CTCF promotes RNA pol II pausing and links DNA methylation to alternative splicing
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 10 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
- 10 samples
- 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 GSE31278_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 PRJNA145849 and SRA study SRP007885. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 10 more — browse all 10 samples with per-sample file links →
- GSE248132 LARP6 promotes carcinogenic features of triple negative breast cancer cell line by directly modulating alternative splicing of associated genes 10 samples shares alternative, promotes, splicing
- GSE100638 Large-scale tethering of RNA binding proteins discovers alternative splicing regulators 220 samples shares alternative, splicing
- GSE334651 Alternative splicing- and gene fusion-derived neoepitopes in MASLD-associated hepatocellular carcinoma 120 samples shares alternative, splicing
- GSE268177 Modulating alternative splicing of MECP2: A potential therapeutic strategy for Rett syndrome 93 samples shares alternative, splicing
- GSE297994 Native long-read RNA sequencing of human monocytes reveals activation-induced alternative splicing toward functional isoforms 22 samples shares alternative, splicing
- GSE330179 mRNA-seq analysis of S100A16-mediated alternative splicing in lung adenocarcinoma under oxidative stress 18 samples shares alternative, splicing
- GSE246916 MORC2 regulates RBM39-mediated CDK5RAP2 alternative splicing to promote EMT and metastasis in colon cancer 14 samples shares alternative, splicing
- GSE307247 Deciphering the cis-regulatory code of alternative splicing in human cell lines 11 samples shares alternative, splicing
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.