Enrichment of Up-regulated and Down-regulated Gene Clusters using Gene Ontology, miRNAs and lncRNAs in Colorectal Cancer

AIM AND OBJECTIVE: It is interesting to find the gene signatures of cancer stages based on the omics data. The aim of study was to evaluate and to enrich the array data using gene ontology and ncRNA databases in colorectal cancer. METHODS: The human colorectal cancer data was obtained from GEO databank. The down-regulated and up-regulated genes were identified after scoring, weighting and merging of gene data. The clusters with high-score edges were determined from gene networks. The miRNAs related to the gene clusters were identified and enriched. Furthermore, the long non-coding RNA (lncRNA) networks were predicted with central core for miRNAs. RESULTS: Based on the cluster enrichment, the genes related to peptide receptor activity (1.26E-08), LBD domain binding (3.71E-07), rRNA processing (2.61E-34), chemokine (4.58E-19), peptide receptor (1.16E-19) and ECM organization (3.82E-16). Furthermore, the clusters related to the non-coding RNAs including hsa-miR-27b-5p, hsa-miR-155-5p, hsa-miR-125b-5p, hsa-miR-21-5p, hsa-miR-30e-5p, hsa-miR-588, hsa-miR-29-3p, LINC01234, LINC01029, LINC00917, LINC00668 and CASC11. CONCLUSION: The comprehensive bioinformatics analyses provided the gene networks related to some non-coding RNAs that might help to understand the molecular mechanisms in CRC.