Systemic human ILC precursors provide a substrate for tissue ILC differentiation
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 6 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
- 6 samples: 4 × H3K4Me2_ILCP vs 2 × H3K4Me2_HSCGroups 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 GSE90640_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 PRJNA355273 and SRA study SRP094049. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 6 samples.
How we read this: 2 replicated groups read from 6 sample titles; they account for 6 of them. 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.
- GSM2409786 H3K4Me2_ILCP_rep1 H3K4Me2_ILCP
- GSM2409787 H3K4Me2_ILCP_rep2 H3K4Me2_ILCP
- GSM2409788 H3K4Me2_ILCP_rep3 H3K4Me2_ILCP
- GSM2409789 H3K4Me2_ILCP_rep4 H3K4Me2_ILCP
- GSM2409790 H3K4Me2_HSC_rep1 H3K4Me2_HSC
- GSM2409791 H3K4Me2_HSC_rep2 H3K4Me2_HSC
- GSE248693 Interpretable Inflammation Landscape of Circulating Immune cells (ILCIC_cirrhosis) 4 samples shares ilc
- GSE249619 Divergent Epigenetic and Transcriptomic Remodelling during Monocyte Subset Differentiation in Systemic Lupus Erythematosus [RNA-seq] 57 samples shares systemic
- GSE276047 Substrate stiffness dictates unique paths towards proliferative arrest in WI-38 cells [ATAC-Seq] 36 samples shares substrate
- GSE252139 Attenuation of Fibroblast Activation and Fibrosis by Adropin in Systemic Sclerosis (SSc) 12 samples shares systemic
- GSE297006 Endogenous retroviruses promote aberrant T cell differentiation in systemic lupus erythematosus via the RIG-I pathway [SLE] 10 samples shares systemic
- GSE288271 Endogenous retroviruses promote aberrant T cell differentiation in systemic lupus erythematosus via the RIG-I pathway [whole transcriptomics] 10 samples shares systemic
- GSE276755 Systemic and breast chronic inflammation and hormone disposition promote a tumor-permissive environment for breast cancer in older women (Human Bulk RNA-Seq) 168 samples shares systemic
- GSE301133 Lung mucosal and systemic responses at single-cell resolution in an aerosolised Mycobacterium bovis BCG human challenge model 159 samples shares systemic
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.