatures and experimenting the knockout of BMAL1. |
Mus musculus |
Skin |
Core Clock Knockout, 32C |
Knockout, Light-Dark, Temperature |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION KO-37C: MSFs kept in different temperatures and experimenting the knockout of BMAL1. |
Mus musculus |
Skin |
Core Clock Knockout, 37C |
Knockout, Light-Dark, Temperature |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION KO-AM: Circadian analysis of skin fibroblasts. Morning Skin Fibroblasts (MSFs) collected 12 hours apart experimenting the knockout of BMAL1. |
Mus musculus |
Skin |
Core Clock Knockout |
Knockout, Light-Dark, Temperature |
0, 3, 6, 9, 12, 15, 18, 21, 24, 27, 30, 33, 36, 39, 42, 45, 48 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE BMAL1 TEMPERATURE PHASED COMPENSATION KO-PM: Circadian analysis of skin fibroblasts. Morning Skin Fibroblasts (MSFs) collected 12 hours apart experimenting the knockout of BMAL1. |
Mus musculus |
Skin |
Core Clock Knockout |
Knockout, Light-Dark, Temperature |
0, 3, 6, 9, 12, 15, 18, 21, 24, 27, 30, 33, 36, 39, 42, 45, 48 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | TopHat 2.1.0 |
| Quantifier | Cuffdiff |
| Expression Unit | FPKM |
|
| MOUSE CELL OGLCNAC INHIBITION CONTROL: Cultured human cells with normal vs dominant negative O-GlcNAcase (dnOGAh). |
Mus musculus |
Heart |
Control |
Genetic Perturbation |
4, 8, 12, 16, 20, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 (Gencode M26) |
| Aligner | STAR v2.7.10b |
| Quantifier | HTSeq-count v2.0.2 |
| Expression Unit | counts |
|
| MOUSE CELL OGLCNAC INHIBITION DNOGAH: Cultured human cells with normal vs dominant negative O-GlcNAcase (dnOGAh). |
Mus musculus |
Heart |
Metabolic Regulator Inhibition |
Genetic Perturbation |
4, 8, 12, 16, 20, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 (Gencode M26) |
| Aligner | STAR v2.7.10b |
| Quantifier | HTSeq-count v2.0.2 |
| Expression Unit | counts |
|
| MOUSE CHOROID PLEXUS AND SCN KO: Circadian regulation of cellular processes in mouse choroid plexus (ChP) and their dependence on signals from the clock in the suprachiasmatic nuclei (SCN). |
Mus musculus |
Choroid Plexus |
Core Clock Knockout |
Knockout |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE CHOROID PLEXUS AND SCN WT: Circadian regulation of cellular processes in mouse choroid plexus (ChP) and their dependence on signals from the clock in the suprachiasmatic nuclei (SCN). |
Mus musculus |
Choroid Plexus |
Control |
Knockout |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE COLON SALT MR BMAL1 BMAL1-KO: Circadian gene expression in mouse colon under different conditions: wild-type, Bmal1 Knockout, MR (mineralocorticoid receptor) Knockout, combined with high-salt vs low-salt feeding at day or night. |
Mus musculus |
Colon |
Core Clock Knockout |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE COLON SALT MR BMAL1 HIGHSALT-DAY: Circadian gene expression in mouse colon under different conditions: wild-type, Bmal1 Knockout, MR (mineralocorticoid receptor) Knockout, combined with high-salt vs low-salt feeding at day or night. |
Mus musculus |
Colon |
High-Salt Diet, Light-Phase Feeding |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE COLON SALT MR BMAL1 HIGHSALT-NIGHT: Circadian gene expression in mouse colon under different conditions: wild-type, Bmal1 Knockout, MR (mineralocorticoid receptor) Knockout, combined with high-salt vs low-salt feeding at day or night. |
Mus musculus |
Colon |
High-Salt Diet, Dark-Phase Feeding |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE COLON SALT MR BMAL1 LOWSALT-DAY: Circadian gene expression in mouse colon under different conditions: wild-type, Bmal1 Knockout, MR (mineralocorticoid receptor) Knockout, combined with high-salt vs low-salt feeding at day or night. |
Mus musculus |
Colon |
Low-Salt Diet, Light-Phase Feeding |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE COLON SALT MR BMAL1 LOWSALT-NIGHT: Circadian gene expression in mouse colon under different conditions: wild-type, Bmal1 Knockout, MR (mineralocorticoid receptor) Knockout, combined with high-salt vs low-salt feeding at day or night. |
Mus musculus |
Colon |
Low-Salt Diet, Dark-Phase Feeding |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE COLON SALT MR BMAL1 MR-KO: Circadian gene expression in mouse colon under different conditions: wild-type, Bmal1 Knockout, MR (mineralocorticoid receptor) Knockout, combined with high-salt vs low-salt feeding at day or night. |
Mus musculus |
Colon |
Nuclear Receptor Knockout |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE COLON SALT MR BMAL1 WT: Circadian gene expression in mouse colon under different conditions: wild-type, Bmal1 Knockout, MR (mineralocorticoid receptor) Knockout, combined with high-salt vs low-salt feeding at day or night. |
Mus musculus |
Colon |
Control |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE CORTEX SNORD116 WT FEMALE: Baseline circadian cortical transcriptomes of male and female wild-type mice under a 22-hour light-dark cycle. |
Mus musculus |
Left Prefrontal Cortex |
Female |
Sex |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | NA |
| Expression Unit | counts |
|
| MOUSE CORTEX SNORD116 WT MALE: Baseline circadian cortical transcriptomes of male and female wild-type mice under a 22-hour light-dark cycle. |
Mus musculus |
Left Prefrontal Cortex |
Male |
Sex |
0, 3, 6, 9, 12, 15, 18, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | NA |
| Expression Unit | counts |
|
| MOUSE CRY1 R263Q BRAIN FEMALE-MUTANT: Brain circadian gene profiles in CRY1 R263Q mutant vs WT mice by sex. |
Mus musculus |
Whole Brain |
Female, Core Clock Mutation |
Sex, Mutation |
12, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.7.10b |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| MOUSE CRY1 R263Q BRAIN FEMALE-WILD-TYPE: Brain circadian gene profiles in CRY1 R263Q mutant vs WT mice by sex. |
Mus musculus |
Whole Brain |
Female, Control |
Sex, Mutation |
12, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.7.10b |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| MOUSE CRY1 R263Q BRAIN MALE-MUTANT: Brain circadian gene profiles in CRY1 R263Q mutant vs WT mice by sex. |
Mus musculus |
Whole Brain |
Male, Core Clock Mutation |
Sex, Mutation |
12, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.7.10b |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| MOUSE CRY1 R263Q BRAIN MALE-WILD-TYPE: Brain circadian gene profiles in CRY1 R263Q mutant vs WT mice by sex. |
Mus musculus |
Whole Brain |
Male, Control |
Sex, Mutation |
12, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.7.10b |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| MOUSE CRY1 R263Q LIVER FEMALE-MUTANT: Liver circadian transcriptomes in CRY1^R263Q^ mutant vs WT by sex. |
Mus musculus |
Liver |
Female, Core Clock Mutation |
Sex, Mutation |
12, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.7.10b |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| MOUSE CRY1 R263Q LIVER FEMALE-WILD-TYPE: Liver circadian transcriptomes in CRY1^R263Q^ mutant vs WT by sex. |
Mus musculus |
Liver |
Female, Control |
Sex, Mutation |
12, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.7.10b |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| MOUSE CRY1 R263Q LIVER MALE-MUTANT: Liver circadian transcriptomes in CRY1^R263Q^ mutant vs WT by sex. |
Mus musculus |
Liver |
Male, Core Clock Mutation |
Sex, Mutation |
12, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.7.10b |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| MOUSE CRY1 R263Q LIVER MALE-WILD-TYPE: Liver circadian transcriptomes in CRY1^R263Q^ mutant vs WT by sex. |
Mus musculus |
Liver |
Male, Control |
Sex, Mutation |
12, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.7.10b |
| Quantifier | RSEM v1.3.1 |
| Expression Unit | TPM |
|
| MOUSE DAN 2020 FETAL KIDNEY: Examination of RNA-seq time series of developing fetal mouse kidnes from embryonic ages E18 to E20.5 (inclusive) |
Mus musculus |
Kidney |
Control |
Control |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44, 48 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR 2.5.2b |
| Quantifier | featureCounts v1.5.0-p3 |
| Expression Unit | counts |
|
| MOUSE ECKEL MAHAN 2013 LIVER HIGH-FAT: Investigating widespread remodeling of the liver clock generated by high-fat diet. |
Mus musculus |
Liver |
High-Fat Diet |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE ECKEL MAHAN 2013 LIVER NORMAL-CHOW: Investigating widespread remodeling of the liver clock generated by high-fat diet. |
Mus musculus |
Liver |
Normal Chow |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE ECKEL MAHAN 2022 LIVER KO: Inducible insulin receptor knockout mice to look at hepatic gene expression around the circadian clock |
Mus musculus |
Liver |
Metabolic-Sensing Knockout |
Knockout |
0, 2, 4, 8, 12, 16, 20, 24 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE ECKEL MAHAN 2022 LIVER WT: Inducible insulin receptor knockout mice to look at hepatic gene expression around the circadian clock |
Mus musculus |
Liver |
Control |
Knockout |
0, 2, 4, 8, 12, 16, 20, 24 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE ESSER HEART BMAL1 KO-FEMALE: Cardiomyocyte-specific Bmal1 knockout vs wild-type in male and female mouse hearts. |
Mus musculus |
Ventricles |
Core Clock Knockout, Female |
Knockout, Sex |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE ESSER HEART BMAL1 KO-MALE: Cardiomyocyte-specific Bmal1 knockout vs wild-type in male and female mouse hearts. |
Mus musculus |
Ventricles |
Core Clock Knockout, Male |
Knockout, Sex |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE ESSER HEART BMAL1 WT-FEMALE: Cardiomyocyte-specific Bmal1 knockout vs wild-type in male and female mouse hearts. |
Mus musculus |
Ventricles |
Control, Female |
Knockout, Sex |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE ESSER HEART BMAL1 WT-MALE: Cardiomyocyte-specific Bmal1 knockout vs wild-type in male and female mouse hearts. |
Mus musculus |
Ventricles |
Control, Male |
Knockout, Sex |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE FIBROBLAST UNRUH EXON 2024 BMAL1-KNOCKDOWN: Exon-level RNA profiling across a circadian cycle in mouse fibroblasts with Bmal1 knockdown. |
Mus musculus |
Fibroblast |
Knockdown |
Genetic Perturbation |
24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | 4sU-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | other |
| Genome Build | mm10 |
| Aligner | STAR v2.7.7a |
| Quantifier | HOMER v4.11.1 |
| Expression Unit | RPKM |
|
| MOUSE FIBROBLAST UNRUH EXON 2024 CONTROL: Exon-level RNA profiling across a circadian cycle in mouse fibroblasts with Bmal1 knockdown. |
Mus musculus |
Fibroblast |
Control |
Genetic Perturbation |
24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | 4sU-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | other |
| Genome Build | mm10 |
| Aligner | STAR v2.7.7a |
| Quantifier | HOMER v4.11.1 |
| Expression Unit | RPKM |
|
| MOUSE FIBROBLAST UNRUH INTRON 2024 BMAL1-KNOCKDOWN: Intron-level RNA profiling across a circadian cycle in mouse fibroblasts with Bmal1 knockdown. |
Mus musculus |
Fibroblast |
Knockdown |
Genetic Perturbation |
24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | 4sU-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | other |
| Genome Build | mm10 |
| Aligner | STAR v2.7.7a |
| Quantifier | HOMER v4.11.1 |
| Expression Unit | RPKM |
|
| MOUSE FIBROBLAST UNRUH INTRON 2024 CONTROL: Intron-level RNA profiling across a circadian cycle in mouse fibroblasts with Bmal1 knockdown. |
Mus musculus |
Fibroblast |
Control |
Genetic Perturbation |
24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46 |
Publication             |
View
| Assay Type | 4sU-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | other |
| Genome Build | mm10 |
| Aligner | STAR v2.7.7a |
| Quantifier | HOMER v4.11.1 |
| Expression Unit | RPKM |
|
| MOUSE GAUCHER 2018 LIVER CHRONIC-ETOH: Liver RNASeq chronically treated with ethanol |
Mus musculus |
Liver |
Alcohol Exposure |
Drug-Treatment |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GAUCHER 2018 LIVER WT: Liver RNASeq chronically treated with ethanol |
Mus musculus |
Liver |
Control |
Drug-Treatment |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GAUCHER 2022 HEART HYPOXIC: Normoxic and Hypoxic mice, experiments done in the liver, kidney, and heart |
Mus musculus |
Heart |
Normoxia |
Oxygen-Level |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GAUCHER 2022 HEART NORMOXIC: Normoxic and Hypoxic mice, experiments done in the liver, kidney, and heart |
Mus musculus |
Heart |
Intermittent Hypoxia |
Oxygen-Level |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GAUCHER 2022 KIDNEY HYPOXIC: Normoxic and Hypoxic mice, experiments done in the liver, kidney, and heart |
Mus musculus |
Kidney |
Normoxia |
Oxygen-Level |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GAUCHER 2022 KIDNEY NORMOXIC: Normoxic and Hypoxic mice, experiments done in the liver, kidney, and heart |
Mus musculus |
Kidney |
Intermittent Hypoxia |
Oxygen-Level |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GAUCHER 2022 LIVER HYPOXIC: Normoxic and Hypoxic mice, experiments done in the liver, kidney, and heart |
Mus musculus |
Liver |
Normoxia |
Oxygen-Level |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GAUCHER 2022 LIVER NORMOXIC: Normoxic and Hypoxic mice, experiments done in the liver, kidney, and heart |
Mus musculus |
Liver |
Intermittent Hypoxia |
Oxygen-Level |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GERSTNER 2016 CEREBRAL CORTEX WT: Comprehensive analysis of the effects of sleep deprivation and subsequent recovery sleep on gene expression in the mouse cortex. |
Mus musculus |
Cortex |
Control |
Sleep |
0, 6, 7, 8, 11 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 2.1 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | RMA (Affymetrix Power Tools) |
| Expression Unit | RMA intensity |
|
| MOUSE GRECO 2018 FIBROBLAST AHCY-KO: RNA-seq of mouse embryonic fibroblasts and suprachiasmatic nucleus samples comparing AHCY knockout, DZnep-mediated AHCY inhibition, and control conditions to examine how AHCY-dependent chromatin remodeling regulates circadian gene expression. |
Mus musculus |
Embryonic Fibroblasts |
Epigenetic-Regulator Knockout |
Knockout, Drug-Treatment |
12, 16, 20, 24, 28, 32 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GRECO 2018 FIBROBLAST WT: RNA-seq of mouse embryonic fibroblasts and suprachiasmatic nucleus samples comparing AHCY knockout, DZnep-mediated AHCY inhibition, and control conditions to examine how AHCY-dependent chromatin remodeling regulates circadian gene expression. |
Mus musculus |
Embryonic Fibroblasts |
Control |
Knockout, Drug-Treatment |
12, 16, 20, 24, 28, 32 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GRECO 2018 MEF DMSO: RNA-seq of mouse embryonic fibroblasts and suprachiasmatic nucleus samples comparing AHCY knockout, DZnep-mediated AHCY inhibition, and control conditions to examine how AHCY-dependent chromatin remodeling regulates circadian gene expression. |
Mus musculus |
Embryonic Fibroblasts |
Control |
Knockout, Drug-Treatment |
12, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GRECO 2018 MEF DZNEP: RNA-seq of mouse embryonic fibroblasts and suprachiasmatic nucleus samples comparing AHCY knockout, DZnep-mediated AHCY inhibition, and control conditions to examine how AHCY-dependent chromatin remodeling regulates circadian gene expression. |
Mus musculus |
Embryonic Fibroblasts |
Epigenetic-Regulator Inhibition |
Knockout, Drug-Treatment |
12, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GRECO 2018 SCN SALINE DZNEP: RNA-seq of mouse embryonic fibroblasts and suprachiasmatic nucleus samples comparing AHCY knockout, DZnep-mediated AHCY inhibition, and control conditions to examine how AHCY-dependent chromatin remodeling regulates circadian gene expression. |
Mus musculus |
Suprachiasmatic Nucleus |
Epigenetic-Regulator Inhibition |
Knockout, Drug-Treatment |
3, 9, 15, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE GRECO 2018 SCN SALINE WT: RNA-seq of mouse embryonic fibroblasts and suprachiasmatic nucleus samples comparing AHCY knockout, DZnep-mediated AHCY inhibition, and control conditions to examine how AHCY-dependent chromatin remodeling regulates circadian gene expression. |
Mus musculus |
Suprachiasmatic Nucleus |
Control |
Knockout, Drug-Treatment |
3, 9, 15, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE HEART CARDIOGR KO: Gene expression in mouse hearts lacking cardiomyocyte glucocorticoid receptor (GR) vs controls. |
Mus musculus |
Heart |
Nuclear Receptor Knockout |
Knockout |
0, 12 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.5.1 |
| Quantifier | featureCounts (Subread v1.5.1) |
| Expression Unit | counts |
|
| MOUSE HEART CARDIOGR WT: Gene expression in mouse hearts lacking cardiomyocyte glucocorticoid receptor (GR) vs controls. |
Mus musculus |
Heart |
Control |
Knockout |
0, 12 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.5.1 |
| Quantifier | featureCounts (Subread v1.5.1) |
| Expression Unit | counts |
|
| MOUSE HEPACTIC ALBCRE HYPOXIA: Transcriptional response of HIF1a, and Bmal1 knockout in hypoxia and normoxia |
Mus musculus |
Liver |
Acute Hypoxia |
Knockout, Oxygen-Level |
4, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.4.2a |
| Quantifier | HTSeq-count |
| Expression Unit | counts |
|
| MOUSE HEPACTIC ALBCRE NORMOXIA: Transcriptional response of HIF1a, and Bmal1 knockout in hypoxia and normoxia |
Mus musculus |
Liver |
Normoxia |
Knockout, Oxygen-Level |
4, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.4.2a |
| Quantifier | HTSeq-count |
| Expression Unit | counts |
|
| MOUSE HEPACTIC BMAL1 HYPOXIA: Transcriptional response of HIF1a, and Bmal1 knockout in hypoxia and normoxia |
Mus musculus |
Liver |
Core Clock Knockout, Acute Hypoxia |
Knockout, Oxygen-Level |
4, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.4.2a |
| Quantifier | HTSeq-count |
| Expression Unit | counts |
|
| MOUSE HEPACTIC BMAL1 NORMOXIA: Transcriptional response of HIF1a, and Bmal1 knockout in hypoxia and normoxia |
Mus musculus |
Liver |
Core Clock Knockout, Normoxia |
Knockout, Oxygen-Level |
4, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.4.2a |
| Quantifier | HTSeq-count |
| Expression Unit | counts |
|
| MOUSE HEPACTIC HIF1A HYPOXIA: Transcriptional response of HIF1a, and Bmal1 knockout in hypoxia and normoxia |
Mus musculus |
Liver |
Hypoxia-Response Knockout, Acute Hypoxia |
Knockout, Oxygen-Level |
4, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.4.2a |
| Quantifier | HTSeq-count |
| Expression Unit | counts |
|
| MOUSE HEPACTIC HIF1A NORMOXIA: Transcriptional response of HIF1a, and Bmal1 knockout in hypoxia and normoxia |
Mus musculus |
Liver |
Hypoxia-Response Knockout, Normoxia |
Knockout, Oxygen-Level |
4, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | NextSeq 550 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.4.2a |
| Quantifier | HTSeq-count |
| Expression Unit | counts |
|
| MOUSE HEPATOCYTE AND FEEDING KO AD-LIBITUM: Circadian analysis of whole liver from REV-ERBa/b knockout mice under ad-libitum feeding and reverse-phase feeding schedules. |
Mus musculus |
Liver |
Core Clock Knockout, Ad Libitum |
Knockout, Diet |
1, 4, 7, 10, 13, 16, 19, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE HEPATOCYTE AND FEEDING KO REVERSE-PHASE-FEEDING: Circadian analysis of whole liver from REV-ERBa/b knockout mice under ad-libitum feeding and reverse-phase feeding schedules. |
Mus musculus |
Liver |
Core Clock Knockout, Reverse-Phase Feeding |
Knockout, Diet |
1, 4, 7, 10, 13, 16, 19, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE HEPATOCYTE AND FEEDING WT AD-LIBITUM: Circadian analysis of whole liver from wild-type mice under ad-libitum feeding and reverse-phase feeding schedules. |
Mus musculus |
Liver |
Ad Libitum |
Knockout, Diet |
1, 4, 7, 10, 13, 16, 19, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE HEPATOCYTE AND FEEDING WT REVERSE-PHASE-FEEDING: Circadian analysis of whole liver from wild-type mice under ad-libitum feeding and reverse-phase feeding schedules. |
Mus musculus |
Liver |
Reverse-Phase Feeding |
Knockout, Diet |
1, 4, 7, 10, 13, 16, 19, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE HEPATOCYTE IN ENDOTHELIAL CELLS KO: Circadian analysis of isolated liver Kupffer cells and endothelial cells in wild-type and REV-ERBa/b knockout mice. |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
4, 10, 16, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE HEPATOCYTE IN ENDOTHELIAL CELLS WT: Circadian analysis of isolated liver Kupffer cells and endothelial cells in wild-type and REV-ERBa/b knockout mice. |
Mus musculus |
Liver |
Control |
Knockout |
4, 10, 16, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE HEPATOCYTE IN KUPFFER CELLS KO: Circadian analysis of isolated liver Kupffer cells and endothelial cells in wild-type and REV-ERBa/b knockout mice. |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
4, 10, 16, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE HEPATOCYTE IN KUPFFER CELLS WT: Circadian analysis of isolated liver Kupffer cells and endothelial cells in wild-type and REV-ERBa/b knockout mice. |
Mus musculus |
Liver |
Control |
Knockout |
4, 10, 16, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm9 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE HIGH FAT DIET KIDNEY 2021 HFD: RNA-Seq circadian analyses of normal chow (NC) vs high-fat diet (HFD) in mouse kidney. |
Mus musculus |
Kidney |
High-Fat Diet |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE HIGH FAT DIET KIDNEY 2021 NC: RNA-Seq circadian analyses of normal chow (NC) vs high-fat diet (HFD) in mouse kidney. |
Mus musculus |
Kidney |
Normal Chow |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE HIGH FAT DIET KIDNEY 2025 HFD: Circadian transcriptomic analysis of mouse kidney under normal chow vs high-fat diet (HFD). |
Mus musculus |
Kidney |
High-Fat Diet |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Bowtie (Tuxedo) |
| Quantifier | Cuffnorm (Tuxedo) |
| Expression Unit | FPKM |
|
| MOUSE HIGH FAT DIET KIDNEY 2025 NORMAL-CHOW: Circadian transcriptomic analysis of mouse kidney under normal chow vs high-fat diet (HFD). |
Mus musculus |
Kidney |
Normal Chow |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Bowtie (Tuxedo) |
| Quantifier | Cuffnorm (Tuxedo) |
| Expression Unit | FPKM |
|
| MOUSE HOOGERWERF 2008 DISTAL COLON WT: Microarray transcriptional profiling of mRNA expression in the mouse distal colon. |
Mus musculus |
Distal Colon |
Control |
Control |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE INFLUENZA IL10 FEMALE-AB: Mice were treated with an anti-IL-10 receptor blocking antibody (Ab) or an isotype-matched IgG control before influenza infection. |
Mus musculus |
Lung |
Influenza Infection, IL-10 Receptor Blockade, Female |
Disease, Immune Perturbation, Sex |
11, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Salmon v1.9.0 |
| Quantifier | Salmon v1.9.0 |
| Expression Unit | TPM |
|
| MOUSE INFLUENZA IL10 FEMALE-IGG: Mice were treated with an anti-IL-10 receptor blocking antibody (Ab) or an isotype-matched IgG control before influenza infection. |
Mus musculus |
Lung |
Influenza Infection, Female |
Disease, Immune Perturbation, Sex |
11, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Salmon v1.9.0 |
| Quantifier | Salmon v1.9.0 |
| Expression Unit | TPM |
|
| MOUSE INFLUENZA IL10 MALE-AB: Mice were treated with an anti-IL-10 receptor blocking antibody (Ab) or an isotype-matched IgG control before influenza infection. |
Mus musculus |
Lung |
Influenza Infection, IL-10 Receptor Blockade, Male |
Disease, Immune Perturbation, Sex |
11, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Salmon v1.9.0 |
| Quantifier | Salmon v1.9.0 |
| Expression Unit | TPM |
|
| MOUSE INFLUENZA IL10 MALE-IGG: Mice were treated with an anti-IL-10 receptor blocking antibody (Ab) or an isotype-matched IgG control before influenza infection. |
Mus musculus |
Lung |
Influenza Infection, Male |
Disease, Immune Perturbation, Sex |
11, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Salmon v1.9.0 |
| Quantifier | Salmon v1.9.0 |
| Expression Unit | TPM |
|
| MOUSE KELLER 2009 MACROPHAGES DARK: Macrophages in all dark. |
Mus musculus |
Cells |
Constant Darkness |
Light-Dark |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE KIDNEY VS LIVER CIRCADIAN 2024 KIDNEY: Baseline circadian transcriptome of mouse kidney, highlighting tissue-specific circadian genes linked to aging and longevity. |
Mus musculus |
Kidney |
Control |
Control |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE KIDNEY VS LIVER CIRCADIAN 2024 LIVER: Baseline circadian transcriptome of mouse liver, highlighting tissue-specific circadian genes linked to aging and longevity. |
Mus musculus |
Liver |
Control |
Control |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE KINOUCHI 2018 LIVER FASTING: Liver RNASeq in a fasting condition |
Mus musculus |
Liver |
24-hr Fasting |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | ELAND v2e |
| Quantifier | in-house tools |
| Expression Unit | RPKM |
|
| MOUSE KINOUCHI 2018 LIVER NORMAL-CHOW: Liver RNASeq in a fasting condition |
Mus musculus |
Liver |
Normal Chow |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | ELAND v2e |
| Quantifier | in-house tools |
| Expression Unit | RPKM |
|
| MOUSE KINOUCHI 2018 MUSCLE FASTING: Muscle RNASeq in a fasting condition |
Mus musculus |
Gastrocnemius |
24-hr Fasting |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | ELAND v2e |
| Quantifier | in-house tools |
| Expression Unit | RPKM |
|
| MOUSE KINOUCHI 2018 MUSCLE NORMAL-CHOW: Muscle RNASeq in a fasting condition |
Mus musculus |
Gastrocnemius |
Normal Chow |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | ELAND v2e |
| Quantifier | in-house tools |
| Expression Unit | RPKM |
|
| MOUSE KONRAD 2017 VENTRAL HIPPOCAMPUS TEMPORAL-LOBE-EPILEPTIC: Hippocampus RNASeq in an experiment comparing epileptic vs normal brain. |
Mus musculus |
Ventral Hippocampus |
Epilepsy |
Disease |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE KONRAD 2017 VENTRAL HIPPOCAMPUS WT: Hippocampus RNASeq in an experiment comparing epileptic vs normal brain. |
Mus musculus |
Ventral Hippocampus |
Control |
Disease |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE LAZAR ARCUATE NUCLEUS CONTROL: Circadian gene expression in the hypothalamic arcuate nucleus of control vs liver-clock disrupted (Rev-Erba/beta double knockout in hepatocytes, HepDKO) mice. The loss of the liver clock sends altered signals via vagal afferents, leading to reprogramming of rhythmic transcripts in the arcuate nucleus that regulate feeding behavior and metabolism. |
Mus musculus |
Arcuate Nucleus |
Control |
Knockout |
4, 10, 16, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10b |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| MOUSE LAZAR ARCUATE NUCLEUS HEPDKO: Circadian gene expression in the hypothalamic arcuate nucleus of control vs liver-clock disrupted (Rev-Erba/beta double knockout in hepatocytes, HepDKO) mice. The loss of the liver clock sends altered signals via vagal afferents, leading to reprogramming of rhythmic transcripts in the arcuate nucleus that regulate feeding behavior and metabolism. |
Mus musculus |
Arcuate Nucleus |
Core Clock Knockout |
Knockout |
4, 10, 16, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10b |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| MOUSE LAZAR NODOSE GANGLION CONTROL: Circadian transcriptomic analysis of the vagal nodose ganglion in control vs HepDKO mice. Eliminating the liver's clock (Rev-Erba/beta in hepatocytes) alters rhythmic gene expression in vagal sensory neurons, suggesting that liver clock disruption feeds back to the peripheral nervous system and modulates neuroimmune and metabolic signaling rhythms. |
Mus musculus |
Nodose Ganglion |
Control |
Knockout |
4, 10, 16, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10b |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| MOUSE LAZAR NODOSE GANGLION HEPDKO: Circadian transcriptomic analysis of the vagal nodose ganglion in control vs HepDKO mice. Eliminating the liver's clock (Rev-Erba/beta in hepatocytes) alters rhythmic gene expression in vagal sensory neurons, suggesting that liver clock disruption feeds back to the peripheral nervous system and modulates neuroimmune and metabolic signaling rhythms. |
Mus musculus |
Nodose Ganglion |
Core Clock Knockout |
Knockout |
4, 10, 16, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10b |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| MOUSE LIGHT PHASESHIFT NORMAL: Circadian gene expression following an abrupt 8-hour advance of the light/dark cycle vs normal LD controls. |
Mus musculus |
Liver |
Control |
Light-Dark |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| MOUSE LIGHT PHASESHIFT PHASE-SHIFT: Circadian gene expression following an abrupt 8-hour advance of the light/dark cycle vs normal LD controls. |
Mus musculus |
Liver |
Phase Shift |
Light-Dark |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| MOUSE LIVER ESRRG DIET STRAINS HFD-129S1: Integrated circadian study of diet, strain, and genotype in mouse liver: C57BL/6J and 129S1/SvImJ mice fed high-fat diet (HFD) or normal chow (NC), with hepatocyte-specific Esrrg knockout and Esrrg-GFP reporter/control groups. |
Mus musculus |
Liver |
High-Fat Diet |
Knockout, Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE LIVER ESRRG DIET STRAINS HFD-129S1-ESRRG-GFP: Integrated circadian study of diet, strain, and genotype in mouse liver: C57BL/6J and 129S1/SvImJ mice fed high-fat diet (HFD) or normal chow (NC), with hepatocyte-specific Esrrg knockout and Esrrg-GFP reporter/control groups. |
Mus musculus |
Liver |
High-Fat Diet |
Knockout, Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE LIVER ESRRG DIET STRAINS HFD-129S1-ESRRGL-KO: Integrated circadian study of diet, strain, and genotype in mouse liver: C57BL/6J and 129S1/SvImJ mice fed high-fat diet (HFD) or normal chow (NC), with hepatocyte-specific Esrrg knockout and Esrrg-GFP reporter/control groups. |
Mus musculus |
Liver |
High-Fat Diet, Nuclear Receptor Knockout |
Knockout, Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE LIVER ESRRG DIET STRAINS HFD-C57BL: Integrated circadian study of diet, strain, and genotype in mouse liver: C57BL/6J and 129S1/SvImJ mice fed high-fat diet (HFD) or normal chow (NC), with hepatocyte-specific Esrrg knockout and Esrrg-GFP reporter/control groups. |
Mus musculus |
Liver |
High-Fat Diet |
Knockout, Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE LIVER ESRRG DIET STRAINS HFD-C57BL-ESRRGL-KO: Integrated circadian study of diet, strain, and genotype in mouse liver: C57BL/6J and 129S1/SvImJ mice fed high-fat diet (HFD) or normal chow (NC), with hepatocyte-specific Esrrg knockout and Esrrg-GFP reporter/control groups. |
Mus musculus |
Liver |
High-Fat Diet, Nuclear Receptor Knockout |
Knockout, Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE LIVER ESRRG DIET STRAINS NC-129S1: Integrated circadian study of diet, strain, and genotype in mouse liver: C57BL/6J and 129S1/SvImJ mice fed high-fat diet (HFD) or normal chow (NC), with hepatocyte-specific Esrrg knockout and Esrrg-GFP reporter/control groups. |
Mus musculus |
Liver |
Normal Chow |
Knockout, Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE LIVER ESRRG DIET STRAINS NC-C57BL: Integrated circadian study of diet, strain, and genotype in mouse liver: C57BL/6J and 129S1/SvImJ mice fed high-fat diet (HFD) or normal chow (NC), with hepatocyte-specific Esrrg knockout and Esrrg-GFP reporter/control groups. |
Mus musculus |
Liver |
Normal Chow |
Knockout, Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | Homer |
| Expression Unit | counts |
|
| MOUSE LIVER GCN2 LEUDEPRIVATION KO-CONTROL: Time-series liver transcriptomes from WT vs GCN2-Knockout mice under control vs leucine-deprived diets. |
Mus musculus |
Liver |
Metabolic-Sensing Knockout |
Knockout, Diet |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.5.2b |
| Quantifier | featureCounts (Subread v1.5.2) |
| Expression Unit | counts |
|
| MOUSE LIVER GCN2 LEUDEPRIVATION KO-LEUD: Time-series liver transcriptomes from WT vs GCN2-Knockout mice under control vs leucine-deprived diets. |
Mus musculus |
Liver |
Metabolic-Sensing Knockout, Leucine-Devoid Diet |
Knockout, Diet |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.5.2b |
| Quantifier | featureCounts (Subread v1.5.2) |
| Expression Unit | counts |
|
| MOUSE LIVER GCN2 LEUDEPRIVATION WT-CONTROL: Time-series liver transcriptomes from WT vs GCN2-Knockout mice under control vs leucine-deprived diets. |
Mus musculus |
Liver |
Control |
Knockout, Diet |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.5.2b |
| Quantifier | featureCounts (Subread v1.5.2) |
| Expression Unit | counts |
|
| MOUSE LIVER GCN2 LEUDEPRIVATION WT-LEUD: Time-series liver transcriptomes from WT vs GCN2-Knockout mice under control vs leucine-deprived diets. |
Mus musculus |
Liver |
Leucine-Devoid Diet |
Knockout, Diet |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCm39 |
| Aligner | STAR v2.5.2b |
| Quantifier | featureCounts (Subread v1.5.2) |
| Expression Unit | counts |
|
| MOUSE LIVER MASRI 2014 SIRT1-KO: Genomic partitioning by two independent sirtuins contributes to differential control of circadian metabolism. |
Mus musculus |
Liver |
Metabolic-Sensing Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 2.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE LIVER MASRI 2014 SIRT1-WT: Genomic partitioning by two independent sirtuins contributes to differential control of circadian metabolism. |
Mus musculus |
Liver |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 2.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE LIVER MASRI 2014 SIRT6-KO: Genomic partitioning by two independent sirtuins contributes to differential control of circadian metabolism. |
Mus musculus |
Liver |
Metabolic-Sensing Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 2.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE LIVER MASRI 2014 SIRT6-WT: Genomic partitioning by two independent sirtuins contributes to differential control of circadian metabolism. |
Mus musculus |
Liver |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 2.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE LIVER MUSCLE DUB RE LIVER LMRE: Circadian transcriptomic analysis of mouse liver and muscle under double-knockout and tissue-specific rescue (re-expression) conditions. |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE LIVER MUSCLE DUB RE LIVER WT DUB: Circadian transcriptomic analysis of mouse liver and muscle under double-knockout and tissue-specific rescue (re-expression) conditions. |
Mus musculus |
Liver |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE LIVER MUSCLE DUB RE MUS LMRE: Circadian transcriptomic analysis of mouse liver and muscle under double-knockout and tissue-specific rescue (re-expression) conditions. |
Mus musculus |
Muscle |
Core Clock Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE LIVER MUSCLE DUB RE MUS WT DUB: Circadian transcriptomic analysis of mouse liver and muscle under double-knockout and tissue-specific rescue (re-expression) conditions. |
Mus musculus |
Muscle |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE LIVER PGR 2018 CONTROL: Liver RNA-seq from control and Policaptil Gel Retard (PGR)-treated mice. |
Mus musculus |
Liver |
Control |
Drug-Treatment |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE LIVER PGR 2018 TREATMENT: Liver RNA-seq from control and Policaptil Gel Retard (PGR)-treated mice. |
Mus musculus |
Liver |
Epigenetic-Regulator Inhibition |
Drug-Treatment |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE LIVER SCN RESCUE KO: Circadian transcriptomic analysis of mouse liver under wild-type, Bmal1 knockout, and SCN-specific rescue (re-expression) conditions. |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE LIVER SCN RESCUE RE: Circadian transcriptomic analysis of mouse liver under wild-type, Bmal1 knockout, and SCN-specific rescue (re-expression) conditions. |
Mus musculus |
Liver |
Rescue |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE LIVER SCN RESCUE WT: Circadian transcriptomic analysis of mouse liver under wild-type, Bmal1 knockout, and SCN-specific rescue (re-expression) conditions. |
Mus musculus |
Liver |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE LIVER THRBETA KO: Diurnal liver gene expression in THRbeta-Knockout vs WT mice. |
Mus musculus |
Liver |
Nuclear Receptor Knockout |
Knockout |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE LIVER THRBETA WT: Diurnal liver gene expression in THRbeta-Knockout vs WT mice. |
Mus musculus |
Liver |
Control |
Knockout |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE LIVER TIMED FASTING AD-LIB: Liver circadian transcriptomes under different feeding regimens: ad libitum feeding, daily caloric restriction with fasting period. |
Mus musculus |
Liver |
Ad Libitum |
Diet |
0, 6, 14, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Bowtie |
| Quantifier | RSEM v1.2.3 |
| Expression Unit | TPM |
|
| MOUSE LIVER TIMED FASTING CALORIE-RESTRICTION: Liver circadian transcriptomes under different feeding regimens: ad libitum feeding, daily caloric restriction with fasting period. |
Mus musculus |
Liver |
Caloric Restriction |
Diet |
0, 6, 14, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Bowtie |
| Quantifier | RSEM v1.2.3 |
| Expression Unit | TPM |
|
| MOUSE LIVER TIMED FASTING FASTING: Liver circadian transcriptomes under different feeding regimens: ad libitum feeding, daily caloric restriction with fasting period. |
Mus musculus |
Liver |
Unanticipated Fasting |
Diet |
0, 6, 14, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | Bowtie |
| Quantifier | RSEM v1.2.3 |
| Expression Unit | TPM |
|
| MOUSE LUNG AGE DEPENDENT OLD: Circadian gene expression comparison in lungs of young adult vs old mice. |
Mus musculus |
Lung |
Old |
Age |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | DNBSEQ-G400 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR |
| Quantifier | Salmon v1.5.2 |
| Expression Unit | counts |
|
| MOUSE LUNG AGE DEPENDENT YOUNG: Circadian gene expression comparison in lungs of young adult vs old mice. |
Mus musculus |
Lung |
Young |
Age |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | DNBSEQ-G400 |
| Molecule | polyA RNA |
| Genome Build | GRCm39 |
| Aligner | STAR |
| Quantifier | Salmon v1.5.2 |
| Expression Unit | counts |
|
| MOUSE MASRI 2016 LIVER LUNG-WT: Lung adenocarcinoma operates as an endogenous reorganizer of circadian metabolism. |
Mus musculus |
Liver |
Control |
Cancer |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 2.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE MASRI 2016 LIVER TUMOR-BEARING-LUNG: Lung adenocarcinoma operates as an endogenous reorganizer of circadian metabolism. |
Mus musculus |
Liver |
Lung Cancer |
Cancer |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 2.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE MCCLUNG 2024 FEMALE-PV: Circadian translatome analysis of mouse medial prefrontal cortex comparing isolated pyramidal (Pyr) cells and parvalbumin (PV) interneurons from male and female mice. |
Mus musculus |
Prefrontal Cortex |
Female |
Sex |
2, 6, 10, 14, 18, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina Genome Analyzer |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | NA |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE MCCLUNG 2024 FEMALE-PYR: Circadian translatome analysis of mouse medial prefrontal cortex comparing isolated pyramidal (Pyr) cells and parvalbumin (PV) interneurons from male and female mice. |
Mus musculus |
Prefrontal Cortex |
Female |
Sex |
2, 6, 10, 14, 18, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina Genome Analyzer |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | NA |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE MCCLUNG 2024 MALE-PV: Circadian translatome analysis of mouse medial prefrontal cortex comparing isolated pyramidal (Pyr) cells and parvalbumin (PV) interneurons from male and female mice. |
Mus musculus |
Prefrontal Cortex |
Male |
Sex |
2, 6, 10, 14, 18, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina Genome Analyzer |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | NA |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE MCCLUNG 2024 MALE-PYR: Circadian translatome analysis of mouse medial prefrontal cortex comparing isolated pyramidal (Pyr) cells and parvalbumin (PV) interneurons from male and female mice. |
Mus musculus |
Prefrontal Cortex |
Male |
Sex |
2, 6, 10, 14, 18, 22 |
None             |
View
| Assay Type | RNA-seq |
| Platform | Illumina Genome Analyzer |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | NA |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE MILLER 2007 LIVER WT: Mouse Wild Type Liver Transcriptome |
Mus musculus |
Liver |
Control |
Control |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE MOISAN 2021 DIET HF: Mouse hippocampus circadian transcriptome study comparing different diet conditions, including high-fat diet, normal chow, and recovery-phase diet groups. |
Mus musculus |
Hippocampus |
High-Fat Diet |
Diet |
0, 6, 12, 18 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE MOISAN 2021 DIET HFR: Mouse hippocampus circadian transcriptome study comparing different diet conditions, including high-fat diet, normal chow, and recovery-phase diet groups. |
Mus musculus |
Hippocampus |
High-Fat Diet Recovery |
Diet |
0, 6, 12, 18 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE MOISAN 2021 DIET NC: Mouse hippocampus circadian transcriptome study comparing different diet conditions, including high-fat diet, normal chow, and recovery-phase diet groups. |
Mus musculus |
Hippocampus |
Normal Chow |
Diet |
0, 6, 12, 18 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE MOISAN 2021 DIET NCR: Mouse hippocampus circadian transcriptome study comparing different diet conditions, including high-fat diet, normal chow, and recovery-phase diet groups. |
Mus musculus |
Hippocampus |
Normal Chow |
Diet |
0, 6, 12, 18 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE MPFC MCCLUNG 2025 FEMALE: Sex-specific circadian transcriptomic rhythms in the mouse medial prefrontal cortex (mPFC). |
Mus musculus |
Prefrontal Cortex |
Female |
Sex |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina Genome Analyzer |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | NA |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE MPFC MCCLUNG 2025 MALE: Sex-specific circadian transcriptomic rhythms in the mouse medial prefrontal cortex (mPFC). |
Mus musculus |
Prefrontal Cortex |
Male |
Sex |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina Genome Analyzer |
| Molecule | total RNA |
| Genome Build | GRCm38 |
| Aligner | NA |
| Quantifier | HTSeq |
| Expression Unit | counts |
|
| MOUSE MUSCLE EXERCISE KO FEMALE KO-EXERCISE: Female mouse gastrocnemius transcriptomes under exercise vs sedentary, with or without the target gene knockout. |
Mus musculus |
Gastrocnemius |
Female, Hypoxia-Response Knockout, Treadmill Exercise |
Sex, Knockout, Exercise |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE MUSCLE EXERCISE KO FEMALE KO-SEDENTARY: Female mouse gastrocnemius transcriptomes under exercise vs sedentary, with or without the target gene knockout. |
Mus musculus |
Gastrocnemius |
Female, Hypoxia-Response Knockout, No Exercise |
Sex, Knockout, Exercise |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE MUSCLE EXERCISE KO FEMALE WT-EXERCISE: Female mouse gastrocnemius transcriptomes under exercise vs sedentary, with or without the target gene knockout. |
Mus musculus |
Gastrocnemius |
Female, Treadmill Exercise |
Sex, Knockout, Exercise |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE MUSCLE EXERCISE KO FEMALE WT-SEDENTARY: Female mouse gastrocnemius transcriptomes under exercise vs sedentary, with or without the target gene knockout. |
Mus musculus |
Gastrocnemius |
Female, No Exercise |
Sex, Knockout, Exercise |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE MUSCLE EXERCISE KO MALE KO-EXERCISE: Male mouse gastrocnemius transcriptomes under exercise vs sedentary, with or without the target gene Knockout. |
Mus musculus |
Gastrocnemius |
Male, Hypoxia-Response Knockout, Treadmill Exercise |
Sex, Knockout, Exercise |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE MUSCLE EXERCISE KO MALE KO-SEDENTARY: Male mouse gastrocnemius transcriptomes under exercise vs sedentary, with or without the target gene Knockout. |
Mus musculus |
Gastrocnemius |
Male, Hypoxia-Response Knockout, No Exercise |
Sex, Knockout, Exercise |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE MUSCLE EXERCISE KO MALE WT-EXERCISE: Male mouse gastrocnemius transcriptomes under exercise vs sedentary, with or without the target gene Knockout. |
Mus musculus |
Gastrocnemius |
Male, Treadmill Exercise |
Sex, Knockout, Exercise |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE MUSCLE EXERCISE KO MALE WT-SEDENTARY: Male mouse gastrocnemius transcriptomes under exercise vs sedentary, with or without the target gene Knockout. |
Mus musculus |
Gastrocnemius |
Male, No Exercise |
Sex, Knockout, Exercise |
3, 15 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| MOUSE NEUTROPHIL DEPLETION BONEMARROW DEPLETED: Circadian transcriptional profiles of bone marrow under control vs neutrophil-depleted conditions, demonstrating that neutrophil loss disrupts normal rhythmic gene expression in extracellular matrix pathways. |
Mus musculus |
Bone Marrow |
Neutrophil Depletion |
Immune Cell Depletion |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION BONEMARROW WT: Circadian transcriptional profiles of bone marrow under control vs neutrophil-depleted conditions, demonstrating that neutrophil loss disrupts normal rhythmic gene expression in extracellular matrix pathways. |
Mus musculus |
Bone Marrow |
Control |
Immune Cell Depletion |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION INTESTINE DEPLETED: Circadian gene expression in the small intestine under neutrophil-depleted vs control conditions, showing that loss of neutrophils alters rhythmic matrix-associated transcripts and circadian patterns of gene expression. |
Mus musculus |
Intestine |
Neutrophil Depletion |
Immune Cell Depletion |
5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION INTESTINE WT: Circadian gene expression in the small intestine under neutrophil-depleted vs control conditions, showing that loss of neutrophils alters rhythmic matrix-associated transcripts and circadian patterns of gene expression. |
Mus musculus |
Intestine |
Control |
Immune Cell Depletion |
5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION LIVER DEPLETED: Circadian transcriptome of liver tissue in control vs neutrophil-depleted mice, indicating that neutrophil elimination disrupts normal circadian expression patterns of liver genes. |
Mus musculus |
Liver |
Neutrophil Depletion |
Immune Cell Depletion |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION LIVER WT: Circadian transcriptome of liver tissue in control vs neutrophil-depleted mice, indicating that neutrophil elimination disrupts normal circadian expression patterns of liver genes. |
Mus musculus |
Liver |
Control |
Immune Cell Depletion |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION LUNG DEPLETED: Circadian gene expression in lung tissue with and without neutrophil depletion. |
Mus musculus |
Lung |
Neutrophil Depletion |
Immune Cell Depletion |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION LUNG WT: Circadian gene expression in lung tissue with and without neutrophil depletion. |
Mus musculus |
Lung |
Control |
Immune Cell Depletion |
1, 5, 9, 13, 17, 21 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION SKIN BMAL1-KO: Circadian transcriptional profile of skin under control, neutrophil-depleted, and neutrophil-specific Bmal1 knockout conditions. |
Mus musculus |
Skin |
Core Clock Knockout |
Immune Cell Depletion, Knockout |
1, 3, 4, 5, 7, 9, 10, 12, 13, 15, 16, 18, 19, 21, 22, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION SKIN DEPLETED: Circadian transcriptional profile of skin under control, neutrophil-depleted, and neutrophil-specific Bmal1 knockout conditions. |
Mus musculus |
Skin |
Neutrophil Depletion |
Immune Cell Depletion, Knockout |
1, 3, 4, 5, 7, 9, 10, 12, 13, 15, 16, 18, 19, 21, 22, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NEUTROPHIL DEPLETION SKIN WT: Circadian transcriptional profile of skin under control, neutrophil-depleted, and neutrophil-specific Bmal1 knockout conditions. |
Mus musculus |
Skin |
Control |
Immune Cell Depletion, Knockout |
1, 3, 4, 5, 7, 9, 10, 12, 13, 15, 16, 18, 19, 21, 22, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | RSEM v1.7.1 |
| Quantifier | RSEM v1.7.1 |
| Expression Unit | TPM |
|
| MOUSE NIGHT FEEDING KO: RNASeq of liver in WT and Bmal1 KO mice under night feeding condition |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE NIGHT FEEDING WT: RNASeq of liver in WT and Bmal1 KO mice under night feeding condition |
Mus musculus |
Liver |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE NOLAN SCN CRENEG-CONTROL: Circadian gene expression in the suprachiasmatic nucleus (SCN) of mice before and after tamoxifen-induced conditional deletion of the transcription factor Zfhx3, compared with Cre-negative controls. |
Mus musculus |
Suprachiasmatic Nucleus |
Cre-Negative Control |
Knockout |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.8a |
| Quantifier | featureCounts |
| Expression Unit | CPM |
|
| MOUSE NOLAN SCN POSTTAM-ZFHX3-KO: Circadian gene expression in the suprachiasmatic nucleus (SCN) of mice before and after tamoxifen-induced conditional deletion of the transcription factor Zfhx3, compared with Cre-negative controls. |
Mus musculus |
Suprachiasmatic Nucleus |
Transcription Factor Knockout |
Knockout |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.8a |
| Quantifier | featureCounts |
| Expression Unit | CPM |
|
| MOUSE NOLAN SCN PRETAM-CONTROL: Circadian gene expression in the suprachiasmatic nucleus (SCN) of mice before and after tamoxifen-induced conditional deletion of the transcription factor Zfhx3, compared with Cre-negative controls. |
Mus musculus |
Suprachiasmatic Nucleus |
Pre-Tamoxifen Control |
Knockout |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.8a |
| Quantifier | featureCounts |
| Expression Unit | CPM |
|
| MOUSE PANDA 2002 LIVER WT: Gene expression profiling to identify cycling transcripts in the SCN and in the liver |
Mus musculus |
Liver |
Control |
Control |
30, 34, 38, 42, 46, 50, 54, 58, 62, 66, 70, 74 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE PANDA 2002 SCN WT: Gene expression profiling to identify cycling transcripts in the SCN and in the liver |
Mus musculus |
Suprachiasmatic Nucleus |
Control |
Control |
18, 22, 26, 30, 34, 38, 42, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE PETRUS 2020 LIVER CONTROL-DARK: Mouse treated with different diet conditions and different feeding conditions. |
Mus musculus |
Liver |
Dark-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PETRUS 2020 LIVER CONTROL-LIGHT: Mouse treated with different diet conditions and different feeding conditions. |
Mus musculus |
Liver |
Light-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PETRUS 2020 LIVER TRYPTOPHAN-DARK: Mouse treated with different diet conditions and different feeding conditions. |
Mus musculus |
Liver |
Tryptophan-Modified Diet, Dark-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PETRUS 2020 LIVER TRYPTOPHAN-LIGHT: Mouse treated with different diet conditions and different feeding conditions. |
Mus musculus |
Liver |
Tryptophan-Modified Diet, Light-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PETRUS 2020 SCN CONTROL-DARK: Mouse treated with different diet conditions and different feeding conditions. |
Mus musculus |
Suprachiasmatic Nucleus |
Dark-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PETRUS 2020 SCN CONTROL-LIGHT: Mouse treated with different diet conditions and different feeding conditions. |
Mus musculus |
Suprachiasmatic Nucleus |
Light-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PETRUS 2020 SCN TRYPTOPHAN-DARK: Mouse treated with different diet conditions and different feeding conditions. |
Mus musculus |
Suprachiasmatic Nucleus |
Tryptophan-Modified Diet, Dark-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PETRUS 2020 SCN TRYPTOPHAN-LIGHT: Mouse treated with different diet conditions and different feeding conditions. |
Mus musculus |
Suprachiasmatic Nucleus |
Tryptophan-Modified Diet, Light-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PREGNANCY METABOLIC FETUS CIRCADIAN-DISRUPTION: Maternal circadian rhythms during pregnancy influences circadian gene regulation in the mouse liver. |
Mus musculus |
Liver |
Phase Shift |
Light-Dark |
0, 6, 12, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PREGNANCY METABOLIC FETUS CONTROL: Maternal circadian rhythms during pregnancy influences circadian gene regulation in the mouse liver. |
Mus musculus |
Liver |
Control |
Light-Dark |
0, 6, 12, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PREGNANCY METABOLIC MOTHER CIRCADIAN-DISRUPTION: Maternal circadian rhythms during pregnancy influences circadian gene regulation in the mouse liver. |
Mus musculus |
Liver |
Phase Shift |
Light-Dark |
0, 6, 12, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PREGNANCY METABOLIC MOTHER CONTROL: Maternal circadian rhythms during pregnancy influences circadian gene regulation in the mouse liver. |
Mus musculus |
Liver |
Control |
Light-Dark |
0, 6, 12, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PREGNANCY METABOLIC OFFSPRING CIRCADIAN-DISRUPTION HIGH-FAT: Maternal circadian rhythms during pregnancy influences circadian gene regulation in the mouse liver. |
Mus musculus |
Liver |
Phase Shift, High-Fat Diet |
Light-Dark, Diet |
0, 6, 12, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PREGNANCY METABOLIC OFFSPRING CIRCADIAN-DISRUPTION LOW-FAT: Maternal circadian rhythms during pregnancy influences circadian gene regulation in the mouse liver. |
Mus musculus |
Liver |
Phase Shift, Low-Fat Diet |
Light-Dark, Diet |
0, 6, 12, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PREGNANCY METABOLIC OFFSPRING CONTROL HIGH-FAT: Maternal circadian rhythms during pregnancy influences circadian gene regulation in the mouse liver. |
Mus musculus |
Liver |
High-Fat Diet |
Light-Dark, Diet |
0, 6, 12, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE PREGNANCY METABOLIC OFFSPRING CONTROL LOW-FAT: Maternal circadian rhythms during pregnancy influences circadian gene regulation in the mouse liver. |
Mus musculus |
Liver |
Low-Fat Diet |
Light-Dark, Diet |
0, 6, 12, 18 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE RESTRICTED FEEDING BAT AD-LIB: Circadian gene expression in brown adipose tissue (BAT) and liver under the following five conditions: ad libitum (AL); temporally restricted during the dark phase (TR-night) or light phase (TR-day); and calorically restricted during the dark phase (CR-night) or light phase (CR-day) |
Mus musculus |
Brown Adipose Tissue |
Ad Libitum |
Diet |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | GENCODE M14 (mm10) |
| Aligner | STAR |
| Quantifier | featureCounts (Rsubread) |
| Expression Unit | RPKM |
|
| MOUSE RESTRICTED FEEDING BAT CR-DAY: Circadian gene expression in brown adipose tissue (BAT) and liver under the following five conditions: ad libitum (AL); temporally restricted during the dark phase (TR-night) or light phase (TR-day); and calorically restricted during the dark phase (CR-night) or light phase (CR-day) |
Mus musculus |
Brown Adipose Tissue |
Caloric Restriction, Light-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | GENCODE M14 (mm10) |
| Aligner | STAR |
| Quantifier | featureCounts (Rsubread) |
| Expression Unit | RPKM |
|
| MOUSE RESTRICTED FEEDING LIVER AD-LIB: Circadian gene expression in brown adipose tissue (BAT) and liver under the following five conditions: ad libitum (AL); temporally restricted during the dark phase (TR-night) or light phase (TR-day); and calorically restricted during the dark phase (CR-night) or light phase (CR-day) |
Mus musculus |
Liver |
Ad Libitum |
Diet |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | GENCODE M14 (mm10) |
| Aligner | STAR |
| Quantifier | featureCounts (Rsubread) |
| Expression Unit | RPKM |
|
| MOUSE RESTRICTED FEEDING LIVER CR-DAY: Circadian gene expression in brown adipose tissue (BAT) and liver under the following five conditions: ad libitum (AL); temporally restricted during the dark phase (TR-night) or light phase (TR-day); and calorically restricted during the dark phase (CR-night) or light phase (CR-day) |
Mus musculus |
Liver |
Caloric Restriction, Light-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | GENCODE M14 (mm10) |
| Aligner | STAR |
| Quantifier | featureCounts (Rsubread) |
| Expression Unit | RPKM |
|
| MOUSE RESTRICTED FEEDING LIVER CR-NIGHT: Circadian gene expression in brown adipose tissue (BAT) and liver under the following five conditions: ad libitum (AL); temporally restricted during the dark phase (TR-night) or light phase (TR-day); and calorically restricted during the dark phase (CR-night) or light phase (CR-day) |
Mus musculus |
Liver |
Caloric Restriction, Dark-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | GENCODE M14 (mm10) |
| Aligner | STAR |
| Quantifier | featureCounts (Rsubread) |
| Expression Unit | RPKM |
|
| MOUSE RESTRICTED FEEDING LIVER TRF-DAY: Circadian gene expression in brown adipose tissue (BAT) and liver under the following five conditions: ad libitum (AL); temporally restricted during the dark phase (TR-night) or light phase (TR-day); and calorically restricted during the dark phase (CR-night) or light phase (CR-day) |
Mus musculus |
Liver |
Time-Restricted Feeding, Light-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | GENCODE M14 (mm10) |
| Aligner | STAR |
| Quantifier | featureCounts (Rsubread) |
| Expression Unit | RPKM |
|
| MOUSE RESTRICTED FEEDING LIVER TRF-NIGHT: Circadian gene expression in brown adipose tissue (BAT) and liver under the following five conditions: ad libitum (AL); temporally restricted during the dark phase (TR-night) or light phase (TR-day); and calorically restricted during the dark phase (CR-night) or light phase (CR-day) |
Mus musculus |
Liver |
Time-Restricted Feeding, Dark-Phase Feeding |
Diet |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | GENCODE M14 (mm10) |
| Aligner | STAR |
| Quantifier | featureCounts (Rsubread) |
| Expression Unit | RPKM |
|
| MOUSE RUDIC 2005 AORTA WT: Bioinformatic Analysis of Circadian Gene Oscillation in Mouse Aorta |
Mus musculus |
Aorta |
Control |
Control |
18, 22, 26, 30, 34, 38, 42, 46, 50, 54, 58, 62 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE SASSONE LIVER KO: Liver RNASeq with KO of all clock genes, and RE of just Liver Clock |
Mus musculus |
Liver |
Core Clock Knockout |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE SASSONE LIVER RE: Liver RNASeq with KO of all clock genes, and RE of just Liver Clock |
Mus musculus |
Liver |
Rescue |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE SASSONE LIVER WT: Liver RNASeq with KO of all clock genes, and RE of just Liver Clock |
Mus musculus |
Liver |
Control |
Knockout |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE SCN CONTROL: Transcriptome of the suprachiasmatic nucleus (SCN) in control and high-fat conditions |
Mus musculus |
Suprachiasmatic Nucleus |
Control |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE SCN HIGH-FAT: Transcriptome of the suprachiasmatic nucleus (SCN) in control and high-fat conditions |
Mus musculus |
Suprachiasmatic Nucleus |
High-Fat Diet |
Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE SENGUPTA INFLUENZA LD-FEMALE: Circadian study of influenza infection in mice. |
Mus musculus |
Lung |
Influenza Infection |
Disease |
11, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq X |
| Molecule | polyA RNA |
| Genome Build | GRCm38 |
| Aligner | Salmon v1.9.0 |
| Quantifier | Salmon v1.9.0 (tximeta) |
| Expression Unit | TPM |
|
| MOUSE SKELETAL MUSCLE SIRT1 2018 CONTROL: Gastrocnemius expression data from control and SF1-neuron-specific Sirt1 knockout mice. |
Mus musculus |
Gastrocnemius |
Control |
Knockout |
7, 13, 19, 25 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE SKELETAL MUSCLE SIRT1 2018 KO: Gastrocnemius expression data from control and SF1-neuron-specific Sirt1 knockout mice. |
Mus musculus |
Gastrocnemius |
Metabolic-Sensing Knockout |
Knockout |
7, 13, 19, 25 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE STRIATUM 2020 COCAINE: RNASeq of striatum in a cocaine treatment experiment with D2R knockout |
Mus musculus |
Ventral Striatum |
Cocaine Exposure |
Drug-Treatment, Knockout |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Bowtie (Tuxedo) |
| Quantifier | Cuffnorm (Tuxedo) |
| Expression Unit | FPKM |
|
| MOUSE STRIATUM 2020 COCAINE-D2R-KO: RNASeq of striatum in a cocaine treatment experiment with D2R knockout |
Mus musculus |
Ventral Striatum |
Cocaine Exposure, Dopamine Signaling Knockout |
Drug-Treatment, Knockout |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Bowtie (Tuxedo) |
| Quantifier | Cuffnorm (Tuxedo) |
| Expression Unit | FPKM |
|
| MOUSE STRIATUM 2020 D2R-KO: RNASeq of striatum in a cocaine treatment experiment with D2R knockout |
Mus musculus |
Ventral Striatum |
Saline Vehicle Control, Dopamine Signaling Knockout |
Drug-Treatment, Knockout |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Bowtie (Tuxedo) |
| Quantifier | Cuffnorm (Tuxedo) |
| Expression Unit | FPKM |
|
| MOUSE STRIATUM 2020 WT: RNASeq of striatum in a cocaine treatment experiment with D2R knockout |
Mus musculus |
Ventral Striatum |
Saline Vehicle Control |
Drug-Treatment, Knockout |
3, 7, 11, 15, 19, 23 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2500 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | Bowtie (Tuxedo) |
| Quantifier | Cuffnorm (Tuxedo) |
| Expression Unit | FPKM |
|
| MOUSE TERAJIMA 2017 LIVER ADARB1-KO: Identification A-to-I RNA editing as a key mechanism of post-transcriptional regulation in the circadian clockwork. |
Mus musculus |
Liver |
RNA Editing Knockout |
Knockout |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE TERAJIMA 2017 LIVER WT: Identification A-to-I RNA editing as a key mechanism of post-transcriptional regulation in the circadian clockwork. |
Mus musculus |
Liver |
Control |
Knockout |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE TESTIS SERTOLI CELL CONTROL CONTROL: Control Sertoli cell expression data from mouse testis. |
Sus scrofa |
Sertoli Cells |
Control |
Control |
12, 16, 20, 24, 28, 32 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE TOGNINI 2017 INTESTINAL EPITHELIA KETOGENIC-DIET: Intestinal epithelia microarray in a ketogenic diet vs. normal chow experiment. |
Mus musculus |
Intestine |
Ketogenic Diet |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE TOGNINI 2017 INTESTINAL EPITHELIA NORMAL-CHOW: Intestinal epithelia microarray in a ketogenic diet vs. normal chow experiment. |
Mus musculus |
Intestine |
Normal Chow |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE TOGNINI 2017 LIVER KETOGENIC-DIET: Liver microarray in a ketogenic diet vs. normal chow experiment. |
Mus musculus |
Liver |
Ketogenic Diet |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE TOGNINI 2017 LIVER NORMAL-CHOW: Liver microarray in a ketogenic diet vs. normal chow experiment. |
Mus musculus |
Liver |
Normal Chow |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | PLIER v2.0 |
| Expression Unit | PLIER signal intensity |
|
| MOUSE TOGNINI LIVER CLOCK KNOCKOUT AD LIBITUM KO: Mouse knockout and rescue experiment of clock in liver with Ad Libitum Feeding |
Mus musculus |
Liver |
Ad Libitum, Core Clock Knockout |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE TOGNINI LIVER CLOCK KNOCKOUT AD LIBITUM RE: Mouse knockout and rescue experiment of clock in liver with Ad Libitum Feeding |
Mus musculus |
Liver |
Ad Libitum, Rescue |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE TOGNINI LIVER CLOCK KNOCKOUT AD LIBITUM WT: Mouse knockout and rescue experiment of clock in liver with Ad Libitum Feeding |
Mus musculus |
Liver |
Ad Libitum |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE TOGNINI LIVER CLOCK KNOCKOUT TRF KO: Mouse knockout and rescue experiment of clock in liver with TRF Diet |
Mus musculus |
Liver |
Time-Restricted Feeding, Core Clock Knockout |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE TOGNINI LIVER CLOCK KNOCKOUT TRF RE: Mouse knockout and rescue experiment of clock in liver with TRF Diet |
Mus musculus |
Liver |
Time-Restricted Feeding, Rescue |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE TOGNINI LIVER CLOCK KNOCKOUT TRF WT: Mouse knockout and rescue experiment of clock in liver with TRF Diet |
Mus musculus |
Liver |
Time-Restricted Feeding |
Knockout, Diet |
0, 4, 8, 12, 16, 20 |
None             |
View
| Assay Type | RNA-seq |
| Platform | NA |
| Molecule | NA |
| Genome Build | mm10 |
| Aligner | TopHat 2.1.1 |
| Quantifier | Cufflinks 2.2.1 |
| Expression Unit | FPKM |
|
| MOUSE YANG 2017 BREAST WT: Cellular mechano-environment regulates the mammary circadian clock. |
Mus musculus |
Breast |
Control |
Control |
3, 7, 11, 15, 19, 23, 27, 31, 35, 39, 43, 47 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE ZHANG 2014 ADRENAL GLAND WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Adrenal Gland |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 AORTA WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Aorta |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 BRAIN STEM WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Brainstem |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 BROWN FAT ANTERIOR DORSUM WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Brown Adipose Tissue |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 CEREBELLUM WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Cerebellum |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 EPIDIDYMAL ADIPOSE WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
White Adipose Tissue |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 HEART WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Heart |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 HYPOTHALAMUS WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Hypothalamus |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 KIDNEY WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Kidney |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 LIVER WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Liver |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 LUNG WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Lung |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 MUSCLE GASTROCNEMIUS WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Skeletal Muscle |
Control |
Control |
18, 20, 22, 24, 26, 28, 30, 32, 34, 36, 38, 40, 42, 44, 46, 48, 50, 52, 54, 56, 58, 60, 62, 64 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZHANG 2014 PITUITARY WT: Wild-type C57/BL6 mouse tissue microarray in the Circadian Atlas project. |
Mus musculus |
Glands |
Control |
Control |
1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30, 31, 32, 33, 34, 35, 36, 37, 38, 39, 40, 41, 42, 43, 44, 45, 46, 47, 48 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Mouse Gene 1.0 ST Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | GC-RMA (Affymetrix Expression Console) |
| Expression Unit | GC-RMA intensity |
|
| MOUSE ZUBER 2009 CORTICAL COLLECTING DUCT WT: Circadian rhythms in the distal nephron segments, i.e., distal convoluted tubule (DCT) and connecting tubule (CNT) and the cortical collecting duct (CCD) |
Mus musculus |
Kidney |
Control |
Control |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| MOUSE ZUBER 2009 DISTAL CONVOLUTED TUBULE WT: Circadian rhythms in the distal nephron segments, i.e., distal convoluted tubule (DCT) and connecting tubule (CNT) and the cortical collecting duct (CCD) |
Mus musculus |
Kidney |
Control |
Control |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| NEUROSPORA ANANTHASUBRAMANIAM 2018 CRASSA DMSN1: Sampling of liquid culture grown N. crassa every 2h over 22h from light to dark transition. |
Neurospora crassa |
Fungus |
Dmsn1 Mutant |
Mutation |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| NEUROSPORA ANANTHASUBRAMANIAM 2018 CRASSA WT: Sampling of liquid culture grown N. crassa every 2h over 22h from light to dark transition. |
Neurospora crassa |
Fungus |
Control |
Mutation |
0, 2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|
| NEUROSPORA GCN2 SIGNALING PATHWAY KO: GCN2 signaling pathway in circadian clock function by regulating histone acetylation under amino acid starvation. |
Neurospora crassa |
Fungus |
Metabolic-Sensing Knockout |
Knockout |
0, 12 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | Neurospora crassa OR74A |
| Aligner | HISAT2 v2.1.0 |
| Quantifier | StringTie v1.3.3 |
| Expression Unit | TPM |
|
| NEUROSPORA GCN2 SIGNALING PATHWAY WT: GCN2 signaling pathway in circadian clock function by regulating histone acetylation under amino acid starvation. |
Neurospora crassa |
Fungus |
Control |
Knockout |
0, 12 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | polyA RNA |
| Genome Build | Neurospora crassa OR74A |
| Aligner | HISAT2 v2.1.0 |
| Quantifier | StringTie v1.3.3 |
| Expression Unit | TPM |
|
| NEUROSPORA RIBOSOME CLOCK WT: Circadian RNA-seq profiling of wild-type Neurospora, revealing rhythmic expression of ribosomal protein mRNAs. |
Neurospora crassa |
Mycelia |
Control |
Control |
12, 16, 20, 24, 28, 32, 36, 40, 44, 48 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | N. crassa FungiDB Release 38 |
| Aligner | STAR |
| Quantifier | Cufflinks |
| Expression Unit | FPKM |
|
| RAT ALMON 2008 LIVER WT: Global gene expression analysis in the identification of circadian-regulated genes involved in drug action. |
Rattus norvegicus |
Liver |
Control |
Control |
1, 2, 4, 6, 8, 10, 11, 12, 13, 14, 16, 18, 20, 22, 23, 24 |
Publication             |
View
| Assay Type | microarray |
| Platform | Affymetrix Rat Expression 230A Array |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | Affymetrix MAS5 |
| Expression Unit | MAS5 signal intensity |
|
| RAT MICROGLIA TIMED FEEDING DIET COMPARISON CHOW ADLIB: Microglial transcriptomes of diet-induced obese rats on high-fat or chow diets fed ad libitum, during the dark phase, or during the light phase. |
Rattus norvegicus |
Hypothalamus |
Normal Chow, Ad Libitum |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | DNBSEQ-G400 |
| Molecule | total RNA |
| Genome Build | Rnor_6.0 (GCF_000001895.5) |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| RAT MICROGLIA TIMED FEEDING DIET COMPARISON CHOW DARK-FEED: Microglial transcriptomes of diet-induced obese rats on high-fat or chow diets fed ad libitum, during the dark phase, or during the light phase. |
Rattus norvegicus |
Hypothalamus |
Normal Chow, Dark-Phase Feeding |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | DNBSEQ-G400 |
| Molecule | total RNA |
| Genome Build | Rnor_6.0 (GCF_000001895.5) |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| RAT MICROGLIA TIMED FEEDING DIET COMPARISON CHOW LIGHT-FEED: Microglial transcriptomes of diet-induced obese rats on high-fat or chow diets fed ad libitum, during the dark phase, or during the light phase. |
Rattus norvegicus |
Hypothalamus |
Normal Chow, Light-Phase Feeding |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | DNBSEQ-G400 |
| Molecule | total RNA |
| Genome Build | Rnor_6.0 (GCF_000001895.5) |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| RAT MICROGLIA TIMED FEEDING DIET COMPARISON HFD ADLIB: Microglial transcriptomes of diet-induced obese rats on high-fat or chow diets fed ad libitum, during the dark phase, or during the light phase. |
Rattus norvegicus |
Hypothalamus |
High-Fat Diet, Ad Libitum |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | DNBSEQ-G400 |
| Molecule | total RNA |
| Genome Build | Rnor_6.0 (GCF_000001895.5) |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| RAT MICROGLIA TIMED FEEDING DIET COMPARISON HFD DARK-FEED: Microglial transcriptomes of diet-induced obese rats on high-fat or chow diets fed ad libitum, during the dark phase, or during the light phase. |
Rattus norvegicus |
Hypothalamus |
High-Fat Diet, Dark-Phase Feeding |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | DNBSEQ-G400 |
| Molecule | total RNA |
| Genome Build | Rnor_6.0 (GCF_000001895.5) |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| RAT MICROGLIA TIMED FEEDING DIET COMPARISON HFD LIGHT-FEED: Microglial transcriptomes of diet-induced obese rats on high-fat or chow diets fed ad libitum, during the dark phase, or during the light phase. |
Rattus norvegicus |
Hypothalamus |
High-Fat Diet, Light-Phase Feeding |
Diet |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | DNBSEQ-G400 |
| Molecule | total RNA |
| Genome Build | Rnor_6.0 (GCF_000001895.5) |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | FPKM |
|
| RAT SLEEP AND BRAIN DISORDERS SLEEP-DEPRIVED: Sleep deprivation in Long Evans rats were subjects being sleep deprived for 6 hours and then samples being collected every 2h during the recovery. |
Rattus norvegicus |
Central Forebrain |
Acute Sleep Deprivation |
Sleep |
0, 2, 4, 8 |
Publication             |
View
| Assay Type | RNA-seq (WTTS-seq) |
| Platform | Ion Torrent PGM |
| Molecule | polyA RNA |
| Genome Build | mRatBN7.2/rn7 |
| Aligner | TMAP v3.4.1 |
| Quantifier | in-house scripts (PAS clustering) |
| Expression Unit | normalized read counts |
|
| RAT SLEEP AND BRAIN DISORDERS WT: Sleep deprivation in Long Evans rats were subjects being sleep deprived for 6 hours and then samples being collected every 2h during the recovery. |
Rattus norvegicus |
Central Forebrain |
Sleep Recovery |
Sleep |
0, 2, 4, 8 |
Publication             |
View
| Assay Type | RNA-seq (WTTS-seq) |
| Platform | Ion Torrent PGM |
| Molecule | polyA RNA |
| Genome Build | mRatBN7.2/rn7 |
| Aligner | TMAP v3.4.1 |
| Quantifier | in-house scripts (PAS clustering) |
| Expression Unit | normalized read counts |
|
| RAT STAEHLE 2020 BRAIN CEA: Baseline time-of-day gene expression study of rat brain regions, including CeA (central nucleus of the amygdala) and DVC (dorsal vagal complex) |
Rattus norvegicus |
Central Nucleus of the Amygdala |
Control |
Control |
3, 5, 9 |
Publication             |
View
| Assay Type | RT-PCR (Fluidigm BioMark) |
| Platform | Fluidigm BioMark |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | quantile-normalized Ct |
|
| RAT STAEHLE 2020 BRAIN DVC: Baseline time-of-day gene expression study of rat brain regions, including CeA (central nucleus of the amygdala) and DVC (dorsal vagal complex) |
Rattus norvegicus |
Dorsal Vagal Complex |
Control |
Control |
3, 5, 9 |
Publication             |
View
| Assay Type | RT-PCR (Fluidigm BioMark) |
| Platform | Fluidigm BioMark |
| Molecule | total RNA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | quantile-normalized Ct |
|
| RELATIVE ENERGY DEFICIENCY ADRENAL GLAND FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Adrenal Gland |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY ADRENAL GLAND FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Adrenal Gland |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY ADRENAL GLAND MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Adrenal Gland |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY ADRENAL GLAND MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Adrenal Gland |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY BROWN ADIPOSE FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Brown Adipose Tissue |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY BROWN ADIPOSE FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Brown Adipose Tissue |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY BROWN ADIPOSE MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Brown Adipose Tissue |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY BROWN ADIPOSE MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Brown Adipose Tissue |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY EXTENSOR DIGITORUM LONGUS FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Extensor Digitorum Longus |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY EXTENSOR DIGITORUM LONGUS FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Extensor Digitorum Longus |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY EXTENSOR DIGITORUM LONGUS MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Extensor Digitorum Longus |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY EXTENSOR DIGITORUM LONGUS MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Extensor Digitorum Longus |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY EXTENSOR DIGITORUM LONGUS TENDON FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Extensor Digitorum Longus Tendon |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY EXTENSOR DIGITORUM LONGUS TENDON FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Extensor Digitorum Longus Tendon |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY EXTENSOR DIGITORUM LONGUS TENDON MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Extensor Digitorum Longus Tendon |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY EXTENSOR DIGITORUM LONGUS TENDON MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Extensor Digitorum Longus Tendon |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY GASTROCNEMIUS FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Gastrocnemius |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY GASTROCNEMIUS FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Gastrocnemius |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY GASTROCNEMIUS MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Gastrocnemius |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY GASTROCNEMIUS MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Gastrocnemius |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY GASTROCNEMIUS TENDON FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Gastrocnemius Tendon |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY GASTROCNEMIUS TENDON FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Gastrocnemius Tendon |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY GASTROCNEMIUS TENDON MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Gastrocnemius Tendon |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY GASTROCNEMIUS TENDON MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Gastrocnemius Tendon |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY HEART FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Heart |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY HEART FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Heart |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY HEART MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Heart |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY HEART MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Heart |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY KIDNEY FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Kidney |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY KIDNEY FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Kidney |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY KIDNEY MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Kidney |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY KIDNEY MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Kidney |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY LIVER FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Liver |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY LIVER FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Liver |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY LIVER MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Liver |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY LIVER MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Liver |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY LUNG FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Lung |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY LUNG FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Lung |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY LUNG MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Lung |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY LUNG MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Lung |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY OVARY FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Ovary |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY OVARY FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Ovary |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY PITUITARY FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Pituitary |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY PITUITARY FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Pituitary |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY PITUITARY MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Pituitary |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY PITUITARY MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Pituitary |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY QUADRICEPS FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Quadriceps |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY QUADRICEPS FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Quadriceps |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY QUADRICEPS MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Quadriceps |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY QUADRICEPS MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Quadriceps |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY SOLEUS FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Soleus |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY SOLEUS FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Soleus |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY SOLEUS MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Soleus |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY SOLEUS MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Soleus |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY SPLEEN FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Spleen |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY SPLEEN FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Spleen |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY SPLEEN MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Spleen |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY SPLEEN MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Spleen |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TESTIS MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Testis |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TESTIS MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Testis |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TIBIALIS ANTERIOR FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Tibialis Anterior |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TIBIALIS ANTERIOR FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Tibialis Anterior |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TIBIALIS ANTERIOR MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Tibialis Anterior |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TIBIALIS ANTERIOR MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Tibialis Anterior |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TIBIALIS ANTERIOR TENDON FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Tibialis Anterior Tendon |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TIBIALIS ANTERIOR TENDON FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Tibialis Anterior Tendon |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TIBIALIS ANTERIOR TENDON MALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Tibialis Anterior Tendon |
Male, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY TIBIALIS ANTERIOR TENDON MALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Tibialis Anterior Tendon |
Male, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY UTERUS FEMALE DEFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Uterus |
Female, Energy Deficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RELATIVE ENERGY DEFICIENCY UTERUS FEMALE SUFFICIENT: Placing mice under energy-deficient and -sufficient conditions through an exercise-for-food paradigm to explore the impact of energy deficiency. |
Mus musculus |
Uterus |
Female, Energy Sufficient |
Sex, Energy-Status |
5, 17 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | STAR v2.7.10a |
| Quantifier | STAR (GeneCounts) |
| Expression Unit | counts |
|
| RIJOFERREIRA ANOPHELES SALIVARY GLAND DD: Anopheles stephensi salivary glands collected in light-dark and constant-darkness conditions to profile daily oscillations in gland gene expression. |
Anopheles stephensi |
Salivary Gland |
Constant Darkness |
Light-Dark |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44, 48, 52, 56, 60, 64, 68, 72 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | AsteS1.6 |
| Aligner | STAR |
| Quantifier | NA |
| Expression Unit | RPKM |
|
| RIJOFERREIRA ANOPHELES SALIVARY GLAND LD: Anopheles stephensi salivary glands collected in light-dark and constant-darkness conditions to profile daily oscillations in gland gene expression. |
Anopheles stephensi |
Salivary Gland |
Control |
Light-Dark |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44, 48, 52, 56, 60, 64, 68, 72 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | AsteS1.6 |
| Aligner | STAR |
| Quantifier | NA |
| Expression Unit | RPKM |
|
| RIJOFERREIRA PLASMODIUM SPOROZOITE DD: Plasmodium berghei sporozoites isolated from mosquito salivary glands under light-dark and constant-darkness conditions to assess daily rhythms in parasite gene expression. |
Plasmodium berghei |
Parasite |
Constant Darkness |
Light-Dark |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44, 48, 52, 56, 60, 64, 68, 72 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | PbergheiANKA (PlasmoDB-26) |
| Aligner | STAR |
| Quantifier | NA |
| Expression Unit | RPKM |
|
| RIJOFERREIRA PLASMODIUM SPOROZOITE LD: Plasmodium berghei sporozoites isolated from mosquito salivary glands under light-dark and constant-darkness conditions to assess daily rhythms in parasite gene expression. |
Plasmodium berghei |
Parasite |
Control |
Light-Dark |
0, 4, 8, 12, 16, 20, 24, 28, 32, 36, 40, 44, 48, 52, 56, 60, 64, 68, 72 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | polyA RNA |
| Genome Build | PbergheiANKA (PlasmoDB-26) |
| Aligner | STAR |
| Quantifier | NA |
| Expression Unit | RPKM |
|
| SHEEP RUMEN VFA DIET GRAIN: Circadian RNA-seq study of sheep rumen epithelial cells treated with grain-derived or hay-derived volatile fatty acid mixtures (VFA) across six time points. |
Ovis aries |
Rumen Epithelium Cells |
Grain-Derived Volatile Fatty Acid Treatment |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | ARS-UI_Ramb_v3.0 |
| Aligner | HISAT2 v2.2.1 |
| Quantifier | StringTie v2.1.5 |
| Expression Unit | counts |
|
| SHEEP RUMEN VFA DIET HAY: Circadian RNA-seq study of sheep rumen epithelial cells treated with grain-derived or hay-derived volatile fatty acid mixtures (VFA) across six time points. |
Ovis aries |
Rumen Epithelium Cells |
Hay-Derived Volatile Fatty Acid Treatment |
Diet |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | ARS-UI_Ramb_v3.0 |
| Aligner | HISAT2 v2.2.1 |
| Quantifier | StringTie v2.1.5 |
| Expression Unit | counts |
|
| SLEEP DISRUPTION AND AGING FOREBRAIN SLEEP-DEPRIVED: Property of circadian-affected tissue-specific genes in cerebellum, forebrain, liver, kidney, and their link to aging and longevity. |
Mus musculus |
Forebrain |
Sleep Deprivation |
Sleep |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| SLEEP DISRUPTION AND AGING FOREBRAIN WT: Property of circadian-affected tissue-specific genes in cerebellum, forebrain, liver, kidney, and their link to aging and longevity. |
Mus musculus |
Forebrain |
Control |
Sleep |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| SLEEP DISRUPTION AND AGING IN CEREBELLUM SLEEP-DEPRIVED: Property of circadian-affected tissue-specific genes in cerebellum, forebrain, liver, kidney, and their link to aging and longevity. |
Mus musculus |
Cerebellum |
Sleep Deprivation |
Sleep |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| SLEEP DISRUPTION AND AGING IN CEREBELLUM WT: Property of circadian-affected tissue-specific genes in cerebellum, forebrain, liver, kidney, and their link to aging and longevity. |
Mus musculus |
Cerebellum |
Control |
Sleep |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| SLEEP DISRUPTION AND AGING IN KIDNEY SLEEP-DEPRIVED: Property of circadian-affected tissue-specific genes in cerebellum, forebrain, liver, kidney, and their link to aging and longevity. |
Mus musculus |
Kidney |
Sleep Deprivation |
Sleep |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| SLEEP DISRUPTION AND AGING IN KIDNEY WT: Property of circadian-affected tissue-specific genes in cerebellum, forebrain, liver, kidney, and their link to aging and longevity. |
Mus musculus |
Kidney |
Control |
Sleep |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| SLEEP DISRUPTION AND AGING IN LIVER SLEEP-DEPRIVED: Property of circadian-affected tissue-specific genes in cerebellum, forebrain, liver, kidney, and their link to aging and longevity. |
Mus musculus |
Liver |
Sleep Deprivation |
Sleep |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| SLEEP DISRUPTION AND AGING IN LIVER WT: Property of circadian-affected tissue-specific genes in cerebellum, forebrain, liver, kidney, and their link to aging and longevity. |
Mus musculus |
Liver |
Control |
Sleep |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | HiSeq X Ten |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 |
| Quantifier | featureCounts |
| Expression Unit | counts |
|
| SLEEP DISRUPTION LUNG TUMORIGENESIS SLEEP-DEPRIVED: Circadian gene expression in KRAS-driven lung tumors under chronic sleep deficiency vs normal sleep. |
Mus musculus |
Lung Tumor |
Sleep Deprivation, Lung Cancer |
Sleep, Cancer |
0, 4, 8, 12, 16, 20, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | featureCounts v1.5.0-p3 |
| Expression Unit | FPKM |
|
| SLEEP DISRUPTION LUNG TUMORIGENESIS WT: Circadian gene expression in KRAS-driven lung tumors under chronic sleep deficiency vs normal sleep. |
Mus musculus |
Lung Tumor |
Lung Cancer |
Sleep, Cancer |
0, 4, 8, 12, 16, 20, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | mm10 |
| Aligner | HISAT2 v2.0.5 |
| Quantifier | featureCounts v1.5.0-p3 |
| Expression Unit | FPKM |
|
| TANWEE CIRCADIAN AEDES BRAIN: Circadian analysis of mosquito brain and peripheral olfactory tissues to characterize daily rhythmic gene expression linked to odor detection and neural activity. |
Aedes aegypti |
Whole Brain |
Control |
Control |
6, 12, 18, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | AaegL5.0 |
| Aligner | STAR |
| Quantifier | htseq-count |
| Expression Unit | counts |
|
| TANWEE CIRCADIAN AEDES OLFACTORY: Circadian analysis of mosquito brain and peripheral olfactory tissues to characterize daily rhythmic gene expression linked to odor detection and neural activity. |
Aedes aegypti |
Peripheral Olfactory |
Control |
Control |
6, 12, 18, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | AaegL5.0 |
| Aligner | STAR |
| Quantifier | htseq-count |
| Expression Unit | counts |
|
| TANWEE CIRCADIAN ANOPHELES BRAIN: Circadian analysis of mosquito brain and peripheral olfactory tissues to characterize daily rhythmic gene expression linked to odor detection and neural activity. |
Anopheles culicifacies |
Whole Brain |
Control |
Control |
6, 12, 18, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | AculA1.7 |
| Aligner | STAR |
| Quantifier | htseq-count |
| Expression Unit | counts |
|
| TANWEE CIRCADIAN ANOPHELES OLFACTORY: Circadian analysis of mosquito brain and peripheral olfactory tissues to characterize daily rhythmic gene expression linked to odor detection and neural activity. |
Anopheles culicifacies |
Peripheral Olfactory |
Control |
Control |
6, 12, 18, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NextSeq 500 |
| Molecule | total RNA |
| Genome Build | AculA1.7 |
| Aligner | STAR |
| Quantifier | htseq-count |
| Expression Unit | counts |
|
| TEMPERATURE CHANGE AND CIRC RHYTHM 18C HIGH-CALORIE: mRNA expression level of the fat body from Drosophila melanogaster following a step change from 25C to 18C |
Drosophila melanogaster |
Fat Body |
High-Calorie Diet, 18C |
Diet, Temperature |
2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | BDGP6.32 |
| Aligner | STAR 2.7.10a |
| Quantifier | RSEM 1.3.1 |
| Expression Unit | TPM |
|
| TEMPERATURE CHANGE AND CIRC RHYTHM 18C LOW-CALORIE: mRNA expression level of the fat body from Drosophila melanogaster following a step change from 25C to 18C |
Drosophila melanogaster |
Fat Body |
Low-Calorie Diet, 18C |
Diet, Temperature |
2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | BDGP6.32 |
| Aligner | STAR 2.7.10a |
| Quantifier | RSEM 1.3.1 |
| Expression Unit | TPM |
|
| TEMPERATURE CHANGE AND CIRC RHYTHM 25C HIGH-CALORIE: mRNA expression level of the fat body from Drosophila melanogaster following a step change from 25C to 18C |
Drosophila melanogaster |
Fat Body |
High-Calorie Diet, 25C |
Diet, Temperature |
2, 4, 6, 8, 10, 12, 14, 16, 18, 20, 22, 24 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 2000 |
| Molecule | total RNA |
| Genome Build | BDGP6.32 |
| Aligner | STAR 2.7.10a |
| Quantifier | RSEM 1.3.1 |
| Expression Unit | TPM |
|
| TEMPERATURE CHANGE AND CIRC RHYTHM 5 DAY 18C: mRNA expression level of the fat body from Drosophila melanogaster following a step change from 25C to 18C |
Drosophila melanogaster |
Fat Body |
18C |
Temperature |
0, 2, 4, 6, 8, 10, 12, 14, 16, 20, 22, 24, 26, 28, 30, 32, 34, 36, 78, 80, 82, 84, 86, 88, 90, 92, 94, 96, 98, 100, 102, 104, 106, 108, 110, 112, 114 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | BDGP6.32 |
| Aligner | STAR 2.7.10a |
| Quantifier | RSEM |
| Expression Unit | TPM |
|
| TEMPERATURE CHANGE AND CIRC RHYTHM 5 DAY 25C: mRNA expression level of the fat body from Drosophila melanogaster following a step change from 25C to 18C |
Drosophila melanogaster |
Fat Body |
25C |
Temperature |
0, 2, 4, 6, 8, 10, 12, 14, 16, 20, 22, 24, 26, 28, 30, 32, 34, 36, 78, 80, 82, 84, 86, 88, 90, 92, 94, 96, 98, 100, 102, 104, 106, 108, 110, 112, 114 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina NovaSeq 6000 |
| Molecule | total RNA |
| Genome Build | BDGP6.32 |
| Aligner | STAR 2.7.10a |
| Quantifier | RSEM |
| Expression Unit | TPM |
|
| VISION AND CIRCADIAN BIOLOGY CHOROIDAL MYOPIC: Examining the role of circadian biology in myopia by analyzing gene expression in the retina and choroid of chicks, comparing the myopic (occluded) eye to the contralateral control (open) eye |
Gallus gallus |
Choroid |
Myopia |
Disease |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCg6a |
| Aligner | Salmon |
| Quantifier | Salmon (tximeta) |
| Expression Unit | counts |
|
| VISION AND CIRCADIAN BIOLOGY CHOROIDAL WT: Examining the role of circadian biology in myopia by analyzing gene expression in the retina and choroid of chicks, comparing the myopic (occluded) eye to the contralateral control (open) eye |
Gallus gallus |
Choroid |
Control |
Disease |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCg6a |
| Aligner | Salmon |
| Quantifier | Salmon (tximeta) |
| Expression Unit | counts |
|
| VISION AND CIRCADIAN BIOLOGY RETINAL MYOPIC: Examining the role of circadian biology in myopia by analyzing gene expression in the retina and choroid of chicks, comparing the myopic (occluded) eye to the contralateral control (open) eye |
Gallus gallus |
Retina |
Myopia |
Disease |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCg6a |
| Aligner | Salmon |
| Quantifier | Salmon (tximeta) |
| Expression Unit | counts |
|
| VISION AND CIRCADIAN BIOLOGY RETINAL WT: Examining the role of circadian biology in myopia by analyzing gene expression in the retina and choroid of chicks, comparing the myopic (occluded) eye to the contralateral control (open) eye |
Gallus gallus |
Retina |
Control |
Disease |
0, 4, 8, 12, 16, 20 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina HiSeq 4000 |
| Molecule | total RNA |
| Genome Build | GRCg6a |
| Aligner | Salmon |
| Quantifier | Salmon (tximeta) |
| Expression Unit | counts |
|
| ZEBRAFISH SIFUENTES 2016 INJURY: Transcriptional profiles of 0, 8, and 16 hour post-lesion zebrafish Muller glia (in triplicate) were generated by high-throughput sequencing in an Illumina GAIIx |
Danio rerio |
Retina |
Retinal Lesion |
Injury |
0, 8, 16 |
Publication             |
View
| Assay Type | RNA-seq |
| Platform | Illumina Genome Analyzer IIx |
| Molecule | total RNA |
| Genome Build | Zv9 (Release 78) |
| Aligner | Bowtie2 v2.2.6 |
| Quantifier | RSEM v1.2.22 |
| Expression Unit | FPKM |
|
| ZEBRAFISH TOVIN 2012 KO: Circadian pineal gland gene expression study in aanat2:EGFP transgenic reporter zebrafish collected under constant darkness. |
Danio rerio |
Pineal Gland |
Constant Darkness |
Light-Dark |
2, 6, 10, 14, 18, 22 |
Publication             |
View
| Assay Type | NA |
| Platform | NA |
| Molecule | NA |
| Genome Build | NA |
| Aligner | NA |
| Quantifier | NA |
| Expression Unit | NA |
|