CDK9 is a Dependency in GATA-3 driven and MCL-1 independent T-cell Lymphomas [ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 33 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
- 33 samples: 33 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
- CDK9 is a dependency in GATA-3 driven and MCL-1 independent T-cell LymphomasBlood cancer journal · 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 GSE296537_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 PRJNA1259917 and SRA study SRP583580. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 10 samples read as cases, 15 as controls.
How we read this: Read from 33 sample titles: 33 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.
- GSM8972238 H9 cells, DMSO, RPB1
- GSM8972239 H9 cells, DMSO, CDK9
- GSM8972240 H9 cells, DMSO, input
- GSM8972241 H9 cells, AZD4573, 4h, RPB1
- GSM8972242 H9 cells, AZD4573, 4h, input
- GSM8972243 Patient1, DMSO, RPB1
- GSM8972244 Patient1, DMSO, input
- GSM8972245 Patient1, AZD4573, 4h, RPB1
- GSM8972246 Patient1, AZD4573, 4h, input
- GSM8972247 H9 cells, control, GATA3
- GSM8972248 H9 cells, control, RPB1
- GSM8972249 H9 cells, control, phosphorylated RPB1
- GSM8972250 H9 cells, control, input
- GSM8972251 H9 cells, GATA3 KO, GATA3
- GSM8972252 H9 cells, GATA3 KO, RPB1
- GSM8972253 H9 cells, GATA3 KO, phosphorylated RPB1
- GSM8972254 H9 cells, GATA3 KO, input
- GSM8972255 H9 cells, GFP control transduced, GATA3
- GSM8972256 H9 cells, GFP control transduced, RPB1
- GSM8972257 H9 cells, GFP control transduced, phosphorylated RPB1
- GSM8972258 H9 cells, GFP control transduced, input
- GSM8972259 H9 cells, WT GATA3 transduced, GATA3
- GSM8972260 H9 cells, WT GATA3 transduced, RPB1
- GSM8972261 H9 cells, WT GATA3 transduced, phosphorylated RPB1
- GSM8972262 H9 cells, WT GATA3 transduced, input
- GSM8972263 Patient2, GATA3
- GSM8972264 Patient2, CDK9
- GSM8972265 Patient2, cyclin T1
- GSM8972266 Patient2, input
- GSM8972267 Patient3, GATA3
- GSM8972268 Patient3, CDK9
- GSM8972269 Patient3, cyclin T1
- GSM8972270 Patient3, input
- GSE265881 Tripartite phosphorylation of SPT5 by CDK9 times pause release and tunes elongation rate of RNA polymerase II (ChIP-Seq) 72 samples shares cdk9, chip-seq
- GSE280208 A CDK11-dependent RNA polymerase II pause-release checkpoint precedes CDK9-mediated transition to transcriptional elongation [ChIP-Seq] 33 samples shares cdk9, chip-seq
- GSE301284 KLF5 controls subtype-independent highly interactive enhancers in pancreatic cancer to regulate cell survival [ChIP-Seq] 46 samples shares independent, chip-seq
- GSE266407 ESR1 fusions invoke breast cancer subtype-dependent enrichment of ligand independent oncogenic signatures and phenotypes [ChIP-seq] 14 samples shares independent, chip-seq
- GSE309491 Independent cell type-specific expression and distal regulation of the 9p21 locus cell cycle regulators: p14ARF, p16INK4A, p15INK4A, and ANRIL [ChIP-seq] 9 samples shares independent, chip-seq
- GSE265883 Tripartite phosphorylation of SPT5 by CDK9 times pause release and tunes elongation rate of RNA polymerase II (CUT&RUN) 68 samples shares cdk9
- GSE312789 Inhibition of BIRC5 and MCL-1 as a potential treatment strategy to overcome drug resistance in Mantle Cell Lymphoma 56 samples shares mcl-1
- GSE324146 H3 dopaminylation and CaMKII modulate diffuse midline glioma response to CDK9 inhibition 50 samples shares cdk9
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.