Age-associated chromatin re-organization in progenitor B cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 76 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
- 76 samples: 34 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.
- Paper
- Three-dimensional chromatin reorganization regulates B cell development during ageingNature cell biology · 2024
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 GSE214438_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 PRJNA885415 and SRA study SRP400252. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 74 samples.
How we read this: 34 replicated groups read from 76 sample titles; they account for 74 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.
- GSM6605797 CaptureHiC_Old
- GSM6605798 CaptureHiC_Young
- GSM6605799 HiC_young_rep1 HiC_young
- GSM6605800 HiC_young_rep2 HiC_young
- GSM6605801 HiC_old_rep1 HiC_old
- GSM6605802 HiC_old_rep2 HiC_old
- GSM6605803 HiC_RagCtrl_rep1 HiC_RagCtrl
- GSM6605804 HiC_RagCtrl_rep2 HiC_RagCtrl
- GSM6605805 HiC_Ebf1Heter_rep1 HiC_Ebf1Heter
- GSM6605806 HiC_Ebf1Heter_rep2 HiC_Ebf1Heter
- GSM6605807 HiC_Ebf1Pax5Heter_rep1 HiC_Ebf1Pax5Heter
- GSM6605808 HiC_Ebf1Pax5Heter_rep2 HiC_Ebf1Pax5Heter
- GSM6605809 ChIP-seq_Old_CTCF_rep1 ChIP-seq_Old_CTCF
- GSM6605810 ChIP-seq_Old_CTCF_rep2 ChIP-seq_Old_CTCF
- GSM6605811 ChIP-seq_Old_H3K27ac_rep1 ChIP-seq_Old_H3K27ac
- GSM6605812 ChIP-seq_Old_H3K27ac_rep2 ChIP-seq_Old_H3K27ac
- GSM6605813 ChIP-seq_Old_H3K27me3_rep1 ChIP-seq_Old_H3K27me3
- GSM6605814 ChIP-seq_Old_H3K27me3_rep2 ChIP-seq_Old_H3K27me3
- GSM6605815 ChIP-seq_Old_Rad21_rep1 ChIP-seq_Old_Rad21
- GSM6605816 ChIP-seq_Old_Rad21_rep2 ChIP-seq_Old_Rad21
- GSM6605817 ChIP-seq_Young_CTCF_rep1 ChIP-seq_Young_CTCF
- GSM6605818 ChIP-seq_Young_CTCF_rep2 ChIP-seq_Young_CTCF
- GSM6605819 ChIP-seq_Young_H3K27ac_rep1 ChIP-seq_Young_H3K27ac
- GSM6605820 ChIP-seq_Young_H3K27ac_rep2 ChIP-seq_Young_H3K27ac
- GSM6605821 ChIP-seq_Young_H3K27me3_rep1 ChIP-seq_Young_H3K27me3
- GSM6605822 ChIP-seq_Young_H3K27me3_rep2 ChIP-seq_Young_H3K27me3
- GSM6605823 ChIP-seq_Young_Rad21_rep1 ChIP-seq_Young_Rad21
- GSM6605824 ChIP-seq_Young_Rad21_rep2 ChIP-seq_Young_Rad21
- GSM6605825 RNA-seq_Ebf1Heter_rep1 RNA-seq_Ebf1Heter
- GSM6605826 RNA-seq_Ebf1Heter_rep2 RNA-seq_Ebf1Heter
- GSM6605827 RNA-seq_Ebf1Pax5Heter_rep1 RNA-seq_Ebf1Pax5Heter
- GSM6605828 RNA-seq_Ebf1Pax5Heter_rep2 RNA-seq_Ebf1Pax5Heter
- GSM6605829 RNA-seq_RagCtrl_rep1 RNA-seq_RagCtrl
- GSM6605830 RNA-seq_RagCtrl_rep2 RNA-seq_RagCtrl
- GSM6605831 RNA-seq_Old_rep1 RNA-seq_Old
- GSM6605832 RNA-seq_Old_rep2 RNA-seq_Old
- GSM6605833 RNA-seq_Old_rep3 RNA-seq_Old
- GSM6605834 RNA-seq_Old_rep4 RNA-seq_Old
- GSM6605835 RNA-seq_Young_rep1 RNA-seq_Young
- GSM6605836 RNA-seq_Young_rep2 RNA-seq_Young
+ 36 more — browse all 76 samples with per-sample file links →
- GSE204933 Age-associated chromatin reorganization drives overexpression of a novel Btaf1 variant regulating HSC self-renewal and MkP differentiation in male mice 82 samples shares age-associated, chromatin
- GSE72539 CTCF binding polarity determines chromatin looping [4C] 504 samples shares chromatin
- GSE266609 A unified workflow to define multipotent progenitor hierarchies 418 samples shares progenitor
- GSE299114 Endothelial Cells retain inflammatory memory through chromatin remodeling [RNA-Seq 2] 53 samples shares chromatin
- GSE166225 Inference of emergent spatio-temporal processes from single-cell sequencing reveals feedback between de novo DNA methylation and chromatin condensates [RNA-seq] 288 samples shares chromatin
- GSE237534 INO80 / SWR remodelers regulate Pol II transcription through BRD2 and chromatin landscape 217 samples shares chromatin
- GSE237916 Regulation of T helper cell differentiation by the interplay between histone modification and chromatin interaction 197 samples shares chromatin
- GSE262842 Antitumor progenitor exhausted CD8 T cells are sustained with TCR engagement [ATACseq] 24 samples shares progenitor
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.