DNase-seq from GM12878 (ENCSR910MAP)
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 32 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
- 32 samples: 32 samples, each with a distinct title — no replicated groupsGroups 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.
- Paper
- An integrated encyclopedia of DNA elements in the human genomeNature · 2012
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 GSE321483_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 PRJNA63443 and SRA study SRP000592. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 32 sample titles: 32 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.
- GSM9548814 DNase-seq from GM12878 (ENCLB495LSH)
- GSM9548815 DNase-seq from GM12878 (ENCLB832KGF)
- GSM9548816 DNase-seq from GM12878 (ENCLB194AAX)
- GSM9548817 DNase-seq from GM12878 (ENCLB485POC)
- GSM9548818 DNase-seq from GM12878 (ENCLB878VOD)
- GSM9548819 DNase-seq from GM12878 (ENCLB545UIR)
- GSM9548820 DNase-seq from GM12878 (ENCLB476TDG)
- GSM9548821 DNase-seq from GM12878 (ENCLB923ENN)
- GSM9548822 DNase-seq from GM12878 (ENCLB329XZK)
- GSM9548823 DNase-seq from GM12878 (ENCLB689QYS)
- GSM9548824 DNase-seq from GM12878 (ENCLB772VLU)
- GSM9548825 DNase-seq from GM12878 (ENCLB664VWP)
- GSM9548826 DNase-seq from GM12878 (ENCLB396HQH)
- GSM9548827 DNase-seq from GM12878 (ENCLB914EZH)
- GSM9548828 DNase-seq from GM12878 (ENCLB273WPT)
- GSM9548829 DNase-seq from GM12878 (ENCLB860SLK)
- GSM9548830 DNase-seq from GM12878 (ENCLB041WCR)
- GSM9548831 DNase-seq from GM12878 (ENCLB081RGW)
- GSM9548832 DNase-seq from GM12878 (ENCLB392HDE)
- GSM9548833 DNase-seq from GM12878 (ENCLB188MKM)
- GSM9548834 DNase-seq from GM12878 (ENCLB003GZO)
- GSM9548835 DNase-seq from GM12878 (ENCLB798GRI)
- GSM9548836 DNase-seq from GM12878 (ENCLB844ZIN)
- GSM9548837 DNase-seq from GM12878 (ENCLB432JBK)
- GSM9548838 DNase-seq from GM12878 (ENCLB740RUV)
- GSM9548839 DNase-seq from GM12878 (ENCLB514HQS)
- GSM9548840 DNase-seq from GM12878 (ENCLB976BOD)
- GSM9548841 DNase-seq from GM12878 (ENCLB597AAT)
- GSM9548842 DNase-seq from GM12878 (ENCLB879PFJ)
- GSM9548843 DNase-seq from GM12878 (ENCLB644PIN)
- GSM9548844 DNase-seq from GM12878 (ENCLB143OPW)
- GSM9548845 DNase-seq from GM12878 (ENCLB755SKK)
- GSE322916 DNase-seq from GM12878 (ENCSR507IEF) 4 samples shares gm12878, dnase-seq
- GSE320979 DNase-seq from K562 (ENCSR160FPV) 134 samples shares dnase-seq
- GSE322895 DNase-seq from K562 (ENCSR335RHJ) 26 samples shares dnase-seq
- GSE322885 DNase-seq from immature natural killer cell (ENCSR309XUP) 10 samples shares dnase-seq
- GSE321204 DNase-seq from K562 (ENCSR736XRU) 9 samples shares dnase-seq
- GSE322942 DNase-seq from K562 (ENCSR840YOF) 9 samples shares dnase-seq
- GSE320777 DNase-seq from HepG2 (ENCSR094FWH) 7 samples shares dnase-seq
- GSE321771 DNase-seq from K562 (ENCSR425QOB) 7 samples shares dnase-seq
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.