Non-canonical PRC1.1 licenses transcriptional response to enable Treg plasticity in immune adaptation.
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 70 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
- 70 samples: 58 distinct titles, 12 of them repeatedGroups 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 GSE249981_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 PRJNA1051548 and SRA study SRP477553. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 2 samples read as cases, 34 as controls.
How we read this: Read from 70 sample titles: 58 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.
- GSM7957159 153 KO Treg, H2AK119ub1 CUT&Tag
- GSM7957160 252 KO Treg, H2AK119ub1 CUT&Tag
- GSM7957161 355 WT Treg, H2AK119ub1 CUT&Tag
- GSM7957162 458 WT Treg, H2AK119ub1 CUT&Tag
- GSM7957163 7180 WT Treg, H3K27me3 CUT&Tag
- GSM7957164 7211 WT Treg, H3K27me3 CUT&Tag
- GSM7957165 7199 cKO Treg, H3K27me3 CUT&Tag
- GSM7957166 7181 cKO Treg, H3K27me3 CUT&Tag
- GSM7968398 WT Treg, rep1
- GSM7968399 WT Treg, rep2
- GSM7968400 cKO Treg, rep1
- GSM7968401 cKO Treg, rep2
- GSM7968402 WT Treg, in vitro, unstimulated, rep1
- GSM7968403 WT Treg, in vitro, unstimulated, rep2
- GSM7968404 WT Treg, in vitro, stimulated, rep1
- GSM7968405 WT Treg, in vitro, stimulated, rep2
- GSM7968406 cKO Treg, in vitro, unstimulated, rep1
- GSM7968407 cKO Treg, in vitro, unstimulated, rep2
- GSM7968408 cKO Treg, in vitro, stimulated, rep1
- GSM7968409 cKO Treg, in vitro, stimulated, rep2
- GSM7968416 HEK293T shSCR, 0min, rep1
- GSM7968417 HEK293T shSCR, 0min, rep2
- GSM7968418 HEK293T shSCR, 60min, rep1
- GSM7968419 HEK293T shSCR, 60min, rep2
- GSM7968420 HEK293T shKDM2B, 0min, rep1
- GSM7968421 HEK293T shKDM2B, 0min, rep2
- GSM7968422 HEK293T shKDM2B, 60min, rep1
- GSM7968423 HEK293T shKDM2B, 60min, rep2
- GSM8521992 8441 WT Treg, H3K4me3 CUT&Tag, rep1
- GSM8521993 8443 WT Treg, H3K4me3 CUT&Tag, rep2
- GSM8522002 WT1 Treg, RNAPII-no-1 CUT&Tag, rep1
- GSM8522003 WT2 Treg, RNAPII-no-1 CUT&Tag, rep2
- GSM8522006 HEK293T shSCR, H2AK119ub1 CUT&Tag, rep1
- GSM8522007 HEK293T shSCR, H2AK119ub1 CUT&Tag, rep2
- GSM8522008 HEK293T shKDM2B, H2AK119ub1 CUT&Tag, rep1
- GSM8522009 HEK293T shKDM2B, H2AK119ub1 CUT&Tag, rep2
- GSM8522010 6857 WT Treg, ATAC, rep1
- GSM8522011 6860 WT Treg, ATAC, rep2
- GSM8834374 Treg, nosti-1, iBP SMART-seq, rep1
- GSM8834375 Treg, nosti-2, iBP SMART-seq, rep2
+ 30 more — browse all 70 samples with per-sample file links →
- GSE288344 Targeted citrullination enables p53 binding to non-canonical sites 258 samples shares non-canonical, enable
- GSE260456 DOT1L provides transcriptional memory through PRC1.1 antagonism [RNA-seq] 180 samples shares prc1
- GSE205245 H3K27me3 spreading organizes canonical PRC1 chromatin architecture to regulate developmental programs [ChIP-seq] 105 samples shares prc1
- GSE224832 Active repression of cell fate plasticity by PROX1 safeguards hepatocyte identity and prevents liver tumorigenesis. 104 samples shares plasticity
- GSE63782 Transcriptional plasticity promotes primary and acquired resistance to BET bromodomain inhibition 103 samples shares plasticity
- GSE232554 FOXA2/AP-1 drives prostate cancer lineage plasticity [RNA-seq] 61 samples shares plasticity
- GSE304029 BRD2 Bromodomain-Mediated Regulation of Cell State Plasticity Modulates Therapy Response in Glioblastoma 56 samples shares plasticity
- GSE267740 Targeting T cell plasticity by pooled single cell CRISPR-screening in preclinical models of kidney and gut inflammation 56 samples shares plasticity
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.