Air particulate multiomics improves functional annotation of SNPs associated with lung disease
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 18 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
- 18 samples: 14 distinct titles, 4 of them repeatedGroups 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 GSE327419_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 PRJNA1450684 and SRA study SRP690264. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 18 sample titles: 14 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.
- GSM9656518 UPM120_Rep1_D0
- GSM9656519 UPM120_Rep2_D0
- GSM9656520 UPM30_Rep1_D0
- GSM9656521 UPM30_Rep2_D0
- GSM9656522 Veh_Rep1_D0 UPM
- GSM9656523 Veh_Rep2_D0 UPM
- GSM9656524 WSP120_Rep1_D0
- GSM9656525 WSP120_Rep2_D0
- GSM9656526 WSP30_Rep1_D0
- GSM9656527 WSP30_Rep2_D0
- GSM9656528 Veh_Rep1_D0 WSP
- GSM9656529 Veh_Rep2_D0 WSP
- GSM9656530 WSP120_Rep1_D21
- GSM9656531 WSP120_Rep2_D21
- GSM9656532 WSP30_Rep1_D21
- GSM9656533 WSP30_Rep2_D21
- GSM9656534 Veh_Rep1_D21
- GSM9656535 Veh_Rep2_D21
- GSE327935 Air pollutant multiomics improves functional annotation of SNPs associated with lung disease 62 samples shares annotation, improves, snps, lung
- GSE285632 C-ATF6 improves EGFR tyrosine kinase inhibitor sensitivity in non-small cell lung cancer via modulation of the calcium homeostasis network. 24 samples shares improves, lung
- GSE294811 Cytochrome P450 and metallothionein activation in human lung organoids following particulate matter exposure 6 samples shares particulate, lung
- GSE310188 Precision CRISPR annotation of the functional enhancer landscape in primary human T cells 11 samples shares annotation
- GSE292959 9-cis-retinoic acid improves disease modelling in iPSC-derived liver organoids 33 samples shares improves
- GSE310696 Systematic Benchmarking of CUT&Tag Improves the Reliability and Reproducibility of Chromatin Analysis [Crosslinking] 31 samples shares improves
- GSE261321 NF-κB- and TET2-mediated macrophage reprogramming overrides the anti-inflammatory effects of hypoxia and improves responses in human cancer ChIP-Seq). 24 samples shares improves
- GSE284616 Tumor-site directed A1R expression enhances CAR T cell function and improves efficacy against solid tumors. [human ATACseq] 5 samples shares improves
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.