ZIC2 and ZIC3 promote SWI/SNF recruitment to safeguard progression towards human primed pluripotency
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 205 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
- 205 samples: 154 distinct titles, 38 of them repeatedGroups 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
- ZIC2 and ZIC3 promote SWI/SNF recruitment to safeguard progression towards human primed pluripotencyNature communications · 2024
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 GSE270787_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 PRJNA1128164 and SRA study SRP516095. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 1 samples read as cases, 51 as controls.
How we read this: Read from 205 sample titles: 154 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.
- GSM8351846 AJC002 primed hiPSC, ZIC2 ChIP-seq, rep1
- GSM8351847 AJC002 primed hiPSC, IgG ChIP-seq, rep1
- GSM8351848 AJC002 primed hiPSC, Input, rep1
- GSM8351849 UCLA1 primed hESC, ZIC2 ChIP-seq, rep1
- GSM8351850 UCLA1 primed hESC, IgG ChIP-seq, rep1
- GSM8351851 UCLA1 primed hESC, Input, rep1
- GSM8351852 UCLA1 primed hESC, ZIC2 ChIP-seq, rep2
- GSM8351853 UCLA1 primed hESC, IgG ChIP-seq, rep2
- GSM8351854 UCLA1 primed hESC, Input, rep2
- GSM8351855 UCLA1 primed hESC, ZIC2 ChIP-seq, rep3 (technical rep 1)
- GSM8351856 UCLA1 primed hESC, IgG ChIP-seq, rep3
- GSM8351857 UCLA1 primed hESC, ZIC2 ChIP-seq, rep3 (technical rep 2)
- GSM8351858 UCLA1 primed hESC, Input, rep3
- GSM8351859 UCLA1 primed hESC, IgG ChIP-seq, rep4
- GSM8351860 UCLA1 primed hESC, ZIC2 ChIP-seq, rep4
- GSM8351861 UCLA1 primed hESC, Input, rep4
- GSM8351862 UCLA1 naïve hESC, Inducible ZIC2 DOX 0h, Flag ChIP-seq
- GSM8351863 UCLA1 naïve hESC, Inducible ZIC2 DOX 0h, H3K27me3 ChIP-seq, rep1
- GSM8351864 UCLA1 naïve hESC, Inducible ZIC2 DOX 0h, Input, rep1
- GSM8351865 UCLA1 naïve hESC, Inducible ZIC2 DOX 0h, H3K27me3 ChIP-seq, rep2
- GSM8351866 UCLA1 naïve hESC, Inducible ZIC2 DOX 0h, Input, rep2
- GSM8351867 UCLA1 naïve hESC, Inducible ZIC2 DOX 24h, Flag ChIP-seq
- GSM8351868 UCLA1 naïve hESC, Inducible ZIC2 DOX 24h, H3K27me3 ChIP-seq, rep1
- GSM8351869 UCLA1 naïve hESC, Inducible ZIC2 DOX 24h, Input, rep1
- GSM8351870 UCLA1 naïve hESC, Inducible ZIC2 DOX 24h, H3K27me3 ChIP-seq, rep2
- GSM8351871 UCLA1 naïve hESC, Inducible ZIC2 DOX 24h, Input, rep2
- GSM8351872 UCLA1 naïve hESC, Inducible ZIC2 DOX 72h, Flag ChIP-seq
- GSM8351873 UCLA1 naïve hESC, Inducible ZIC2 DOX 72h, H3K27me3 ChIP-seq
- GSM8351874 UCLA1 naïve hESC, Inducible ZIC2 DOX 72h, Input (control for H3K27me3 ChIP)
- GSM8351875 UCLA1 naïve hESC, Inducible ZIC2 DOX 72h, Input (control for Flag ChIP)
- GSM8351876 UCLA1 naïve hESC, Inducible ZIC2 DOX 8h, Flag ChIP-seq
- GSM8351877 UCLA1 naïve hESC, Inducible ZIC2 DOX 8h, H3K27me3 ChIP-seq, rep1
- GSM8351878 UCLA1 naïve hESC, Inducible ZIC2 DOX 8h, Input, rep1
- GSM8351879 UCLA1 naïve hESC, Inducible ZIC2 DOX 8h, H3K27me3 ChIP-seq, rep2
- GSM8351880 UCLA1 naïve hESC, Inducible ZIC2 DOX 8h, Input, rep2
- GSM8351881 UCLA1 primed hESC, ZIC2-/-, H3K27me3 ChIP-seq, rep1
- GSM8351882 UCLA1 primed hESC, ZIC2-/-, Input, rep1
- GSM8351883 UCLA1 primed hESC, ZIC2-/-, H3K27me3 ChIP-seq, rep2
- GSM8351884 UCLA1 primed hESC, ZIC2-/-, Input, rep2
- GSM8351885 UCLA1 primed hESC, ZIC2-/-, H3K27me3 ChIP-seq, rep3
+ 165 more — browse all 205 samples with per-sample file links →
- GSE270784 ZIC2 and ZIC3 promote SWI/SNF recruitment to safeguard progression towards human primed pluripotency [ChIP-seq] 107 samples shares zic2, zic3, swi, snf, pluripotency, recruitment, progression, safeguard
- GSE270948 ZIC2 and ZIC3 promote SWI/SNF recruitment to safeguard progression towards human primed pluripotency [ATAC-Seq] 46 samples shares zic2, zic3, swi, snf, pluripotency, recruitment, progression, safeguard
- GSE180487 PHF6 cooperates with SWI/SNF complexes to facilitate transcriptional progression 137 samples shares swi, snf, progression
- GSE180483 PHF6 cooperates with SWI/SNF complexes to facilitate transcriptional progression [ChIP-seq] 88 samples shares swi, snf, progression
- GSE261988 SWI/SNF is a gatekeeper of chromatin access at enhancer networks controlling triple-negative breast cancer progression [ChIP-Seq] 79 samples shares swi, snf, progression
- GSE180481 PHF6 cooperates with SWI/SNF complexes to facilitate transcriptional progression [RNA-seq] 38 samples shares swi, snf, progression
- GSE301505 Mutual Antagonism Between PRC1 Condensates and SWI/SNF in Chromatin Regulation 210 samples shares swi, snf
- GSE315219 PHIP suppresses NuRD to enable the growth of SWI/SNF-mutant cancers 174 samples shares swi, snf
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.