MiR-182, miR-371a-5p and miR-331-3p are associated with pulmonary and extrapulmonary tuberculosis and linked to cholesterol metabolism-related gene networks

Description

This dataset contains the derived bioinformatic tables used in the study of miR-182, miR-371a-5p, and miR-331-3p in pulmonary and extrapulmonary tuberculosis. It includes DEG outputs from GSE83456 for PTB versus healthy controls and EPTB versus healthy controls, a cholesterol metabolism gene list, predicted target-gene lists for the three selected miRNAs, and an integrated sheet used for overlap and candidate-gene prioritisation. Original transcriptomic data are publicly available from GEO under accession GSE83456.

Steps to reproduce

Obtain the public gene expression dataset GSE83456 from the NCBI Gene Expression Omnibus (GEO). Perform separate differential expression analyses for pulmonary tuberculosis (PTB) vs healthy controls (HC) and extrapulmonary tuberculosis (EPTB) vs healthy controls (HC) using the same criteria applied in the study: |log2 fold change| > 1 and adjusted p-value < 0.05 after Benjamini–Hochberg correction. The resulting DEG tables correspond to the sheets “PTB vs HC GSE83456” and “EPTB vs HC GSE83456.” Compile the cholesterol metabolism-related gene list from the sources used in the study and store this. Then generate target-gene lists for miR-182-3p, miR-331-3p, and miR-371a-5p using the selected target-prediction resources. Retain high-confidence targets according to the study criteria and save them in the sheets “miRNA-182-3p,” “miRNA-331-3p,” and “miRNA-371a-5p.”

Institutions

• Auckland University of Technology

  Auckland, Auckland
• University of Lahore

  Punjab, Lahore

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