EZH2 gain-of-function mutations distort H3K27me3 landscapes and transform transcriptional responses to PRC2 inhibition [ChIP-Seq/Cut&Run-Seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 156 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
- Homo sapiens (human)
- Topic
- Follicular lymphomaThis series is part of our curated briefing on it.
- Samples
- 156 samples: 156 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
- EZH2 mutations in follicular lymphoma distort H3K27me3 profiles and alter transcriptional responses to PRC2 inhibitionNature communications · 2024
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 GSE218716_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 PRJNA905336 and SRA study SRP409739. 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 156 sample titles: 156 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.
- GSM6755489 PRC2 WT iMEFs H2AUb rep1 [D387C101]
- GSM6755490 PRC2 WT iMEFs H2AUb rep2 [D387C102]
- GSM6755491 Ezh2_KO iMEFs H2AUb rep1 [D387C103]
- GSM6755492 Ezh2_KO iMEFs H2AUb rep2 [D387C104]
- GSM6755493 Ezh2_Y641F iMEFs H2AUb rep1 [D387C105]
- GSM6755494 Ezh2_Y641F iMEFs H2AUb rep2 [D387C106]
- GSM6755495 H3.3K27M iMEFs H2AUb rep1 [D387C107]
- GSM6755496 H3.3K27M iMEFs H2AUb rep2 [D387C108]
- GSM6755497 Eed_KO iMEFs H2AUb rep1 [D387C109]
- GSM6755498 Eed_KO iMEFs H2AUb rep2 [D387C110]
- GSM6755499 PRC2 WT iMEFs H3K4me3 rep1 [D387C131]
- GSM6755500 PRC2 WT iMEFs H3K4me3 rep2 [D387C132]
- GSM6755501 Ezh2_KO iMEFs H3K4me3 rep1 [D387C133]
- GSM6755502 Ezh2_KO iMEFs H3K4me3 rep2 [D387C134]
- GSM6755503 Ezh2_Y641F iMEFs H3K4me3 rep1 [D387C135]
- GSM6755504 Ezh2_Y641F iMEFs H3K4me3 rep2 [D387C136]
- GSM6755505 H3.3K27M iMEFs H3K4me3 rep1 [D387C137]
- GSM6755506 H3.3K27M iMEFs H3K4me3 rep2 [D387C138]
- GSM6755507 Eed_KO iMEFs H3K4me3 rep1 [D387C139]
- GSM6755508 Eed_KO iMEFs H3K4me3 rep2 [D387C140]
- GSM6755509 PRC2 WT iMEFs H3K27me2 rep1 [D127C73]
- GSM6755510 PRC2 WT iMEFs H3K27me2 rep2 [D127C74]
- GSM6755511 Ezh2_KO iMEFs H3K27me2 rep1 [D127C75]
- GSM6755512 Ezh2_KO iMEFs H3K27me2 rep2 [D127C76]
- GSM6755513 Ezh2_Y641F iMEFs H3K27me2 rep1 [D127C77]
- GSM6755514 Ezh2_Y641F iMEFs H3K27me2 rep2 [D127C78]
- GSM6755515 H3.3K27M iMEFs H3K27me2 rep1 [D127C79]
- GSM6755516 H3.3K27M iMEFs H3K27me2 rep2 [D127C80]
- GSM6755517 Eed_KO iMEFs H3K27me2 rep1 [D127C81]
- GSM6755518 Eed_KO iMEFs H3K27me2 rep2 [D127C82]
- GSM6755519 PRC2 WT iMEFs H3K27me3 rep1 [D127C53]
- GSM6755520 PRC2 WT iMEFs H3K27me3 rep2 [D127C54]
- GSM6755521 Ezh2_KO iMEFs H3K27me3 rep1 [D127C55]
- GSM6755522 Ezh2_KO iMEFs H3K27me3 rep2 [D127C56]
- GSM6755523 Ezh2_Y641F iMEFs H3K27me3 rep1 [D127C57]
- GSM6755524 Ezh2_Y641F iMEFs H3K27me3 rep2 [D127C58]
- GSM6755525 H3.3K27M iMEFs H3K27me3 rep1 [D127C59]
- GSM6755526 H3.3K27M iMEFs H3K27me3 rep2 [D127C60]
- GSM6755527 Eed_KO iMEFs H3K27me3 rep1 [D127C61]
- GSM6755528 Eed_KO iMEFs H3K27me3 rep2 [D127C62]
+ 116 more — browse all 156 samples with per-sample file links →
- GSE255548 EZH2 INHIBITION ENHANCES T CELL IMMUNOTHERAPIES BY INDUCING LYMPHOMA IMMUNOGENICITY AND IMPROVING T CELL FUNCTION (RNA-Seq) 35 samples same disease briefing · shares ezh2, inhibition
- GSE66166 Integration of gene mutations in risk prognostication for patients receiving first-line immunochemotherapy for follicular lymphoma 138 samples same disease briefing · shares mutations
- GSE42525 Affymetrix SNP array data for follicular lymphoma (FL) and transformed follicular lymphoma (tFL) samples 91 samples same disease briefing · shares transform
- GSE261465 STAT6 mutations compensate for CREBBP mutations and hyperactivate IL4/STAT6/RRAGD/mTOR signaling in follicular lymphoma 46 samples same disease briefing · shares mutations
- GSE303548 Cytokine-linked remodeling of the immune microenvironment is a hallmark of transformation in follicular lymphoma [bulkRNA-seq] 36 samples same disease briefing · shares transform
- GSE230036 ARID1A Mutations Promote Immune Evasion of Follicular Lymphoma Through Reduced FAS-Mediated Apoptosis by Hindering RUNX3-ETS1 Cooperativity. 30 samples same disease briefing · shares mutations
- GSE303544 Cytokine-linked remodeling of the immune microenvironment is a hallmark of transformation in follicular lymphoma [scRNA-seq] 9 samples same disease briefing · shares transform
- GSE273154 H3K5me3 modifications in OCI-LY19 cells with and without SETD1B mutations. 6 samples same disease briefing · shares mutations
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.