Chromothripsis orchestrates leukemic transformation in blast phase MPN through targetable amplification of DYRK1A
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 28 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
- Myeloproliferative neoplasmsThis series is part of our curated briefing on it.
- Samples
- 28 samples: 14 × Sample vs 14 × ATAC-SampleGroups 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
- 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 GSE240407_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 PRJNA1003519 and SRA study SRP454037. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 28 samples.
How we read this: 2 replicated groups read from 28 sample titles; they account for 28 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.
- GSM7697110 Sample_1 Sample
- GSM7697111 Sample_2 Sample
- GSM7697112 Sample_3 Sample
- GSM7697113 Sample_5 Sample
- GSM7697114 Sample_6 Sample
- GSM7697115 Sample_7 Sample
- GSM7697116 Sample_8 Sample
- GSM7697117 Sample_9 Sample
- GSM7697118 Sample_10 Sample
- GSM7697119 Sample_11 Sample
- GSM7697120 Sample_12 Sample
- GSM7697121 Sample_13 Sample
- GSM7697122 Sample_14 Sample
- GSM7697123 Sample_15 Sample
- GSM7697563 ATAC-Sample_1 ATAC-Sample
- GSM7697564 ATAC-Sample_2 ATAC-Sample
- GSM7697565 ATAC-Sample_3 ATAC-Sample
- GSM7697566 ATAC-Sample_5 ATAC-Sample
- GSM7697567 ATAC-Sample_6 ATAC-Sample
- GSM7697568 ATAC-Sample_7 ATAC-Sample
- GSM7697569 ATAC-Sample_8 ATAC-Sample
- GSM7697570 ATAC-Sample_9 ATAC-Sample
- GSM7697571 ATAC-Sample_10 ATAC-Sample
- GSM7697572 ATAC-Sample_11 ATAC-Sample
- GSM7697573 ATAC-Sample_12 ATAC-Sample
- GSM7697574 ATAC-Sample_13 ATAC-Sample
- GSM7697575 ATAC-Sample_14 ATAC-Sample
- GSM7697576 ATAC-Sample_15 ATAC-Sample
- GSE277354 Genetic charcterization of myeloproliferative neoplasms (MPN) 402 samples same disease briefing · shares mpn
- GSE300505 The histone-methyltransferase DOT1L cooperates with LSD1 to control cell division in blast-phase MPN [ChIP-seq] 37 samples same disease briefing · shares mpn
- GSE301154 Preclinical efficacy of tasquinimod-based combinations in advanced myeloproliferative neoplasms (MPN) in blastic phase 32 samples same disease briefing · shares mpn
- GSE254423 Single cell RNA sequencing of MPN patients from humans in South Korea 19 samples same disease briefing · shares mpn
- GSE183374 HMGA1 Chromatin Regulators Drive MPN Progression [RNA-Seq] 12 samples same disease briefing · shares mpn
- GSE277035 Pre-clinical efficacy of CDK7 inhibitor-based combinations against myeloproliferative neoplasms (MPN) transformed to AML 10 samples same disease briefing · shares mpn
- GSE190517 DUSP6 mediates resistance to JAK2 inhibition and drives leukemic progression (RNA-Seq) 20 samples same disease briefing · shares leukemic
- GSE214914 DUSP6 mediates resistance to JAK2 inhibition and drives leukemic progression (single-cell RNA-seq) 4 samples same disease briefing · shares leukemic
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.