The liver clock drives circadian rhythms in white adipose tissue [AML12]
RNA-seq (gene expression) · mouse · 48 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
- 48 samples: 12 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.
Read the full summary ↓
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 GSE288748_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 PRJNA1219185 and SRA study SRP561541. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 48 samples.
How we read this: 12 replicated groups read from 48 sample titles; they account for 48 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.
- GSM8774537 WT 18_1 WT 18
- GSM8774538 WT 18_2 WT 18
- GSM8774539 WT 18_3 WT 18
- GSM8774540 WT 18_4 WT 18
- GSM8774541 WT 24_1 WT 24
- GSM8774542 WT 24_2 WT 24
- GSM8774543 WT 24_3 WT 24
- GSM8774544 WT 24_4 WT 24
- GSM8774545 WT 30_1 WT 30
- GSM8774546 WT 30_2 WT 30
- GSM8774547 WT 30_3 WT 30
- GSM8774548 WT 30_4 WT 30
- GSM8774549 WT 36_1 WT 36
- GSM8774550 WT 36_2 WT 36
- GSM8774551 WT 36_3 WT 36
- GSM8774552 WT 36_4 WT 36
- GSM8774553 WT 42_1 WT 42
- GSM8774554 WT 42_2 WT 42
- GSM8774555 WT 42_3 WT 42
- GSM8774556 WT 42_4 WT 42
- GSM8774557 WT 48_1 WT 48
- GSM8774558 WT 48_2 WT 48
- GSM8774559 WT 48_3 WT 48
- GSM8774560 WT 48_4 WT 48
- GSM8774561 KO 18_1 KO 18
- GSM8774562 KO 18_2 KO 18
- GSM8774563 KO 18_3 KO 18
- GSM8774564 KO 18_4 KO 18
- GSM8774565 KO 24_1 KO 24
- GSM8774566 KO 24_2 KO 24
- GSM8774567 KO 24_3 KO 24
- GSM8774568 KO 24_4 KO 24
- GSM8774569 KO 30_1 KO 30
- GSM8774570 KO 30_2 KO 30
- GSM8774571 KO 30_3 KO 30
- GSM8774572 KO 30_4 KO 30
- GSM8774573 KO 36_1 KO 36
- GSM8774574 KO 36_2 KO 36
- GSM8774575 KO 36_3 KO 36
- GSM8774576 KO 36_4 KO 36
+ 8 more — browse all 48 samples with per-sample file links →
- GSE266543 Misaligned feeding uncouples daily rhythms within brown adipose tissue and between peripheral clocks 144 samples shares rhythms, adipose, clock
- GSE253735 Loss of skeletal muscle Bmal1 +/- Exercise Training [Mouse liver, heart, inguinal white adipose and lung tissues 64 samples shares adipose, liver, white
- GSE242901 An Intrinsically Disordered Region Controlling Condensation of a Circadian Clock Component and Rhythmic Transcription in the Liver [ChIP-seq] 45 samples shares circadian, liver, clock
- GSE267727 Transcriptome profiling of non-islet metabolic tissues in ~500 DO mouse liver, adipose, heart, and skeletal muscle tissue from mice fed high-fat, high-sugar diet [heart] 482 samples shares adipose, liver
- GSE266549 Transcriptome profiling of non-islet metabolic tissues in ~500 DO mouse liver, adipose, and skeletal muscle tissue from mice fed high-fat, high-sugar diet. [Adipose] 468 samples shares adipose, liver
- GSE266472 Transcriptomic Plasticity of the Circadian Clock in Response to Photoperiod: A Study in Male Melatonin-Competent Mice 123 samples shares circadian, clock
- GSE310044 Dietary sulfur amino acid restriction elicits a cold-like transcriptional response in inguinal but not epididymal white adipose tissue of male mice 110 samples shares adipose, white
- GSE236201 Maternal Circadian Rhythms during Pregnancy Dictate Metabolic Plasticity in Offspring 96 samples shares circadian, rhythms
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.