Precision CRISPR annotation of the functional enhancer landscape in primary human T cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 11 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
- 11 samples: 10 distinct titles, 1 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.
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 GSE310188_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 PRJNA1365252 and SRA study SRP645456. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 11 sample titles: 10 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.
- GSM9290757 CD8
- GSM9290758 NaïveCD8s
- GSM9290759 Non-naiveCD8s
- GSM9290760 CM
- GSM9290761 EM1
- GSM9290762 EM2
- GSM9290763 EMRA
- GSM9290764 stim24hours
- GSM9290765 stim48hours
- GSM9290766 stim72hours
- GSM9290767 stim5days
- GSE327424 Virus-like particles enable targeted gene engineering and pooled CRISPR screening in primary human myeloid cells 86 samples shares crispr, primary
- GSE327133 Virus-like particles enable targeted gene engineering and pooled CRISPR screening in primary human myeloid cells [CRISPRoff] 28 samples shares crispr, primary
- GSE87257 Systematic mapping of functional enhancer-promoter connections with CRISPR interference 24 samples shares crispr, enhancer
- GSE327354 Virus-like particles enable targeted gene engineering and pooled CRISPR screening in primary human myeloid cells [RNA-seq Exp3] 18 samples shares crispr, primary
- GSE327352 Virus-like particles enable targeted gene engineering and pooled CRISPR screening in primary human myeloid cells [RNA-seq Exp2] 12 samples shares crispr, primary
- GSE276052 CRISPR screening identifies regulators of enhancer mediated androgen receptor transcription in advanced prostate cancer 92 samples shares crispr, enhancer
- GSE278910 Pooled CRISPR screens with joint single-nucleus chromatin accessibility and transcriptome profiling [CUT&RUN] 30 samples shares crispr
- GSE279036 Genome-wide CRISPR screen identifies Menin and SUZ12 as regulators of human developmental timing. 102 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.