Selective Enhancer Dependencies in MYC-Intact and MYC-Rearranged Germinal Center B-cell Diffuse Large B-cell Lymphoma
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 132 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
- Diffuse large B-cell lymphomaThis series is part of our curated briefing on it.
- Samples
- 132 samples: 29 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
- Selective Enhancer Dependencies in MYC-Intact and MYC-Rearranged Germinal Center B-cell Diffuse Large B-cell LymphomaBlood cancer discovery · 2025
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 GSE230396_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 PRJNA961051 and SRA study SRP457860. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 84 samples.
How we read this: 29 replicated groups read from 132 sample titles; they account for 84 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.
- GSM7221393 BJAB_ATAC-seq
- GSM7221394 DB_ATAC-seq
- GSM7221395 HBL1_ATAC-seq
- GSM7221396 HT_ATAC-seq
- GSM7221402 RCK8_ATAC-seq
- GSM7221403 SUDHL5_ATAC-seq
- GSM7221404 TMD8_ATAC-seq
- GSM7221405 U2392_ATAC-seq
- GSM7221408 WSUDLCL2_ATAC-seq
- GSM7221410 BJAB_H3K27ac_ChIP-Seq
- GSM7221411 DB_H3K27ac_ChIP-Seq
- GSM7221412 HBL1_H3K27ac_ChIP-Seq
- GSM7221413 HT_H3K27ac_ChIP-Seq
- GSM7221419 RCK8_H3K27ac_ChIP-Seq
- GSM7221420 SUDHL5_H3K27ac_ChIP-Seq
- GSM7221421 TMD8_H3K27ac_ChIP-Seq
- GSM7221422 U2392_H3K27ac_ChIP-Seq
- GSM7221425 WSUDLCL2_H3K27ac_ChIP-Seq
- GSM7221426 Karpas422_OCT2_ChIP-Seq
- GSM7221427 Karpas422_OCA-B_ChIP-Seq
- GSM7221428 Karpas422_p300_ChIP-Seq
- GSM7221429 DB_OCT2_ChIP-Seq
- GSM7221430 SUDHL4_OCT2_ChIP-Seq
- GSM7221432 HT_input
- GSM7221433 SUDHL5_input
- GSM7221434 BJAB_input
- GSM7221435 Karpas422_input
- GSM7221436 DB_input
- GSM7221437 WSUDLCL2_input
- GSM7221439 U2392_input
- GSM7221440 RCK8_input
- GSM7221441 HBL1_input
- GSM7221442 TMD8_input
- GSM7748743 Granta519_tiling_CRISPRi_t0_rep1 Granta519_tiling_CRISPR…
- GSM7748744 Granta519_tiling_CRISPRi_t0_rep2 Granta519_tiling_CRISPR…
- GSM7748745 Granta519_tiling_CRISPRi_t14_rep1 Granta519_tiling_CRISPR…
- GSM7748746 Granta519_tiling_CRISPRi_t14_rep2 Granta519_tiling_CRISPR…
- GSM7748747 SP49_tiling_CRISPRi_t0_rep1 SP49_tiling_CRISPRi_t0
- GSM7748748 SP49_tiling_CRISPRi_t0_rep2 SP49_tiling_CRISPRi_t0
- GSM7748749 SP49_tiling_CRISPRi_t14_rep1 SP49_tiling_CRISPRi_t14
+ 92 more — browse all 132 samples with per-sample file links →
- GSE10846 Prediction of survival in diffuse large B cell lymphoma treated with chemotherapy plus Rituximab 420 samples same disease briefing · shares lymphoma, diffuse
- GSE15127 Genomic profiles of diffuse large B-cell lymphomas 167 samples same disease briefing · shares lymphoma, diffuse
- GSE193566 Longitudinal gene expression profiling identifies a poor risk subset of patients with ABC-type Diffuse Large B Cell Lymphoma 76 samples same disease briefing · shares lymphoma, diffuse
- GSE262621 Gene expression profiling of HIV-associated diffuse large B-cell lymphomas from Malawi 70 samples same disease briefing · shares lymphoma, diffuse
- GSE213555 Molecular and pathological characterisation of diffuse large B-cell lymphomas in children with Nijmegen breakage syndrome 41 samples same disease briefing · shares lymphoma, diffuse
- GSE139185 KDM4A/KDM4C lysine demethylases sustain an oncogenic transcriptional program in diffuse large B-cell lymphoma 40 samples same disease briefing · shares lymphoma, diffuse
- GSE139022 KDM4A/KDM4C lysine demethylases sustain an oncogenic transcriptional program in diffuse large B-cell lymphoma [ChIP-Seq] 31 samples same disease briefing · shares lymphoma, diffuse
- GSE190403 The tumor associated antigen PRAME exhibits dualistic functions that are targetable in diffuse large B cell lymphoma 30 samples same disease briefing · shares lymphoma, diffuse
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.