IMMUNE DYSREGULATION FOLLOWING INFECTION BY THE NEW CORONAVIRUS SARS-CoV-2 (COVID-19); A NEW DISEASE ENTITY
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 24 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
- 24 samples: 24 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.
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 GSE206605_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 PRJNA851448. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 14 samples read as cases, 10 as controls.
How we read this: Read from 24 sample titles: 24 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.
- GSM6257623 H3K27ac_ChIP-seq_Patient_1.fastqsanger.gz
- GSM6257624 H3K27ac_ChIP-seq_Patient_2.fastqsanger.gz
- GSM6257625 H3K27ac_ChIP-seq_Patient_3.fastqsanger.gz
- GSM6257626 H3K27ac_ChIP-seq_Patient_4.fastqsanger.gz
- GSM6257627 H3K27ac_ChIP-seq_Patient_5.fastqsanger.gz
- GSM6257628 H3K27ac_ChIP-seq_Patient_6.fastqsanger.gz
- GSM6257629 H3K27ac_ChIP-seq_Patient_7.fastqsanger.gz
- GSM6257630 H3K27ac_ChIP-seq_Control_1.fastqsanger.gz
- GSM6257631 H3K27ac_ChIP-seq_Control_2.fastqsanger.gz
- GSM6257632 H3K27ac_ChIP-seq_Control_3.fastqsanger.gz
- GSM6257633 H3K27ac_ChIP-seq_Control_4.fastqsanger.gz
- GSM6257634 H3K27ac_ChIP-seq_Control_5.fastqsanger.gz
- GSM6257635 INPUT_Patient_1.fastqsanger.gz
- GSM6257636 INPUT_Patient_2.fastqsanger.gz
- GSM6257637 INPUT_Patient_3.fastqsanger.gz
- GSM6257638 INPUT_Patient_4.fastqsanger.gz
- GSM6257639 INPUT_Patient_5.fastqsanger.gz
- GSM6257640 INPUT_Patient_6.fastqsanger.gz
- GSM6257641 INPUT_Patient_7.fastqsanger.gz
- GSM6257642 INPUT_Control_1.fastqsanger.gz
- GSM6257643 INPUT_Control_2.fastqsanger.gz
- GSM6257644 INPUT_Control_3.fastqsanger.gz
- GSM6257645 INPUT_Control_4.fastqsanger.gz
- GSM6257646 INPUT_Control_5.fastqsanger.gz
- GSE339365 Genome-wide H3K4me3 profiling of circulating immune cells reveals dynamic epigenetic reprogramming during acute critical COVID-19 120 samples shares covid-19, immune
- GSE300844 Deciphering the functional impact of Alzheimer’s Disease-associated variants in resting and proinflammatory immune cells 192 samples shares disease, immune
- GSE270387 Single cell profiling of peripheral blood mononuclear cells in diverse men with prostate cancer reveals lethal disease-associated immune signatures 165 samples shares disease, immune
- GSE229733 Corticosteroid resistance is predetermined by early immune response dynamics at acute Graft-versus-Host disease onset 122 samples shares disease, immune
- GSE303271 RNA-seq of liver biopsies from patients with pediatric autoimmune liver disease 64 samples shares disease, immune
- GSE286518 Integrative CSF profiling identifies disease-specific immune responses in leptomeningeal disease 42 samples shares disease, immune
- GSE199939 Comprehensive transcriptomic analysis of immune-related genes in diabetic foot ulcers: New insights into mechanisms and therapeutic targets 21 samples shares immune, new
- GSE272080 3D chromatin-based variant-to-gene maps across 57 human cell types reveal the cellular and genetic architecture of autoimmune disease susceptibility [captureC] 6 samples shares disease, immune
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.