DOT1L-mediated CDK9 methylation is essential for DNA double-strand break repair [RNA-seq]
DNA methylation · human · 10 samples
- What it is
- DNA methylationChemical marks on DNA that help switch genes on or off.
- Organism
- Homo sapiens (human)
- Samples
- 10 samples: 5 conditions, mostly in duplicateGroups 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.
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 GSE315014_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 beta-value tables or raw IDAT files among the supplementary files.
Also filed as BioProject PRJNA1394858 and SRA study SRP658360. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 5 replicated groups read from 10 sample titles; they account for 10 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.
- GSM9420147 DMSO_S1 DMSO_S
- GSM9420148 DMSO_S2 DMSO_S
- GSM9420149 EPZ_S1 EPZ_S
- GSM9420150 EPZ_S2 EPZ_S
- GSM9420151 shCDK9_EV_S1 shCDK9_EV_S
- GSM9420152 shCDK9_EV_S2 shCDK9_EV_S
- GSM9420153 shCDK9_WT_S1 shCDK9_WT_S
- GSM9420154 shCDK9_WT_S2 shCDK9_WT_S
- GSM9420155 shCDK9_K56A_S1 shCDK9_K56A_S
- GSM9420156 shCDK9_K56A_S2 shCDK9_K56A_S
- GSE337276 DNA methylation maintenance by DNMT1 is essential for human trophoblast stem cell homeostasis and differentiation [RNA-seq] 15 samples shares methylation, essential, rna-seq
- GSE304074 RAD51 proximity mapping reveals spatial constraints on homology search during DNA double-stranded break repair 118 samples shares double-strand, repair, break
- GSE271704 5G-exposed human skin cells do not respond with altered gene expression and methylation profiles [RNA-Seq] 120 samples shares methylation, rna-seq
- GSE274999 Clinical response to azacitidine in MDS is associated with distinct DNA methylation changes in HSPCs [RNA-Seq] 52 samples shares methylation, rna-seq
- GSE284289 Removal of promoter DNA methylation by epigenome editing reverses HBG silencing [RNA-seq] 40 samples shares methylation, rna-seq
- GSE292130 Longitudinal changes in DNA methylation in IDH-mutant glioma fuel disease progression through altered cell state differentiation [scRNA-seq] 31 samples shares methylation, rna-seq
- GSE274217 METTL3-dependent m6A RNA methylation represses transposable elements derived enhancers to suppress naïve pluripotency in human pluripotent stem cells [RNA-Seq] 28 samples shares methylation, rna-seq
- GSE302178 Umbilical Cord Blood Cell Transcriptional and Methylation Signatures at Birth Are Associated with BPD Development [RNA-Seq] 27 samples shares methylation, rna-seq
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.