RNA-seq and ATAC-seq of follicular B cells and germinal center B cells with a conditional deletion of Brwd1
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 23 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
- 23 samples: 10 conditions, mostly in duplicateGroups 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 GSE264164_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 PRJNA1101074 and SRA study SRP502108. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 23 samples.
How we read this: 10 replicated groups read from 23 sample titles; they account for 23 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.
- GSM8213147 mm_atac_folb_CD23creBRWD1.1 mm_atac_folb_CD23creBRW…
- GSM8213148 mm_atac_folb_CD23creBRWD1.2 mm_atac_folb_CD23creBRW…
- GSM8213149 mm_atac_folb_CD23creBRWD1.3 mm_atac_folb_CD23creBRW…
- GSM8213150 mm_atac_folb.1 mm_atac_folb
- GSM8213151 mm_atac_folb.2 mm_atac_folb
- GSM8213152 mm_atac_gcb_AIDcreBRWD1_LZ.1 mm_atac_gcb_AIDcreBRWD1…
- GSM8213153 mm_atac_gcb_AIDcreBRWD1_LZ.2 mm_atac_gcb_AIDcreBRWD1…
- GSM8213154 mm_atac_gcb_AIDcreBRWD1_GZ.1 mm_atac_gcb_AIDcreBRWD1…
- GSM8213155 mm_atac_gcb_AIDcreBRWD1_GZ.2 mm_atac_gcb_AIDcreBRWD1…
- GSM8213156 mm_atac_gcb_AIDcreBRWD1_DZ.1 mm_atac_gcb_AIDcreBRWD1…
- GSM8213157 mm_atac_gcb_AIDcreBRWD1_DZ.2 mm_atac_gcb_AIDcreBRWD1…
- GSM8213192 mm_rna_folb_CD23creBRWD1_cre-plus_tdtomato-plus.1 mm_rna_folb_CD23creBRWD…
- GSM8213193 mm_rna_folb_CD23creBRWD1_cre-plus_tdtomato-plus.2 mm_rna_folb_CD23creBRWD…
- GSM8213194 mm_rna_folb_CD23creBRWD1_cre-plus_tdtomato-plus.3 mm_rna_folb_CD23creBRWD…
- GSM8213195 mm_rna_folb_CD23creBRWD1_cre-minus.1 mm_rna_folb_CD23creBRWD…
- GSM8213196 mm_rna_folb_CD23creBRWD1_cre-minus.2 mm_rna_folb_CD23creBRWD…
- GSM8213197 mm_rna_folb_CD23creBRWD1_cre-minus.3 mm_rna_folb_CD23creBRWD…
- GSM8213198 mm_rna_gcb_AIDcreBRWD1_LZ.1 mm_rna_gcb_AIDcreBRWD1_…
- GSM8213199 mm_rna_gcb_AIDcreBRWD1_LZ.2 mm_rna_gcb_AIDcreBRWD1_…
- GSM8213200 mm_rna_gcb_AIDcreBRWD1_GZ.1 mm_rna_gcb_AIDcreBRWD1_…
- GSM8213201 mm_rna_gcb_AIDcreBRWD1_GZ.2 mm_rna_gcb_AIDcreBRWD1_…
- GSM8213202 mm_rna_gcb_AIDcreBRWD1_DZ.1 mm_rna_gcb_AIDcreBRWD1_…
- GSM8213203 mm_rna_gcb_AIDcreBRWD1_DZ.2 mm_rna_gcb_AIDcreBRWD1_…
- GSE321762 Vascular smooth muscle cell state trajectories mediate molecular mechanisms of coronary disease risk [scRNA-seq and scATAC-seq] 54 samples shares atac-seq, rna-seq
- GSE252551 Disease-associated astrocyte epigenetic memory promotes CNS pathology [ATAC-Seq and RNA-Seq] 32 samples shares atac-seq, rna-seq
- GSE296438 Transcription factor NFYA directs male meiotic entry by facilitating accessible chromatin at the promoters of genes expressed during meiosis [scRNA-seq & scATAC-seq] 10 samples shares atac-seq, rna-seq
- GSE312302 NMuMG PBRM1 RNA-seq, ATAC-seq, and ChIP-seq 171 samples shares atac-seq, rna-seq
- GSE292377 Step-wise signal integration governs adaptive programming of lymphocytes [bulkRNA-seq and ATAC-seq] 41 samples shares atac-seq, rna-seq
- GSE327645 BACH1 acts as a pioneer repressor to enable macrophage plasticity and adaptation across tissues and inflammatory contexts [RNA-seq/ATAC-seq] 28 samples shares atac-seq, rna-seq
- GSE216542 scRNA-seq, snATAC-seq, and spatial transcriptomics analysis of mammary glands of aged female mice 22 samples shares atac-seq, rna-seq
- GSE325227 CD69 regulates the tissue dynamics of epigenetically imprinted memory CD4+ T cells [RNA-seq_ATAC-seq] 22 samples shares atac-seq, rna-seq
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.