Reversible epiblast regionalisation determines differentiation potential of human PSCs
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 141 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
- 141 samples: 58 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.
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 GSE334577_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 PRJNA1475490 and SRA study SRP706153. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 128 samples.
How we read this: 58 replicated groups read from 141 sample titles; they account for 128 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.
- GSM9781265 burb1_untreated_rep1 burb1_untreated
- GSM9781266 burb1_untreated_rep2 burb1_untreated
- GSM9781267 fiaj1_untreated_rep1 fiaj1_untreated
- GSM9781268 fiaj1_untreated_rep2 fiaj1_untreated
- GSM9781269 H1_untreated_rep1 H1_untreated
- GSM9781270 H1_untreated_rep2 H1_untreated
- GSM9781271 H9_untreated_rep1 H9_untreated
- GSM9781272 H9_untreated_rep2 H9_untreated
- GSM9781273 hehd1_untreated_rep1 hehd1_untreated
- GSM9781274 hehd1_untreated_rep2 hehd1_untreated
- GSM9781275 HUES8_untreated_rep1 HUES8_untreated
- GSM9781276 HUES8_untreated_rep2 HUES8_untreated
- GSM9781277 kolf2_untreated_rep1 kolf2_untreated
- GSM9781278 kolf2_untreated_rep2 kolf2_untreated
- GSM9781279 sojd3_untreated_rep1 sojd3_untreated
- GSM9781280 sojd3_untreated_rep2 sojd3_untreated
- GSM9781281 burb1_untreated_rep3 burb1_untreated
- GSM9781282 burb1_untreated_rep4 burb1_untreated
- GSM9781283 burb1_CHR_rep1 burb1_CHR
- GSM9781284 burb1_CHR_rep2 burb1_CHR
- GSM9781285 fiaj1_untreated_rep3 fiaj1_untreated
- GSM9781286 fiaj1_untreated_rep4 fiaj1_untreated
- GSM9781287 fiaj1_CHR_rep1 fiaj1_CHR
- GSM9781288 fiaj1_CHR_rep2 fiaj1_CHR
- GSM9781289 hehd1_untreated_rep3 hehd1_untreated
- GSM9781290 hehd1_untreated_rep4 hehd1_untreated
- GSM9781291 hehd1_CHR_rep1 hehd1_CHR
- GSM9781292 hehd1_CHR_rep2 hehd1_CHR
- GSM9781293 sojd3_untreated_rep3 sojd3_untreated
- GSM9781294 sojd3_untreated_rep4 sojd3_untreated
- GSM9781295 sojd3_CHR_rep1 sojd3_CHR
- GSM9781296 sojd3_CHR_rep2 sojd3_CHR
- GSM9781297 cuhk2_untreated_rep1 cuhk2_untreated
- GSM9781298 cuhk2_untreated_rep2 cuhk2_untreated
- GSM9781299 deyz2_untreated_rep1 deyz2_untreated
- GSM9781300 deyz2_untreated_rep2 deyz2_untreated
- GSM9781301 feec2_untreated_rep1 feec2_untreated
- GSM9781302 feec2_untreated_rep2 feec2_untreated
- GSM9791177 H9, untreated, replicate 1 H9, untreated,
- GSM9791178 H9, untreated, replicate 2 H9, untreated,
+ 101 more — browse all 141 samples with per-sample file links →
- GSE335881 Reversible epiblast regionalisation determines differentiation potential of human PSCs [RNA-Seq] 43 samples shares regionalisation, reversible, determines, potential, epiblast, pscs
- GSE334112 Reversible epiblast regionalisation determines differentiation potential of human PSCs [ATAC-seq] 38 samples shares regionalisation, reversible, determines, potential, epiblast, pscs
- GSE284370 Feeder-free culture of naive human PSCs preserving embryonic, extraembryonic and blastoid potential 57 samples shares potential, pscs
- GSE307264 Human myeloid ontogeny drives differentiation potential in the brain environment. 105 samples shares potential
- GSE299717 Human myeloid ontogeny drives differentiation potential in the brain environment [RNA-seq] 37 samples shares potential
- GSE296850 Uhrf1 determines osteophyte fate by regulating differentiation of synovial mesenchymal progenitor cells 10 samples shares determines
- GSE291257 Gene Expression Profiling Identifies Potential Biomarkers for Vaso-Occlusive Episodes in Sickle Cell Disease 414 samples shares potential
- GSE313871 A reversible broad-spectrum antiviral targets the human V-ATPase VO domain 48 samples shares reversible
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.