Transcriptional adaptation of human airway epithelium upon cigarette smoking
RNA-seq (gene expression) · human · 77 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Homo sapiens (human)
- Samples
- 77 samples
- 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
- Differential DNA methylation in bronchial biopsies between persistent asthma and asthma in remissionThe European respiratory journal · 2020
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 GSE237252_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA994479. Searching any of these in the dataset finder brings you back here.
The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.
+ 77 more — browse all 77 samples with per-sample file links →
- GSE135624 Epigenetic and Post-transcriptional Regulation of LYPD2 Modulates Smoking-associated Phenotype via CHRNA7 and DNMT1 in the Human Airway Epithelium 66 samples shares epithelium, smoking, airway
- GSE130967 Serial Sampling of the Small Airway Epithelium Over 1 Year in the Same Individuals to Identify “Public” Genes Commonly Dysregulated by Smoking [RNA-Seq] 44 samples shares epithelium, smoking, airway
- GSE272860 Hypoxia promotes airway differentiation in the human lung epithelium [Bulk RNA-seq] 18 samples shares epithelium, airway
- GSE302095 Validation of bronchial airway gene expression associated with bronchiectasis in nasal epithelium 132 samples shares epithelium, airway
- GSE306517 Transcriptomic and functional responses of the cystic fibrosis airway epithelium to CFTR modulator therapy 76 samples shares epithelium, airway
- GSE10072 Gene expression signature of cigarette smoking and its role in lung adenocarcinoma development and survival 107 samples shares cigarette, smoking
- GSE176492 Oral Epithelium Response of Electronic Cigarette Users to Electronic Cigarette 87 samples shares epithelium, cigarette
- GSE242184 In vitro pigmentation of human iPSC-derived retinal pigment epithelium cells is not indicative of their quality for cell transplantation 4022 samples shares epithelium
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.