Background: Hepatocellular carcinoma (HCC) is one of the most common malignant tumors of the digestive tract. New diagnostic and prognostic biomarkers are urgently needed for HCC. To investigate potential pathogenic and prognostic long noncoding RNAs (lncRNAs) associated with HCC, we conduct this study.
Material and Methods: Gene expression matrix were obtained from TCGA and GEO databases. The overlapping differentially expressed genes (DEGs) between TCGA and GEO databases were analyzed using the limma package. Then we constructed mRNA-lncRNA-miRNA network. In the end, Gene ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis and survival analysis were performed to find hub lncRNAs related to diagnosis and prognosis of HCC.
Results: In total, 299 DEGs including 10 lncRNAs and 289 mRNAs were acquired. The mRNA-lncRNA-miRNA network comprised of four lncRNAs (GSEC, LINC00844, LINC01146 and MIR99AHG), 49 miRNAs and 25 mRNAs. GO and KEGG analysis shown that four lncRNAs were mainly enriched in cell cycle. In addition, survival analysis demonstrated that there is a significant correlation between GSEC and overall survival rate. Finally, the expression of LINC00844, LINC01146 and MIR99AHG were down-regulated in HCC tissues, and GSEC was up-regulated.
Conclusion: In summary, four lncRNAs including GSEC, LINC00844, LINC01146 and MIR99AHG may play an important part in the development of HCC. The function of these lncRNAs may have a great effect to the overall survival rate of HCC.