Localization of H2AS40Gc in MDA-MB-231 and expression profile in H2AS40-knockdown cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 11 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
- 11 samples: 3 × MDA-MB-231, Control-KD, vs 3 × MDA-MB-231, H2AS40-KD,Groups 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
- O-GlcNAcylation on serine 40 of histone H2A promotes proliferation and invasion in triple-negative breast cancerScientific reports · 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 GSE274331_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 PRJNA1145975 and SRA study SRP525084. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 6 samples.
How we read this: 2 replicated groups read from 11 sample titles; they account for 6 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.
- GSM8447562 MDA-MB-231, H2AS40Gc, ChIP
- GSM8447563 MDA-MB-231, H3K4me3, ChIP
- GSM8447564 MDA-MB-231, H3K27me3, ChIP
- GSM8447565 MDA-MB-231, H3K36me3, ChIP
- GSM8447566 MDA-MB-231,Input
- GSM8447567 MDA-MB-231, Control-KD, Rep1 MDA-MB-231, Control-KD,
- GSM8447568 MDA-MB-231, Control-KD, Rep2 MDA-MB-231, Control-KD,
- GSM8447569 MDA-MB-231, Control-KD, Rep3 MDA-MB-231, Control-KD,
- GSM8447570 MDA-MB-231, H2AS40-KD, Rep1 MDA-MB-231, H2AS40-KD,
- GSM8447571 MDA-MB-231, H2AS40-KD, Rep2 MDA-MB-231, H2AS40-KD,
- GSM8447572 MDA-MB-231, H2AS40-KD, Rep3 MDA-MB-231, H2AS40-KD,
- GSE249323 Dishevelled-1 regulates global transcriptomic changes in MDA-MB-231 triple negative breast cancer cells 15 samples shares mda-mb-231
- GSE228621 Effect of SCN5A depletion on gene expression in xenograft tumours of MDA-MB-231 breast cancer cells 12 samples shares mda-mb-231
- GSE59230 Regulation of gene expression by loss-of-YAP/TAZ in MDA-MB-231 breast cancer cells 12 samples shares mda-mb-231
- GSE234571 The METTL3:METTL14 RNA methyltransferase regulates gene expression in MDA-MB-231 breast cancer cells 9 samples shares mda-mb-231
- GSE236953 Gene expression profiling of MDA-MB-231 cells incubated with therapy induced senescence secretome 9 samples shares mda-mb-231
- GSE252239 KHSRP has oncogenic functions and regulates the expression and alternative splicing of DNA repair genes in breast cancer MDA-MB-231 cells 6 samples shares mda-mb-231
- GSE235137 LncRNA RPPH1 regulated gene expression changes in breast cancer MDA-MB-231 cells 6 samples shares mda-mb-231
- GSE57539 lncRNA and mRNA expression of cytokine treated MDA-MB-231 cells 6 samples shares mda-mb-231
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.