Epigenetic regulators of clonal hematopoiesis control CD8 T cell stemness during immunotherapy [CUT&Tag]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 36 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
- 36 samples: 36 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
- Epigenetic regulators of clonal hematopoiesis control CD8 T cell stemness during immunotherapyScience (New York, N.Y.) · 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 GSE274865_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 PRJNA1148214 and SRA study SRP526438. 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 36 sample titles: 36 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.
- GSM8459602 Naive, Cut&Tag replicate 1, H3K27me3
- GSM8459603 Asxl1, Cut&Tag replicate 1, H3K27me3
- GSM8459604 Asxl1, Cut&Tag replicate 2, H3K27me3
- GSM8459605 Rosa, Cut&Tag replicate 1, H3K27me3
- GSM8459606 Rosa, Cut&Tag replicate 2, H3K27me3
- GSM8459607 Rosa, Cut&Tag replicate 3, H3K27me3
- GSM8459608 Rosa, Cut&Tag replicate 4, H3K27me3
- GSM8459609 Asxl1, Cut&Tag replicate 3, H3K27me3
- GSM8459610 Asxl1, Cut&Tag replicate 4, H3K27me3
- GSM8459611 Asxl1, Cut&Tag replicate 5, H3K27me3
- GSM8459612 Rosa, Cut&Tag replicate 1, H2AK119Ub
- GSM8459613 Rosa, Cut&Tag replicate 2, H2AK119Ub
- GSM8459614 Asxl1 Cut&Tag replicate 1, H2AK119Ub
- GSM8459615 Asxl1 Cut&Tag replicate 2, H2AK119Ub
- GSM8459616 Asxl1 Cut&Tag replicate 3, H2AK119Ub
- GSM8459617 Naive, Cut&Tag replicate 1, H3K4me3
- GSM8459618 Naive, Cut&Tag replicate 2, H3K4me3
- GSM8459619 Naive, Cut&Tag replicate 3, H3K4me3
- GSM8459620 Naive, Cut&Tag replicate 4, H3K4me3
- GSM8459621 Rosa, Cut&Tag replicate 1, H3K4me3
- GSM8459622 Rosa, Cut&Tag replicate 2, H3K4me3
- GSM8459623 Asxl1, Cut&Tag replicate 1, H3K4me3
- GSM8459624 Rosa, Cut&Tag replicate 3, H3K4me3
- GSM8459625 Rosa, Cut&Tag replicate 4, H3K4me3
- GSM8459626 Rosa, Cut&Tag replicate 5, H3K4me3
- GSM8459627 Asxl1, Cut&Tag replicate 2, H3K4me3
- GSM8459628 Asxl1, Cut&Tag replicate 3, H3K4me3
- GSM8459629 Asxl1, Cut&Tag replicate 4, H3K4me3
- GSM8459630 Naive, Cut&Tag replicate 1, H3K9ac
- GSM8459631 Naive, Cut&Tag replicate 2, H3K9ac
- GSM8459632 Naive, Cut&Tag replicate 3, H3K9ac
- GSM8459633 Naive, Cut&Tag replicate 4, H3K9ac
- GSM8459634 Rosa, Cut&Tag replicate 1, H3K9ac
- GSM8459635 Rosa, Cut&Tag replicate 2, H3K9ac
- GSM8459636 Asxl1, Cut&Tag replicate 1, H3K9ac
- GSM8459637 Asxl1, Cut&Tag replicate 2, H3K9ac
- GSE298002 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [CUT&Run] 38 samples shares cut, epigenetic
- GSE274875 A mutant ASXL1-EHMT complex contributes to heterochromatin dysfunction in clonal hematopoiesis and chronic monomyelocytic leukemia [Cut & Run] 38 samples shares cut, hematopoiesis
- GSE291663 Lactate and histone H3K18 lactylation are associated with metabolic control of gene expression in the retina [explant_CUT&Tag] 10 samples shares cut, control
- GSE282802 KMT2D controls cerebellar granule cell differentiation by temporally activating neuronal transcriptional factor genes [CUT&RUN] 10 samples shares cut, control
- GSE304763 A pan-immunotherapy signature to predict intratumoral CD8+ T cell expansions [scTCR_immunotherapies] 91 samples shares cd8, immunotherapy
- GSE255887 HDAC1 controls the generation and maintenance of effector-like CD8+ T cells during chronic viral infection 76 samples shares cd8, control
- GSE302682 Sleeping Beauty mutagenesis identifies BACH2 and other regulators promoting CD8+ T cell persistence and effector function under tumor-associated chronic antigen stimulation - RNAseq 66 samples shares cd8, regulators
- GSE334890 Discovery of Tcf7 regulators with clonally-resolved CRISPR screens identifies Trim28 as a mediator of CD8 T cell differentiation in tumors 48 samples shares cd8, regulators
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.