DNase-seq from immature natural killer cell (ENCSR309XUP)
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 10 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
- 10 samples: 10 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 GSE322885_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 10 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.
- GSM9560451 DNase-seq from immature natural killer cell (ENCLB165XRX)
- GSM9560452 DNase-seq from immature natural killer cell (ENCLB816BTK)
- GSM9560453 DNase-seq from immature natural killer cell (ENCLB428YSA)
- GSM9560454 DNase-seq from immature natural killer cell (ENCLB430GWI)
- GSM9560455 DNase-seq from immature natural killer cell (ENCLB417XAR)
- GSM9560456 DNase-seq from immature natural killer cell (ENCLB125YLG)
- GSM9560457 DNase-seq from immature natural killer cell (ENCLB639SSW)
- GSM9560458 DNase-seq from immature natural killer cell (ENCLB281ORJ)
- GSM9560459 DNase-seq from immature natural killer cell (ENCLB935DCU)
- GSM9560460 DNase-seq from immature natural killer cell (ENCLB083NUG)
- GSE289476 Natural killer cells’ functional impairment drives the immune escape of pre-malignant clones in early-stage myelodysplastic syndromes 16 samples shares natural, killer
- GSE285061 Targeting SUMOylation triggers interferon-beta-dependent activation of patient and allogenic Natural Killer cells in preclinical models of Acute Myeloid Leukemia [CUT&RUN] 5 samples shares natural, killer
- GSE263923 Targeting SUMOylation triggers interferon-beta-dependent activation of patient and allogenic Natural Killer cells in preclinical models of Acute Myeloid Leukemia [ATAC-seq I] 4 samples shares natural, killer
- GSE269629 Metabolic programs drive function of therapeutic natural killer (NK) cells in low oxygen tumor microenvironments 63 samples shares natural, killer
- GSE274588 Enhancing Non-Small Cell Lung Cancer Treatment Utilizing Natural Killer Cell-Derived Extracellular Vesicles (NKEVS) As A Novel Adoptive Cellular Therapeutic [PBMC] 57 samples shares natural, killer
- GSE261930 CRISPR/Cas9 mutagenesis screening identifies PRDM1 as a key regulator of the natural killer T cell central memory program and effector function 51 samples shares natural, killer
- GSE264122 Characterization and comparative analysis of multifunctional natural killer cell engagers (NKCEs) during antitumor responses 45 samples shares natural, killer
- GSE287754 Defining the Effects of PKC Modulator HIV Latency-Reversing Agents on Natural Killer Cells 39 samples shares natural, killer
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.