chooliu / ajrcmb_marijuana_rnaseq

Analysis code accompanying "Chronic marijuana use is associated with gene expression in bronchoalveolar lavage" (ATS Journals)

"Chronic Marijuana Use Is Associated with Gene Expression Changes in BAL"

Summary: We found differences in bronchoalveolar lavage (BAL) gene expression profiles from long-term, frequent marijuana smokers without concurrent tobacco use compared to those of tobacco-only smokers and of non-smokers, including differentially expressed genes and pathways suggestive of altered respiratory immunity.

• This research letter is open access at ATS Journals.
• Deidentified participant metadata and raw RNA-seq data are publicly available at GEO, accession GSE155213.

File Structure

├─ Data
│   └─ count_table.txt             # RNA-seq counts (gene x sample)
│   └─ participant_metadata.txt    # (sample x variable)
├─ Scripts                         # 22 scripts; data processing & analysis
└─ Results                         
│   └─ ResultsTable1.xlsx          # pairwise diff. expression results (multiple tabs) 
│   └─ ResultsTable2.xlsx          # GO enrichment results (multiple tabs)

Links

• doi: 10.1165/rcmb.2021-0285LE
• PMID: 35103554
• Repo: chooliu/ajrcmb_marijuana_rnaseq

Citation

Liu C, Gaydos J, Johnson-Paben R, Kechris K, Burnham EL, Sharma S. Chronic Marijuana Use Is Associated with Gene Expression Changes in BAL. American Journal of Respiratory Cell and Molecular Biology. 2022 Feb;66(2):238-9.