OTX2 inhibits human pluripotent stem cell reprogramming toward 8-cell-like and morula-like states
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 18 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
- 18 samples: 18 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
- OTX2 inhibits human pluripotent stem cell reprogramming toward 8-cell-like and morula-like statesNature communications · 2026
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 GSE287150_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 PRJNA1211499 and SRA study SRP557786. 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 18 sample titles: 18 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.
- GSM8740003 naive hPSCs_OTX2-OE-1 [Cut&Tag]
- GSM8740004 naive hPSCs_OTX2-OE-2 [Cut&Tag]
- GSM8740005 TLSCs_OTX2-OE-1 [Cut&Tag]
- GSM8740006 TLSCs_OTX2-OE-2 [Cut&Tag]
- GSM8740007 hPSCs_OTX2-OE-1 [Cut&Tag]
- GSM8740008 hPSCs_OTX2-OE-2 [Cut&Tag]
- GSM8740009 naive hPSCs_WT-1 [Cut&Tag]
- GSM8740010 naive hPSCs_WT-2 [Cut&Tag]
- GSM8740011 TLSCs_WT-1 [Cut&Tag]
- GSM8740012 TLSCs_WT-2 [Cut&Tag]
- GSM8740013 hPSCs_WT-1 [Cut&Tag]
- GSM8740014 hPSCs_WT-2 [Cut&Tag]
- GSM9038994 WT_H3K27me3
- GSM9038995 WT_H3K9me3
- GSM9038996 WT_H3K4me3
- GSM9038997 OTX2_KO_H3K27me3
- GSM9038998 OTX2_KO_H3K9me3
- GSM9038999 OTX2_KO_H3K4me3
- GSE307670 Epigenetic reprogramming of stromal cell states underpins pathologic tissue niches in Crohn’s disease 148 samples shares reprogramming, states
- GSE287613 p53 safeguards chemical reprogramming of human somatic cells towards pluripotency. 63 samples shares reprogramming, toward
- GSE339365 Genome-wide H3K4me3 profiling of circulating immune cells reveals dynamic epigenetic reprogramming during acute critical COVID-19 120 samples shares reprogramming
- GSE239270 Investigate FOXA2, NKX2-1, CTCF and P300 cistrome and enhancer (H3K27ac and H3k4me1) reprogramming during NEPC transformation by ChIP-seq. 104 samples shares reprogramming
- GSE339049 Severe long-COVID is driven by monocyte reprogramming and broad immune dysregulation linked to herpesvirus activation 48 samples shares reprogramming
- GSE281165 TFE3 fusion oncoprotein condensates drive epigenetic reprogramming and cancer progression [CUT&RUN] 43 samples shares reprogramming
- GSE206726 Epigenetic reprogramming of the mesenchymal state by SUV39H1/H2 [ChIP-Seq] 42 samples shares reprogramming
- GSE311971 Regulation of lineage reprogramming by dynamic chromatin SUMOylation (ChIP-seq) 41 samples shares reprogramming
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.