Fidelity in lineage determination and stimulus-inducible gene expression requires ISWI chromatin remodeling activity [ATAC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 19 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
- 19 samples: 19 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.
- Paper
- Control of myeloid lineage fidelity and response to stimuli by ISWI-enforced nucleosome phasingImmunity · 2025
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 GSE289674_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 PRJNA1223923 and SRA study SRP564045. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 19 sample titles: 19 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.
- GSM8796270 WT BMDM, untreated, replicate2 (ATAC-seq)
- GSM8796271 WT BMDM, untreated, replicate1 (ATAC-seq)
- GSM8796272 WT BMDM, 2h LPS 10ng/ml, replicate2 (ATAC-seq)
- GSM8796273 WT BMDM, 2h LPS 10ng/ml, replicate1 (ATAC-seq)
- GSM8796274 WT BMDM, 2h IFN 100U/ml, replicate2 (ATAC-seq)
- GSM8796275 WT BMDM, 2h IFN 100U/ml, replicate1 (ATAC-seq)
- GSM8796276 WT BMDM, 1h LPS 10ng/ml, replicate2 (ATAC-seq)
- GSM8796277 WT BMDM, 1h LPS 10ng/ml, replicate1 (ATAC-seq)
- GSM8796278 WT BMDM, 1h IFN 100U/ml, replicate1 (ATAC-seq)
- GSM8796279 SMARCA5 KOBMDM, untreated, replicate2 (ATAC-seq)
- GSM8796280 SMARCA5 KOBMDM, untreated, replicate1 (ATAC-seq)
- GSM8796281 SMARCA5 KOBMDM, 2h LPS 10ng/ml, replicate2 (ATAC-seq)
- GSM8796282 SMARCA5 KOBMDM, 2h LPS 10ng/ml, replicate1 (ATAC-seq)
- GSM8796283 SMARCA5 KOBMDM, 2h IFN 100U/ml, replicate2 (ATAC-seq)
- GSM8796284 SMARCA5 KOBMDM, 2h IFN 100U/ml, replicate1 (ATAC-seq)
- GSM8796285 SMARCA5 KOBMDM, 1h LPS 10ng/ml, replicate2 (ATAC-seq)
- GSM8796286 SMARCA5 KOBMDM, 1h LPS 10ng/ml, replicate1 (ATAC-seq)
- GSM8796287 SMARCA5 KOBMDM, 1h IFN 100U/ml, replicate2 (ATAC-seq)
- GSM8796288 SMARCA5 KOBMDM, 1h IFN 100U/ml, replicate1 (ATAC-seq)
- GSE327619 Murine Endothelial Chromatin Remodeling Enzymes Modulate Plasmin Activity and Sterile Inflammation to Prevent Lethal Embryonic Liver Deterioration 24 samples shares remodeling, chromatin, activity
- GSE274493 The remodeling of bivalent chromatin is essential for mouse peri-implantation embryogenesis [CUT&Tag] 46 samples shares remodeling, chromatin
- GSE253692 Pivotal Role of the NuRD Complex in Remodeling Chromatin Environment and Maintaining Genome Architecture at CTCF Sites [mESC_d0246_CTCF_MBD3_ChIP_Seq] 36 samples shares remodeling, chromatin
- GSE280195 Leukemia aggressiveness is driven by chromatin remodeling and expression changes of core regulators [ChIP-seq] 25 samples shares remodeling, chromatin
- GSE224160 Malaria pigment hemozoin-induced chromatin remodeling of mouse hematopoietic stem and progenitor cells, granulocyte-macrophage progenitors, and bone marrow monocytes 12 samples shares remodeling, chromatin
- GSE306916 Efferocytosis induces proangiogenic function and chromatin remodeling in tumor-associated macrophages [ATAC-seq] 12 samples shares remodeling, chromatin
- GSE228366 Chromatin remodeling in HIF-1a deficient B cell during IgA class switching [ChIP-seq] 12 samples shares remodeling, chromatin
- GSE283906 RXR-Mediated Remodeling of Transcriptional and Chromatin Landscapes in APP Mouse Brain: Insights from Integrated Single-Cell RNA and ATAC Profiling 10 samples shares remodeling, chromatin
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.