Histone methyltransferase PRDM9 promotes survival of drug-tolerant persister cells in glioblastoma [ChIP-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 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
- Homo sapiens (human)
- 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
- Histone methyltransferase PRDM9 promotes survival of drug-tolerant persister cells in glioblastomaNature communications · 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 GSE279413_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 PRJNA1172661 and SRA study SRP538435. 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.
- GSM8569545 NTC UT n=1 INPUT
- GSM8569546 NTC C10 n=1 INPUT
- GSM8569547 PRDM9 (1) UT n=1 INPUT
- GSM8569548 PRDM9 (1) C10 n=1 INPUT
- GSM8569549 NTC UT n=2 INPUT
- GSM8569550 NTC C10 n=2 INPUT
- GSM8569551 PRDM9 (1) UT n=2 INPUT
- GSM8569552 PRDM9 (1) C10 n=2 INPUT
- GSM8569553 NTC UT n=1 H3K4me3 ChIP
- GSM8569554 NTC C10 n=1 H3K4me3 ChIP
- GSM8569555 PRDM9 (1) UT n=1 H3K4me3 ChIP
- GSM8569556 PRDM9 (1) C10 n=1 H3K4me3 ChIP
- GSM8569557 NTC UT n=2 H3K4me3 ChIP
- GSM8569558 NTC C10 n=2 H3K4me3 ChIP
- GSM8569559 PRDM9 (1) UT n=2 H3K4me3 ChIP
- GSM8569560 PRDM9 (1) C10 n=2 H3K4me3 ChIP
- GSE262251 Histone methyltransferase PRDM9 promotes survival of drug-tolerant persister cells in glioblastoma [RNA-seq] 12 samples shares prdm9, methyltransferase, drug-tolerant, glioblastoma, persister, promotes, survival
- GSE280454 Identification of a shared drug-tolerant persister program in triple-negative breast cancer across treatments and patients [CUT&Tag] 23 samples shares drug-tolerant, persister
- GSE260528 Three-dimensional regulatory hubs support oncogenic programs in glioblastoma [ChIP-seq] 20 samples shares glioblastoma, chip-seq
- GSE289004 Mitochondrial calcium uniporter links acetyl-CoA metabolism and H3K27 acetylation to maintain glioblastoma stem cells [ChIP-Seq] 12 samples shares glioblastoma, chip-seq
- GSE275305 Chromasome accessibility profiles at single cell level of Drug-tolerant persister cells induced by targeted therapy in lung adenocarcinoma. 10 samples shares drug-tolerant, persister
- GSE286432 An EGFR Co-amplified Long Noncoding RNA HELDR Promotes Glioblastoma Malignancy through KAT7-driven gene programs [ChIRP] 21 samples shares glioblastoma, promotes
- GSE260499 Focal adhesion kinase-YAP signaling axis drives drug-tolerant persister cells and residual disease in NSCLC (scRNA-Seq) 20 samples shares drug-tolerant, persister
- GSE236366 The tRNA Gm18 Methyltransferase TARBP1 Promotes Hepatocellular Carcinoma Progression via Metabolic Reprogramming of Glutamine [Ribo-seq] 10 samples shares methyltransferase, promotes
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.