Genome-wide maps of chromatin state in 142 cancer cell lines [patient]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 22 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
- 22 samples: 19 × H3K27ac_ChIPseq, GBMTGroups 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 GSE271175_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 PRJNA1130409 and SRA study SRP517214. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 19 samples.
How we read this: 1 replicated groups read from 22 sample titles; they account for 19 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.
- GSM8371379 H3K27ac_ChIPseq, GBMT-0246 H3K27ac_ChIPseq, GBMT
- GSM8371380 H3K27ac_ChIPseq, GBMT-0352 H3K27ac_ChIPseq, GBMT
- GSM8371381 H3K27ac_ChIPseq, GBMT-0358 H3K27ac_ChIPseq, GBMT
- GSM8371382 H3K27ac_ChIPseq, GBMT-0359 H3K27ac_ChIPseq, GBMT
- GSM8371383 H3K27ac_ChIPseq, GBMT-0392 H3K27ac_ChIPseq, GBMT
- GSM8371384 H3K27ac_ChIPseq, GBMT-0511 H3K27ac_ChIPseq, GBMT
- GSM8371385 H3K27ac_ChIPseq, GBMT-0517 H3K27ac_ChIPseq, GBMT
- GSM8371386 H3K27ac_ChIPseq, GBMT-0518 H3K27ac_ChIPseq, GBMT
- GSM8371387 H3K27ac_ChIPseq, GBMT-0520 H3K27ac_ChIPseq, GBMT
- GSM8371388 H3K27ac_ChIPseq, GBMT-0531 H3K27ac_ChIPseq, GBMT
- GSM8371389 H3K27ac_ChIPseq, GBMT-1830 H3K27ac_ChIPseq, GBMT
- GSM8371390 H3K27ac_ChIPseq, GBMT-1831 H3K27ac_ChIPseq, GBMT
- GSM8371391 H3K27ac_ChIPseq, GBMT-1832 H3K27ac_ChIPseq, GBMT
- GSM8371392 H3K27ac_ChIPseq, GBMT-1833 H3K27ac_ChIPseq, GBMT
- GSM8371393 H3K27ac_ChIPseq, GBMT-1834 H3K27ac_ChIPseq, GBMT
- GSM8371394 H3K27ac_ChIPseq, GBMT-1835 H3K27ac_ChIPseq, GBMT
- GSM8371395 H3K27ac_ChIPseq, GBMT-1837 H3K27ac_ChIPseq, GBMT
- GSM8371396 H3K27ac_ChIPseq, GBMT-2521 H3K27ac_ChIPseq, GBMT
- GSM8371397 H3K27ac_ChIPseq, GBMT-2522 H3K27ac_ChIPseq, GBMT
- GSM8371398 H3K27ac_ChIPseq, GBMT-M001
- GSM8371399 H3K27ac_ChIPseq, GBMT-U087
- GSM8371400 H3K27ac_ChIPseq, GBMT-V001
- GSE142751 Genome-wide maps of chromatin state in 142 cancer cell lines [cell line] 855 samples shares genome-wide, chromatin, state, lines, maps
- GSE314776 Decoding 3D chromatin architecture reveals distinct enhancer classes underlying hierarchical gene regulation in prostate cancer [ChIP-Seq] 24 samples shares chromatin, state
- GSE327821 Single-molecule, single-cell profiling of linked chromatin states [Single_cell_CoCUT&Tag] 200 samples shares chromatin, state
- GSE327819 Single-molecule, single-cell profiling of linked chromatin states [Bulk_CoCUT&Tag] 35 samples shares chromatin, state
- GSE314777 Decoding 3D chromatin architecture reveals distinct enhancer classes underlying hierarchical gene regulation in prostate cancer 10 samples shares chromatin, state
- GSE270126 Divergent medulloblastoma chromatin states disclose KDM2B as a selective dependency. 219 samples shares chromatin, state
- GSE272080 3D chromatin-based variant-to-gene maps across 57 human cell types reveal the cellular and genetic architecture of autoimmune disease susceptibility [captureC] 6 samples shares chromatin, maps
- GSE303855 Mechanistic and Epigenetic Partitioning of Lamina-Associated Chromatin Revealed by a Genome-Wide Imaging Screen 45 samples shares genome-wide, chromatin
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.