CRISPRi-based genome-scale identification of functional long non-coding RNA loci in human cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 112 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
- 112 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 GSE85011_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 PRJNA335860 and SRA study SRP080367. 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.
+ 112 more — browse all 112 samples with per-sample file links →
- GSE317503 Reference-guided genome assembly of long non-coding RNA transcripts reveals target genes associated with Crohn’s disease 140 samples shares non-coding, long
- GSE302468 Long non-coding RNA triplex-dependent regulation of melanoma gene networks 24 samples shares non-coding, long
- GSE273022 Long non-coding RNA GRASLND links melanoma differentiation and interferon-gamma response 19 samples shares non-coding, long
- GSE274484 The Long Non-coding RNA Lnc-RAINY Regulates Genes Involved in Radiation Susceptibility Through DNA:DNA:RNA triplex-forming Interactions and has Tumor Therapeutic Potential in Non-small Cell Lung Cancers [ATAC-seq] 16 samples shares non-coding, long
- GSE281464 Dissecting Non-Coding GWAS Loci with High-Resolution 3D Chromatin Interactions Reveals Causal Genes with Relevance to Heart Failure [Perturb-seq] 7 samples shares non-coding, loci
- GSE145327 Loss of extreme long-range enhancers in human neural crest drives a craniofacial disorder 80 samples shares long
- GSE173590 Longitudinal trajectories of mild/moderate SARS-CoV2 infection reveals key precursors and predictors of convalescent virus-specific immunity 201 samples shares long
- GSE247691 Cellular adaptation to cancer therapy along a resistance continuum 93 samples shares long
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.