RNA sequencing of bronchial epithelial cells cultured in air-liquid interface for 7 days treated or not with an antibody targeting the sonic hedgehog ligand (AB5E1)
RNA-seq (gene expression) · human · 10 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
- 10 samples: 5 × CTL ALI7, patient vs 5 × AB5E1 ALI7, patientGroups 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 GSE262404_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 PRJNA1091651 and SRA study SRP497781. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 2 replicated groups read from 10 sample titles; they account for 10 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.
- GSM8164516 CTL ALI7, patient 1 CTL ALI7, patient
- GSM8164517 AB5E1 ALI7, patient 1 AB5E1 ALI7, patient
- GSM8164518 CTL ALI7, patient 2 CTL ALI7, patient
- GSM8164519 AB5E1 ALI7, patient 2 AB5E1 ALI7, patient
- GSM8164520 CTL ALI7, patient 3 CTL ALI7, patient
- GSM8164521 AB5E1 ALI7, patient 3 AB5E1 ALI7, patient
- GSM8164522 CTL ALI7, patient 4 CTL ALI7, patient
- GSM8164523 AB5E1 ALI7, patient 4 AB5E1 ALI7, patient
- GSM8164524 CTL ALI7, patient 5 CTL ALI7, patient
- GSM8164525 AB5E1 ALI7, patient 5 AB5E1 ALI7, patient
- GSE241292 SARS-CoV-2-infected human nasal epithelial air-liquid interface cultures 16 samples shares epithelial, air-liquid, interface
- GSE161245 Comparison of bronchial epithelial cells obtained by bronchoscopy from mild asthma patients, moderate asthma patients, severe asthma patients and healthy controls 55 samples shares epithelial, bronchial
- GSE264325 Identification of Bronchial Epithelial Genes Associated with Type-2 Eosinophilic Inflammation in Asthma 54 samples shares epithelial, bronchial
- GSE161453 Comparison of bronchial epithelial cells obtained by bronchoscopy from severe asthma patients before and after thermoplasty treatment 46 samples shares epithelial, bronchial
- GSE292944 Culture Media Strongly Influences Primary Human Bronchial Epithelial Cells' Transcriptomic Response to Ozone Exposure 24 samples shares epithelial, bronchial
- GSE287215 Bulk RNA-Seq of primary human bronchial epithelial cells after transfection with different Cas9 formats 17 samples shares epithelial, bronchial
- GSE201157 Expression profiling by high-throughput sequencing to evaluate effects of aroylated phenylenediamine HO53 on transcriptome in human undifferentiated bronchial epithelial cells (BCi-NS1.1 cell line). 12 samples shares epithelial, bronchial
- GSE315683 Transcriptional and proteome profiling of human bronchial epithelial cell BEAS-2B exposed to e-cigarette aerosol condensate 9 samples shares epithelial, bronchial
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.