Transposition of native chromatin for fast and sensitive epigenomic profiling of open chromatin, DNA-binding proteins and nucleosome position
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 13 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
- 13 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 GSE47753_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 PRJNA207663 and SRA study SRP024293. 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.
+ 13 more — browse all 13 samples with per-sample file links →
- GSE282760 Epigenomic manipulation reveals the relationship between locus specific chromatin dynamics and gene expression [ChIP-seq] 36 samples shares epigenomic, chromatin
- GSE229396 PGE2 alters chromatin through H2A.Zvariant enhancer nucleosome modification to promote hematopoietic stem cell fate (ChIP-Seq) 26 samples shares nucleosome, chromatin
- GSE279622 The macrophage response to LPS is marked by dynamic nucleosome positioning and increases in nucleosome sensitivity corresponding with immune regulatory factor footprints 24 samples shares nucleosome, position
- GSE292648 Nucleosome dynamics render heterochromatin generally accessible in living human cells (qDA seq in MCF7 nuclei in buffer without spermidine) 10 samples shares nucleosome, chromatin
- GSE229399 PGE2 alters chromatin through H2A.Zvariant enhancer nucleosome modification to promote hematopoietic stem cell fate 62 samples shares nucleosome, chromatin
- GSE227941 The nucleoskeleton protein NuMA maintains local chromatin architecture partially through promoting linker histone H1’ binding to chromatin and nucleosome stacking 21 samples shares nucleosome, chromatin
- GSE166103 HMGN5, an RNA and Nucleosome binding protein required for chromatin de-condensation and gene activation 13 samples shares nucleosome, chromatin
- GSE291318 Epigenomic profiling of circulating chromatin to detect and monitor squamous transformation in prostate cancer 12 samples shares epigenomic, 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.