Functional enrichment analysis revealed that the key comorbidity genes in AR were primarily associated with “asthma” and “hematopoietic cell lineage,” while those in CRSwNP were linked to “cell cycle” and “allograft rejection.” Significant differences in immune cell infiltration were observed, with CD109 correlating notably with sebocytes in AR, and both CD109 and CPA3 correlating with adipocytes in CRSwNP. This evidence concerns the gene CPA3 and asthma.