H3K36me3-coupled DNA Demethylation by DNMT3A Is Essential for Hypoxia-Induced EMT of Cancer Cells
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: 2 × SW480-Normoxia1 vs 2 × SW480-Normoxia2 vs 2 × SW480-Hypoxia1 vs 2 × SW480-Hypoxia2Groups 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
- Hypoxia-induced genome-wide DNA demethylation by DNMT3A and EMT of cancer cellsCellular & molecular biology letters · 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 GSE252167_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 PRJNA1057944 and SRA study SRP479538. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 8 samples.
How we read this: 4 replicated groups read from 16 sample titles; they account for 8 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.
- GSM7989243 SW480-Normoxia1-run1 SW480-Normoxia1
- GSM7989244 SW480-Normoxia2-run1 SW480-Normoxia2
- GSM7989245 SW480-Hypoxia1-run1 SW480-Hypoxia1
- GSM7989246 SW480-Hypoxia2-run1 SW480-Hypoxia2
- GSM7989247 SW480-Normoxia1-run2 SW480-Normoxia1
- GSM7989248 SW480-Normoxia2-run2 SW480-Normoxia2
- GSM7989249 SW480-Hypoxia1-run2 SW480-Hypoxia1
- GSM7989250 SW480-Hypoxia2-run2 SW480-Hypoxia2
- GSM7995389 SW480_normoxia-1_DNMT3A_ip
- GSM7995390 SW480_normoxia-1_input
- GSM7995391 SW480_normoxia-2_DNMT3A_ip
- GSM7995392 SW480_normoxia-2_input
- GSM7995393 SW480_hypoxia-1_DNMT3A_ip
- GSM7995394 SW480_hypoxia-1_input
- GSM7995395 SW480_hypoxia-2_DNMT3A_ip
- GSM7995396 SW480_hypoxia-2_input
- GSE252166 H3K36me3-coupled DNA Demethylation by DNMT3A Is Essential for Hypoxia-Induced EMT of Cancer Cells [ChIP-Seq] 8 samples shares dnmt3a, emt, h3k36me3-coupled, hypoxia-induced, demethylation, essential
- GSE216843 Hypoxia-induced CTCF mediates alternative splicing via coupling chromatin looping and RNA Pol II pause to promote EMT in breast cancer 18 samples shares emt, hypoxia-induced
- GSE268201 Characterizing EMT-Linked Heterogeneity in Breast Cancer Circulating Tumor Cells at the Single-Cell Level 33 samples shares emt
- GSE33072 An epithelial-mesenchymal transition (EMT) gene signature predicts resistance to erlotinib and PI3K pathway inhibitors and identifies Axl as a novel EMT marker in non-small cell lung cancer. 131 samples shares emt
- GSE290399 Long-term resident adipose-derived stromal stem cells in the microenvironment remodeling BLCA cell stemness and EMT promotes bladder cancer progression 12 samples shares emt
- GSE302452 Mutant RIT1 cooperates with YAP to drive an EMT-like lung cancer state [CUT&Run] 94 samples shares emt
- GSE309364 RNA-Seq analysis of cancer models with altered SLX4/XPF reveals links to migration, DNA damage response, EMT, and drug sensitivity 60 samples shares emt
- GSE248066 Total flavone of Abelmoschus manihot Lmedic inhibits the metastasis of colorectal cancer cells via inhibition of the STAT3/EMT signaling pathway by up-regulating LncRNAAL137782 6 samples shares emt
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.