Assessing susceptibility for polycyclic aromatic hydrocarbon toxicity in an in vitro 3D respiratory model for asthma
RNA-seq (gene expression) · human · 16 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
- 16 samples: 4 × CON vs 4 × IL13 vs 4 × BAP vs 4 × BAP-IL13Groups 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.
- Paper
- Assessing susceptibility for polycyclic aromatic hydrocarbon toxicity in an in vitro 3D respiratory model for asthmaFrontiers in toxicology · 2024
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 GSE239797_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 PRJNA1000983 and SRA study SRP452648. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 4 replicated groups read from 16 sample titles; they account for 16 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.
- GSM7673438 CON-1 CON
- GSM7673439 CON-2 CON
- GSM7673440 CON-3 CON
- GSM7673441 CON-5 CON
- GSM7673442 IL13-31 IL13
- GSM7673443 IL13-33 IL13
- GSM7673444 IL13-34 IL13
- GSM7673445 IL13-35 IL13
- GSM7673446 BAP-17 BAP
- GSM7673447 BAP-18 BAP
- GSM7673448 BAP-19 BAP
- GSM7673449 BAP-20 BAP
- GSM7673450 BAP-IL13-46 BAP-IL13
- GSM7673451 BAP-IL13-48 BAP-IL13
- GSM7673452 BAP-IL13-49 BAP-IL13
- GSM7673453 BAP-IL13-50 BAP-IL13
- GSE300837 Genetic susceptibility to PM2.5 exposure drives transcriptional responses in pediatric asthma: insights from single-cell transcriptomics 16 samples shares susceptibility, asthma
- GSE282464 Molecular landscape of respiratory infection: A large-scale, multi-centre blood transcriptome dataset 377 samples shares respiratory
- GSE274269 Distinct patterns of metagenomic surveillance and respiratory microbiota between two P1 genotypes of Mycoplasma pneumoniae 174 samples shares respiratory
- GSE309130 Dual-transcriptomic analysis of human nasal transcriptome and microbiome reveals host-bacteria interactions associated with symptomatic respiratory infection [RNA-Seq] 149 samples shares respiratory
- GSE261277 Inflammation of the Nasal Mucosa is Associated with Susceptibility to Experimental Pneumococcal Challenge in Older Adults 115 samples shares susceptibility
- GSE311749 Upper Airway Gene Expression in Hospitalized Children with Rhinovirus-induced Respiratory Illnesses 86 samples shares respiratory
- GSE298239 Effect of canonical aryl hydrocarbon receptor pathway inhibitor on human endothelial cells 72 samples shares hydrocarbon
- GSE250448 RNA Sequencing Analysis of Monocytes Exposed to Airway Fluid from Children with Pediatric Acute Respiratory Distress Syndrome 61 samples shares respiratory
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.