Differential gene expression in leukemia is driven by enhancer heterogeneity [ATAC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 15 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)
- Samples
- 15 samples: 5 × chALL vs 3 × RS411_A vs 3 × SEM_B vs 2 × iALLGroups 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
- Enhancer heterogeneity in acute lymphoblastic leukemia drives differential gene expression in patientsBlood · 2025
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 GSE283164_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 PRJNA1192264 and SRA study SRP548396. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 13 samples.
How we read this: 4 replicated groups read from 15 sample titles; they account for 13 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.
- GSM8657055 chALL1 chALL
- GSM8657056 chALL2 chALL
- GSM8657057 chALL3 chALL
- GSM8657058 chALL4 chALL
- GSM8657059 chALL7 chALL
- GSM8657060 iALL2 iALL
- GSM8657061 iALL9 iALL
- GSM8657062 RS411_A4 RS411_A
- GSM8657063 RS411_A6 RS411_A
- GSM8657064 RS411_A8 RS411_A
- GSM8657065 RS411_C10
- GSM8657066 SEM_B11 SEM_B
- GSM8657067 SEM_B4 SEM_B
- GSM8657068 SEM_B9 SEM_B
- GSM8657069 SEM_C6
- GSE278751 A stem cell model identifies two alternative cell fates in CBFA2T3::GLIS2-driven acute megakaryoblastic leukemia initiation (Multiome scRNA-seq/scATAC-seq) 14 samples shares leukemia, atac-seq, driven
- GSE270503 Epigenetic heterogeneity and state-specific transcriptional programs determine differential drug response in osteosarcoma [Cut&Run] 56 samples shares heterogeneity, differential
- GSE244446 Altered enhancer-promoter interaction leads to MNX1 expression in pediatric acute myeloid leukemia with t(7;12)(q36;p13) [ACT-Seq] 32 samples shares leukemia, enhancer
- GSE244275 Altered enhancer-promoter interaction leads to MNX1 expression in pediatric acute myeloid leukemia with t(7;12)(q36;p13) [4C-Seq] 10 samples shares leukemia, enhancer
- GSE126044 Genome-wide identification of differentially methylated promoters and enhancers associated with response to anti-PD-1 therapy in non-small cell lung cancer 16 samples shares differential, enhancer
- GSE273054 Differential chromatin accessibility analysis elucidates mechanisms of coronary artery disease-associated genetic variation 119 samples shares differential
- GSE268580 Highly multiplexed single cell chromatin regulator and accessibility profiling elucidates chromatin dynamics in human B cell development and oncogenesis, and reveals an adverse prognostic gene expression signature in B lymphoblastic leukemias 15 samples shares leukemia
- GSE314776 Decoding 3D chromatin architecture reveals distinct enhancer classes underlying hierarchical gene regulation in prostate cancer [ChIP-Seq] 24 samples shares enhancer
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.