【Abstract】 Objective To screen the colon cancer copy number variant genes and analyze its potential function by using the Cancer Genome Atlas (TCGA) database. Methods The copy number variation data and expression profile data of colon cancer were downloaded from the TCGA database. In the R 3.5.0 environment, the copy number variation gene between the normal tissue and the cancer tissue was screened by Chisquare test or fisher exact probability method. The genes with significant difference in copy number combined with significant differences in gene expression were screened by combining the expression profile data. The genes with significant difference in copy number combined with significant differences in gene expression were analyzed by GO function and KEGG pathway enrichment, and its potential functions and pathways were analyzed. The screening results were verified by our hospital sample sequencing results to be accurate and comprehensive. Results A total of 8424 genes with significant difference in copy number combined with significant differences in gene expression were found including GID8, YTHDF1, TAF4, NELFCD, etc. The main enriched functions and pathways were RNA catalytic activity, DNA catalytic activity, ubiquitinrelated enzyme activity, Notch signaling pathway, AMPK signaling pathway, p53 signaling pathway, etc. Conclusion To explore the potential genes of colon cancer copy number variations and analyze their potential functions can help us to understand the genetic mechanism and pathogenesis of colon cancer, and it may be used as a diagnostic and therapeutic target for colon cancer.