Transcription factor occupancy is affected by genetic variation in the white adipose tissue of C57BL6/j and 129S1/SvImJ mice
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 64 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
- 64 samples: 12 conditions, mostly with about 6 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.
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 GSE281688_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 PRJNA1185216 and SRA study SRP544718. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 60 samples.
How we read this: 12 replicated groups read from 64 sample titles; they account for 60 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.
- GSM8625604 ATAC_SV_Chow_1 ATAC_SV_Chow
- GSM8625605 ATAC_SV_Chow_2 ATAC_SV_Chow
- GSM8625606 ATAC_SV_Chow_3 ATAC_SV_Chow
- GSM8625607 ATAC_SV_Chow_4 ATAC_SV_Chow
- GSM8625608 ATAC_SV_Chow_5 ATAC_SV_Chow
- GSM8625609 ATAC_B6_Chow_1 ATAC_B6_Chow
- GSM8625610 ATAC_B6_Chow_2 ATAC_B6_Chow
- GSM8625611 ATAC_B6_Chow_3 ATAC_B6_Chow
- GSM8625612 ATAC_B6_Chow_4 ATAC_B6_Chow
- GSM8625613 ATAC_B6_Chow_5 ATAC_B6_Chow
- GSM8625614 ATAC_B6_Chow_6 ATAC_B6_Chow
- GSM8625615 ATAC_SV_HFD_1 ATAC_SV_HFD
- GSM8625616 ATAC_SV_HFD_2 ATAC_SV_HFD
- GSM8625617 ATAC_SV_HFD_3 ATAC_SV_HFD
- GSM8625618 ATAC_SV_HFD_4 ATAC_SV_HFD
- GSM8625619 ATAC_SV_HFD_5 ATAC_SV_HFD
- GSM8625620 ATAC_SV_HFD_6 ATAC_SV_HFD
- GSM8625621 ATAC_B6_HFD_1 ATAC_B6_HFD
- GSM8625622 ATAC_B6_HFD_2 ATAC_B6_HFD
- GSM8625623 ATAC_B6_HFD_3 ATAC_B6_HFD
- GSM8625624 ATAC_B6_HFD_4 ATAC_B6_HFD
- GSM8625625 ATAC_B6_HFD_5 ATAC_B6_HFD
- GSM8625626 ATAC_B6_HFD_6 ATAC_B6_HFD
- GSM8625627 ATAC_B6_HFD_7 ATAC_B6_HFD
- 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
+ 24 more — browse all 64 samples with per-sample file links →
- GSE281685 Transcription factor occupancy is affected by genetic variation in the white adipose tissue of C57BL6/j and 129S1/SvImJ mice [ChIP-seq] 16 samples shares c57bl6, 129s1, transcription, occupancy, variation, affected, genetic, adipose
- 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
- GSE271884 GFI1-driven transcriptional and epigenetic programs maintain memory CD8+ T cell persistence [ATAC-seq]. 30 samples shares transcription, genetic
- GSE285906 Oxaliplatin induces cancer-like cachexia through distinct transcriptional pathways in mouse muscle and adipose depots 23 samples shares transcription, adipose
- GSE226609 Mouse lung tissue RNA-Seq from C57Bl6 wild type and ALOX15 KO mice with and without house dust mite (HDM) exposure. 20 samples shares c57bl6
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.