GEO series
BACH1 acts as a pioneer repressor to enable macrophage plasticity and adaptation across tissues and inflammatory contexts
GSE245651
Mus musculus (mouse)
ChIP-seq / ATAC-seq (genome binding and open chromatin)
165 samples
Submitted 2026/07/09
Platform GPL13112Platform GPL19057Platform GPL17021
At a glance
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 165 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
- 165 samples: 165 samples, each with a distinct title — no replicated groupsGroups 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.
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
This dataset
Download · which file do I need?
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.
1 · Just have a look
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.
2 · Re-analyse it
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE245651_RAW.tar (it can run to tens of gigabytes).
3 · Start from the raw reads
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 PRJNA1029487 and SRA study SRP466994. Searching any of these in the dataset finder brings you back here.
Study design
165 samples, each with a distinct title — no replicated groups
Supports a case/control comparison: 22 samples read as cases, 49 as controls.
How we read this: Read from 165 sample titles: 165 distinct titles with little repetition. 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.
Samples in this study
- GSM7846341 ATAC-seq in wild type mouse bone marrow derived macrophages unstim (rep1)
- GSM7846342 ATAC-seq in wild type mouse bone marrow derived macrophages unstim (rep2)
- GSM7846343 ATAC-seq in Bach1-deficient mouse bone marrow derived macrophages unstim (rep1)
- GSM7846344 ATAC-seq in Bach1-deficient mouse bone marrow derived macrophages unstim (rep2)
- GSM7846345 ATAC-seq in wild type mouse bone marrow derived macrophages veh (rep1)
- GSM7846346 ATAC-seq in wild type mouse bone marrow derived macrophages veh (rep2)
- GSM7846347 ATAC-seq in wild type mouse bone marrow derived macrophages treated with 100 uM heme (rep1)
- GSM7846348 ATAC-seq in wild type mouse bone marrow derived macrophages treated with 100 uM heme (rep2)
- GSM7846349 ATAC-seq in Bach1-deficient mouse bone marrow derived macrophages veh (rep1)
- GSM7846350 ATAC-seq in Bach1-deficient mouse bone marrow derived macrophages veh (rep2)
- GSM7846351 ATAC-seq in Bach1-deficient mouse bone marrow derived macrophages treated with 100 uM heme (rep1)
- GSM7846352 ATAC-seq in Bach1-deficient mouse bone marrow derived macrophages treated with 100 uM heme (rep2)
- GSM7846353 ATAC-seq of day 1 Ly6C high cell populations after CTX injury in control TA muscle samples (rep1)
- GSM7846354 ATAC-seq of day 1 Ly6C high cell populations after CTX injury in control TA muscle samples (rep2)
- GSM7846355 ATAC-seq of day 1 Ly6C high cell populations after CTX injury in control TA muscle samples (rep3)
- GSM7846356 ATAC-seq of day 2 Ly6C high cell populations after CTX injury in control TA muscle samples (rep1)
- GSM7846357 ATAC-seq of day 2 Ly6C high cell populations after CTX injury in control TA muscle samples (rep2)
- GSM7846358 ATAC-seq of day 2 Ly6C low cell populations after CTX injury in control TA muscle samples (rep1)
- GSM7846359 ATAC-seq of day 2 Ly6C low cell populations after CTX injury in control TA muscle samples (rep2)
- GSM7846360 ATAC-seq of day 4 Ly6C high cell populations after CTX injury in control TA muscle samples (rep1)
- GSM7846361 ATAC-seq of day 4 Ly6C high cell populations after CTX injury in control TA muscle samples (rep2)
- GSM7846362 ATAC-seq of day 4 Ly6C low cell populations after CTX injury in control TA muscle samples (rep1)
- GSM7846363 ATAC-seq of day 4 Ly6C low cell populations after CTX injury in control TA muscle samples (rep2)
- GSM7846364 ATAC-seq of day 1 Ly6C high cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep1)
- GSM7846365 ATAC-seq of day 1 Ly6C high cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep2)
- GSM7846366 ATAC-seq of day 1 Ly6C high cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep3)
- GSM7846367 ATAC-seq of day 2 Ly6C high cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep1)
- GSM7846368 ATAC-seq of day 2 Ly6C high cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep2)
- GSM7846369 ATAC-seq of day 2 Ly6C low cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep1)
- GSM7846370 ATAC-seq of day 2 Ly6C low cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep2)
- GSM7846371 ATAC-seq of day 4 Ly6C high cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep1)
- GSM7846372 ATAC-seq of day 4 Ly6C high cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep2)
- GSM7846373 ATAC-seq of day 4 Ly6C low cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep1)
- GSM7846374 ATAC-seq of day 4 Ly6C low cell populations after CTX injury in Bach1 LysMCre TA muscle samples (rep2)
- GSM7846375 BACH1 ChIP-seq in wild type mouse bone marrow derived macrophages (rep1)
- GSM7846376 BACH1 ChIP-seq in wild type mouse bone marrow derived macrophages (rep2)
- GSM7846377 BACH1 ChIP-seq in wild type mouse bone marrow derived macrophages (rep7)
- GSM7846378 BACH1 ChIP-seq in wild type mouse bone marrow derived macrophages (rep8)
- GSM7846379 BACH1 ChIP-seq in wild type mouse bone marrow derived macrophages treated with 100 uM heme (rep1)
- GSM7846380 BACH1 ChIP-seq in wild type mouse bone marrow derived macrophages treated with 100 uM heme (rep2)
+ 125 more — browse all 165 samples with per-sample file links →
Datasets on a similar topic
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- GSE269191 ZEB2 is a Master Switch Controlling the Tumor-Associated Macrophage Program [in vivo] 145 samples shares macrophage
- GSE297058 Hereditary Chronic Pancreatitis Induced Plasticity Cooperates with Mutant Kras in Early Pancreatic Carcinogenesis 128 samples shares plasticity
Share this dataset
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