Characterisation of the epidermal diurnal and circadian transcriptomes of mice with tissue-specific circadian clock activity
RNA-seq (gene expression) · mouse · 216 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 216 samples: 54 conditions, mostly with about 4 replicates eachGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- The epidermal circadian clock integrates and subverts brain signals to guarantee skin homeostasisCell stem cell · 2024
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE190035_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA785608 and SRA study SRP348963. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 216 samples.
How we read this: 54 replicated groups read from 216 sample titles; they account for 216 of them. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM5712134 EpiRE_ZT0_1 EpiRE_ZT0
- GSM5712135 EpiRE_ZT0_2 EpiRE_ZT0
- GSM5712136 EpiRE_ZT0_3 EpiRE_ZT0
- GSM5712137 EpiRE_ZT0_4 EpiRE_ZT0
- GSM5712138 EpiRE_ZT4_1 EpiRE_ZT4
- GSM5712139 EpiRE_ZT4_2 EpiRE_ZT4
- GSM5712140 EpiRE_ZT4_3 EpiRE_ZT4
- GSM5712141 EpiRE_ZT4_4 EpiRE_ZT4
- GSM5712142 EpiRE_ZT8_1 EpiRE_ZT8
- GSM5712143 EpiRE_ZT8_2 EpiRE_ZT8
- GSM5712144 EpiRE_ZT8_3 EpiRE_ZT8
- GSM5712145 EpiRE_ZT8_4 EpiRE_ZT8
- GSM5712146 EpiRE_ZT12_1 EpiRE_ZT12
- GSM5712147 EpiRE_ZT12_2 EpiRE_ZT12
- GSM5712148 EpiRE_ZT12_3 EpiRE_ZT12
- GSM5712149 EpiRE_ZT12_4 EpiRE_ZT12
- GSM5712150 EpiRE_ZT16_1 EpiRE_ZT16
- GSM5712151 EpiRE_ZT16_2 EpiRE_ZT16
- GSM5712152 EpiRE_ZT16_3 EpiRE_ZT16
- GSM5712153 EpiRE_ZT16_4 EpiRE_ZT16
- GSM5712154 EpiRE_ZT20_1 EpiRE_ZT20
- GSM5712155 EpiRE_ZT20_2 EpiRE_ZT20
- GSM5712156 EpiRE_ZT20_3 EpiRE_ZT20
- GSM5712157 EpiRE_ZT20_4 EpiRE_ZT20
- GSM5712158 BRE_ZT0_1 BRE_ZT0
- GSM5712159 BRE_ZT0_2 BRE_ZT0
- GSM5712160 BRE_ZT0_3 BRE_ZT0
- GSM5712161 BRE_ZT0_4 BRE_ZT0
- GSM5712162 BRE_ZT4_1 BRE_ZT4
- GSM5712163 BRE_ZT4_2 BRE_ZT4
- GSM5712164 BRE_ZT4_3 BRE_ZT4
- GSM5712165 BRE_ZT4_4 BRE_ZT4
- GSM5712166 BRE_ZT8_1 BRE_ZT8
- GSM5712167 BRE_ZT8_2 BRE_ZT8
- GSM5712168 BRE_ZT8_3 BRE_ZT8
- GSM5712169 BRE_ZT8_4 BRE_ZT8
- GSM5712170 BRE_ZT12_1 BRE_ZT12
- GSM5712171 BRE_ZT12_2 BRE_ZT12
- GSM5712172 BRE_ZT12_3 BRE_ZT12
- GSM5712173 BRE_ZT12_4 BRE_ZT12
+ 176 more — browse all 216 samples with per-sample file links →
- GSE190032 Characterisation of the epidermal diurnal transcriptome of mice with tissue-specific circadian clock activity [LD] 96 samples shares tissue-specific, epidermal, circadian, activity, diurnal, clock
- GSE266472 Transcriptomic Plasticity of the Circadian Clock in Response to Photoperiod: A Study in Male Melatonin-Competent Mice 123 samples shares circadian, clock
- GSE262714 The Core Circadian Clock Factor, Bmal1, Transduces Sex-specific Differences in Both Rhythmic and Nonrhythmic Gene Expression in the Mouse Heart 96 samples shares circadian, clock
- GSE266938 Deletion of SWI/SNF ATPase activity in hepatocytes of adult liver disrupts circadian gene expression and central liver functions [RNAseq] 82 samples shares circadian, activity
- GSE288747 The liver clock drives circadian rhythms in white adipose tissue [WTKOLRE] 72 samples shares circadian, clock
- GSE248462 Hepatic Vagal Afferents Convey Clock-Dependent Signals to Regulate Circadian Food Intake Patterns 48 samples shares circadian, clock
- GSE288748 The liver clock drives circadian rhythms in white adipose tissue [AML12] 48 samples shares circadian, clock
- GSE295306 Autonomous circadian bladder capacity rhythm independent of the central clock 36 samples shares circadian, clock
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.