Chromothripsis orchestrates leukemic transformation in blast phase MPN through targetable amplification of DYRK1A [ATAC]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 14 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
- 14 samples
- 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
- Chromothripsis-associated chromosome 21 amplification orchestrates transformation to blast-phase MPN through targetable overexpression of DYRK1ANature genetics · 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 GSE240405_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 PRJNA1003524 and SRA study SRP454086. Searching any of these in the dataset finder brings you back here.
The grouping that defines any comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Sample titles run ATAC-Sample_1 … ATAC-Sample_15 and carry no group information.
- GSM7697563 ATAC-Sample_1
- GSM7697564 ATAC-Sample_2
- GSM7697565 ATAC-Sample_3
- GSM7697566 ATAC-Sample_5
- GSM7697567 ATAC-Sample_6
- GSM7697568 ATAC-Sample_7
- GSM7697569 ATAC-Sample_8
- GSM7697570 ATAC-Sample_9
- GSM7697571 ATAC-Sample_10
- GSM7697572 ATAC-Sample_11
- GSM7697573 ATAC-Sample_12
- GSM7697574 ATAC-Sample_13
- GSM7697575 ATAC-Sample_14
- GSM7697576 ATAC-Sample_15
- GSE292030 Chromothripsis-associated chromosome 21 amplification orchestrates transformation to blast phase MPN through targetable overexpression of DYRK1A 10 samples shares dyrk1a, mpn, chromothripsis, transformation, amplification, orchestrates, targetable
- GSE293201 Ectopic MYC Expression Reprograms Epigenetic Landscapes and Transcription Factor Networks to Drive Differentiation Block and Malignant Transformation in AML [ATAC-seq] 35 samples shares atac, transformation
- GSE281434 Loss of SMARCB1 evokes targetable epigenetic vulnerabilities in Epithelioid Sarcoma [ATAC-Seq] 24 samples shares atac, targetable
- GSE291386 Chromatin accessibility profiling of HSPC-derived erythroblast differentiation [ATAC-seq] 165 samples shares atac
- GSE289805 Histone H4 lysine 20 tri-methylation safeguards breast cancer lineage fidelity and unfolded protein response [ChIP-seq/ATAC-seq] 126 samples shares atac
- GSE252382 ATACseq of TNBC cell lines treated with EZH2i (tazemetostat) and/or AKTi (ipatasertib) 84 samples shares atac
- GSE298042 ATAC-Seq of Patient-Derived Xenografts in Metastatic Castration Resistant Prostate Cancer (LuCaP Series) 77 samples shares atac
- GSE270684 The EZH2 and EZH1 inhibitor valemetostat derepresses p16INK4a to induce early endomitotic exit in megakaryocytes [scATAC-Seq] 66 samples shares atac
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.