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Pathway analysis and comparison with FerrdB

PB Priyanka Banerjee
PB Premanand Balraj
NA Nilesh Sudhakar Ambhore
SW Sarah A. Wicher
RJ Rodney D. Britt, Jr.
CP Christina M. Pabelick
YP Y. S. Prakash
VS Venkatachalem Sathish
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The pathway over-representation analysis for DEGs, TFs, DC, and DCE was done using ClueGO v2.5.4 (Cytoscape plug-in)105 (https://cytoscape.org/). The annotation of the Ensembl IDs for the respective genes was done using BiomaRt (R package)106,107 from the human Ensembl database, GRCh38.p13. The pathways over-represented in the selected modules were identified by grouping the redundant terms with kappa-score = 0.4. Pathways with a p-value < 0.05 were considered significant. The identified DEGs and TFs were compared with FerrDb—a manually curated resource for regulators and markers of ferroptosis—to identify the common regulators between asthma and ferroptosis.

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