Transcription factor occupancy is affected by genetic variation in the white adipose tissue of C57BL6/j and 129S1/SvImJ mice [ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 16 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Mus musculus (mouse)
- Samples
- 16 samples: 3 × H3K27ac_B6_Chow vs 3 × H3K27ac_SV_Chow vs 3 × H3K27ac_B6_HFD vs 3 × H3K27ac_SV_HFDGroups 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 GSE281685_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1185226 and SRA study SRP544757. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 16 sample titles; they account for 12 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.
- GSM8625661 H3K27ac_B6_Chow_1 H3K27ac_B6_Chow
- GSM8625662 H3K27ac_B6_Chow_2 H3K27ac_B6_Chow
- GSM8625663 H3K27ac_B6_Chow_3 H3K27ac_B6_Chow
- GSM8625664 H3K27ac_SV_Chow_1 H3K27ac_SV_Chow
- GSM8625665 H3K27ac_SV_Chow_2 H3K27ac_SV_Chow
- GSM8625666 H3K27ac_SV_Chow_3 H3K27ac_SV_Chow
- GSM8625667 H3K27ac_B6_HFD_1 H3K27ac_B6_HFD
- GSM8625668 H3K27ac_B6_HFD_2 H3K27ac_B6_HFD
- GSM8625669 H3K27ac_B6_HFD_3 H3K27ac_B6_HFD
- GSM8625670 H3K27ac_SV_HFD_1 H3K27ac_SV_HFD
- GSM8625671 H3K27ac_SV_HFD_2 H3K27ac_SV_HFD
- GSM8625672 H3K27ac_SV_HFD_3 H3K27ac_SV_HFD
- GSM8625673 IgG_B6_Chow_1
- GSM8625674 IgG_SV_Chow_1
- GSM8625675 IgG_B6_HFD_1
- GSM8625676 IgG_SV_HFD_1
- GSE326173 Nuclear receptor Nur77 resolves the inflammatory response of macrophages primarily by regulating expression of AP-1 transcription factors and their target genes [ChIP-seq] 42 samples shares transcription, chip-seq
- GSE324864 HP1B and H3K9me3 Regulate Olfactory Receptor Choice and 2 Transcriptional Identity [ChIP-seq] 28 samples shares transcription, chip-seq
- GSE339012 Mega-Enhancers Compartmentalize Transcriptionally Active Long Genes in the Brain [ChIP-Seq] 22 samples shares transcription, chip-seq
- GSE305064 FOXP3 Expression Depends on Cell-Type Specific Cis-Regulatory Element and Transcription Factor Circuitry [mouse_Tconv_ChIP-seq] 15 samples shares transcription, chip-seq
- GSE272888 Dynamic transcriptional and epigenetic changes define postnatal tendon growth 54 samples shares transcription, genetic
- GSE281823 Transcriptional profiling of striatum from the Q140 mouse model of Huntington's disease, from A rare genetic variant confers resistance to neurodegeneration across multiple neurological disorders by augmenting selective autophagy 40 samples shares transcription, genetic
- GSE266584 Epigenetic and transcriptional regulation of dendritic cell development and anti-tumor function by HDAC1 34 samples shares transcription, genetic
- GSE157232 The CD8+ T cell tolerance checkpoint triggers a transcriptionally and epigenetically distinct differentiation state defined by protein translation defects 30 samples shares transcription, genetic
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.