Activating mutations remodeled the chromatin accessibility landscape to drive distinct regulatory networks in KMT2A-rearranged acute leukemia
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 16 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
- 16 samples: 16 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
- Activating mutations remodel the chromatin accessibility landscape to drive distinct regulatory networks in KMT2A-rearranged acute leukemiaHemaSphere · 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 GSE248468_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 PRJNA1044086 and SRA study SRP473717. 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 16 sample titles: 16 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.
- GSM7914985 KMT2A::MLLT3, rep1, ATAC-seq
- GSM7914986 KMT2A::MLLT3, rep2, ATAC-seq
- GSM7914987 KMT2A::MLLT3, rep3, ATAC-seq
- GSM7914988 KMT2A::MLLT3, rep4, ATAC-seq
- GSM7914989 KMT2A::MLLT3+FLT3/ITD, rep1, ATAC-seq
- GSM7914990 KMT2A::MLLT3+FLT3/ITD, rep2, ATAC-seq
- GSM7914991 KMT2A::MLLT3+FLT3/ITD, rep3, ATAC-seq
- GSM7914992 KMT2A::MLLT3+FLT3/ITD, rep4, ATAC-seq
- GSM7914993 KMT2A::MLLT3+FLT3/N676K, rep1, ATAC-seq
- GSM7914994 KMT2A::MLLT3+FLT3/N676K, rep2, ATAC-seq
- GSM7914995 KMT2A::MLLT3+FLT3/N676K, rep3, ATAC-seq
- GSM7914996 KMT2A::MLLT3+FLT3/N676K, rep4, ATAC-seq
- GSM7914997 KMT2A::MLLT3+NRAS/G12D, rep1, ATAC-seq
- GSM7914998 KMT2A::MLLT3+NRAS/G12D, rep2, ATAC-seq
- GSM7914999 KMT2A::MLLT3+NRAS/G12D, rep3, ATAC-seq
- GSM7915000 KMT2A::MLLT3+NRAS/G12D, rep4, ATAC-seq
- GSE342312 T-bet and Runx3 orchestrate effector CD8 T cell differentiation and lineage fidelity through cooperative and distinct chromatin regulatory mechanisms [Multi-omics] 40 samples shares regulatory, chromatin, distinct
- GSE287551 Spatial organization, chromatin accessibility and gene-regulatory programs defining sensory neurons 10 samples shares accessibility, regulatory, chromatin
- GSE296014 Post-replicative chromatin accessibility predicts cell fate change. 81 samples shares accessibility, chromatin
- GSE216371 A single-cell atlas of chromatin accessibility in mouse organogenesis 68 samples shares accessibility, chromatin
- GSE264229 Mapping the male mouse chromatin accessibility landscape by UUATAC-seq 33 samples shares accessibility, chromatin
- GSE289298 OTX2 controls chromatin accessibility to direct somatic versus germline differentiation [ATAC-Seq] 32 samples shares accessibility, chromatin
- GSE318940 Smarca4 coordinates chromatin accessibility and metabolic programs to sustain hematopoietic stem cell function 25 samples shares accessibility, chromatin
- GSE246986 Ki67-mediated chromatin accessibility impedes B-cell antigen-receptor gene rearrangement 24 samples shares accessibility, chromatin
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.