Genome-wide binding of the CRISPR endonuclease Cas9 in mammalian cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 18 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
- 18 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.
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 GSE54745_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 PRJNA237533 and SRA study SRP036833. 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.
+ 18 more — browse all 18 samples with per-sample file links →
- GSE236360 Tracking-seq reveals the heterogeneity of off-target effects in CRISPR/Cas9-mediated genome editing 111 samples shares crispr, cas9
- GSE281868 Identification of epigenetic regulators of fibrotic transformation in cardiac fibroblasts through bulk and single-cell CRISPR screens (ATAC-Seq_2) 12 samples shares crispr
- GSE335904 In Vivo CRISPR Screens Identify SLC1A5 as a Metabolic Checkpoint for Cancer Immunotherapy [ATAC] 4 samples shares crispr
- GSE92872 Pooled CRISPR screening with single-cell transcriptome read-out 100 samples shares crispr
- GSE293920 Programmable RNA acetylation with CRISPR-Cas13 56 samples shares crispr
- GSE272457 Characterization and bioinformatic filtering of ambient gRNAs in single-cell CRISPR screens using CLEANSER [scRNA-seq] 16 samples shares crispr
- GSE245463 Prediction and validation of a human immunodeficiency with CRISPR 14 samples shares crispr
- GSE277747 Pooled CRISPR screens with joint single-nucleus chromatin accessibility and transcriptome profiling 1 samples shares crispr
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.