Human Liver Epithelial Cell Chromatin Accessibility Response to HCoV-229E Infection
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.
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 GSE280627_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 PRJNA1179523 and SRA study SRP541910. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 9 samples read as cases, 9 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.
- GSM8602561 ATAC-Seq Mock 1 March 2022
- GSM8602562 ATAC-Seq Mock 2 March 2022
- GSM8602563 ATAC-Seq Mock 3 March 2022
- GSM8602564 ATAC-Seq Mock 4 March 2022
- GSM8602565 ATAC-Seq Mock 5 March 2022
- GSM8602566 ATAC-Seq Mock 6 March 2022
- GSM8602567 ATAC-Seq Mock 7 March 2022
- GSM8602568 ATAC-Seq Mock 9 March 2022
- GSM8602569 ATAC-Seq Mock 10 March 2022
- GSM8602570 ATAC-Seq UV treated 229E 1 March 2022
- GSM8602571 ATAC-Seq UV treated 229E 2 March 2022
- GSM8602572 ATAC-Seq UV treated 229E 4 March 2022
- GSM8602573 ATAC-Seq UV treated 229E 5 March 2022
- GSM8602574 ATAC-Seq UV treated 229E 6 March 2022
- GSM8602575 ATAC-Seq UV treated 229E 7 March 2022
- GSM8602576 ATAC-Seq UV treated 229E 8 March 2022
- GSM8602577 ATAC-Seq UV treated 229E 9 March 2022
- GSM8602578 ATAC-Seq UV treated 229E 10 March 2022
- GSM8602579 ATAC-Seq 229E 5 March 2022
- GSM8602580 ATAC-Seq 229E 6 March 2022
- GSM8602581 ATAC-Seq 229E 7 March 2022
- GSM8602582 ATAC-Seq 229E 8 March 2022
- GSM8602583 ATAC-Seq 229E 9 March 2022
- GSM8602584 ATAC-Seq 229E 10 March 2022
- GSE287902 BPTF regulstes androgen receptor activity by enhancing chromatin accessibility and stabilizing the AR-FOXA1 interaction [Cut&Run] 40 samples shares accessibility, chromatin
- GSE316389 Chromatin accessibility and gene expression profiling of primary and metastatic ER+ breast cancer [ATAC-seq] 36 samples shares accessibility, chromatin
- GSE325835 BATF3 regulates chromatin accessibility during CD8+ T lymphocyte differentiation 36 samples shares accessibility, chromatin
- GSE278910 Pooled CRISPR screens with joint single-nucleus chromatin accessibility and transcriptome profiling [CUT&RUN] 30 samples shares accessibility, chromatin
- GSE270602 Comparative analysis of chromatin accessibility during chondrogenesis and in osteoarthritis 26 samples shares accessibility, chromatin
- GSE201820 CTCF is selectively required for maintaining chromatin accessibility and gene expression in human erythropoiesis [H2_HiC] 8 samples shares accessibility, chromatin
- GSE204912 Mapping genotypes to chromatin accessibility profiles in single cells 55 samples shares accessibility, chromatin
- GSE244585 Single nuclei chromatin accessibility and transcriptomic map of breast tissues of women of diverse genetic ancestry [10X single-cell multiome] 32 samples shares accessibility, 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.