Genome-wide rotational and translational phasing of nucleosomes with human transcription factors
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 54 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
- 54 samples: 54 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.
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 GSE267711_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 PRJNA1112442 and SRA study SRP508200. 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 54 sample titles: 54 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.
- GSM8273571 33924_K562_CTCF_rep2-1
- GSM8273587 32067_K562_NFIA_rep1-1
- GSM8273588 32116_K562_NFIA_rep1-2
- GSM8273589 34598_K562_NFIA_rep2-1
- GSM8273593 32070_K562_RAD21_rep1-1
- GSM8273594 32119_K562_RAD21_rep1-2
- GSM8273595 34621_K562_RAD21_rep2-1
- GSM8273598 34622_K562_SMC3_rep1-1
- GSM8607761 32354_HepG2_FOXA1_rep1-1
- GSM8607762 33219_HepG2_FOXA1_rep2-1
- GSM8607763 32467_HepG2_FOXA2_rep1-1
- GSM8607764 38480_HepG2_FOXA2_rep2-1
- GSM8607765 38481_HepG2_IgG_rep1-1
- GSM8607766 38482_HepG2_IgG_rep2-1
- GSM8607767 38483_HepG2_IgG_rep3-1
- GSM8607768 34174_K562_CTCF_rep1-1
- GSM8607769 38477_K562_FOXA1_rep1-1
- GSM8607770 38478_K562_FOXA1_rep2-1
- GSM8607771 32659_K562_FOXA2_rep1-1
- GSM8607772 38479_K562_FOXA2_rep2-1
- GSM8607773 33925_K562_IgG_rep1-1
- GSM8607774 33963_K562_IgG_rep2-1
- GSM8607775 34031_K562_IgG_rep3-1
- GSM8607776 34055_K562_IgG_rep4-1
- GSM8607777 34175_K562_IgG_rep5-1
- GSM8607778 34469_K562_IgG_rep6-1
- GSM8607779 34668_K562_IgG_rep7-1
- GSM8607780 36713_K562_IgG_rep8-1
- GSM8607781 36900_K562_IgG_rep9-1
- GSM8607782 37449_K562_IgG_rep10-1
- GSM8607783 38476_K562_SMC3_rep2-1
- GSM9848401 29009_K562_CTCF_nonXLBX_rep1-1
- GSM9848402 29010_K562_CTCF_nonXLBX_rep2-1
- GSM9848403 34158_HepG2_HNF4A_BX_rep1-1
- GSM9848404 38819_NativeK562_IgG_BX_rep1-1
- GSM9848405 39314_NativeK562_FOXA1_BX_rep2-1
- GSM9848406 39487_NativeK562_FOXA1_BX_rep1-1
- GSM9848407 39490_NativeHepG2_FOXA1_BX_rep1-1
- GSM9848408 39492_NativeHepG2_IgG_BX_rep1-1
- GSM9848409 39899_NativeHepG2_FOXA1_BX_rep2-1
+ 14 more — browse all 54 samples with per-sample file links →
- GSE302930 Epigenetic Atlas of Bladder Cancer Reveals Master Transcription Factors and Risk-Associated Regulatory Elements in Luminal and Basal-Squamous Molecular Subtypes 92 samples shares transcription, factors
- GSE293334 Allelic topological centering by transcription factors drives oncogenic multi-enhancer transcriptional regulation [ChIP-seq] 60 samples shares transcription, factors
- GSE301298 Functional redundancy between UTY and UTX in regulating the localization of transcription factors involved in pluripotency 88 samples shares transcription, factors
- GSE275721 Lineage master regulator and cancer-selective partner transcription factors rewire 3D genome topology for tumor-specific gene control 72 samples shares transcription, factors
- GSE142751 Genome-wide maps of chromatin state in 142 cancer cell lines [cell line] 855 samples shares genome-wide
- GSE339365 Genome-wide H3K4me3 profiling of circulating immune cells reveals dynamic epigenetic reprogramming during acute critical COVID-19 120 samples shares genome-wide
- GSE284519 TRIM33 loss reduces Androgen Receptor transcriptional output and H2BK120 ubiquitination [ChIP-seq] 93 samples shares transcription
- GSE296190 Hypoxic regulation of chromatin and gene transcription [ChIP-seq] 84 samples shares transcription
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.