Instead, we found various CRC-associated genes harboring PT-derived mutations by multiple analyses: significantly mutated genes (TP53, KRAS, APC, FBXW7, TCF7L2, SMAD4, PIK3CA, NRG1, BMI1, and CARD11), mutations superimposed with chromosomal deletions (APC, ATM, CSMD1, DSG2, FLCN, SMAD4, and TP53), mutations exhibiting greater VAFs in transcriptomes than in exomes (BMI1, HOXB9, PLXNB1, POLD1, TGIF1, SOX9, and TP53), and mutations enriched in the transcriptomes of CLMs (BCL9L, DSG2, FLCN, FLNA, ITGB4, PIK3CA, PIK3CD, PLEC, SMAD3, SOX9, SRSF6, TGIF1, TOP2A, and TP53). Here, SMAD3 is linked to colorectal carcinoma.