High throughput microarray analysis of Lncrna-mRNA co-expression network in intrahepatic cholangiocarcinoma
TANG Jintian1 WANG Ruibin2 WANG Boqing1▲
1.Hepatobiliary and Pancreatic Surgery, Affiliated Cancer Hospital, Xinjiang Medical University, Xinjiang Uygur Autonomous Region, Urumqi 830000, China;
2.the Third Clinical Medical College, Xinjiang Medical University, Xinjiang Uygur Autonomous Region, Urumqi 830000, China
Abstract：Objective To explore the co-expression network of long non coding RNA (lncRNA)-messenger RNA (mRNA) in intrahepatic cholangiocarcinoma, and to analyze the function of the differentially expressed lncrnas. Methods From January to June 2017, fresh tissue sample of five patients with cholangiocarcinoma who were resected by hepatobiliary surgery in the Affiliated Cancer Hospital, Xinjiang Medical University were selected. High throughput microarray technology was used to analyze the mRNA and lncRNA differential expression profiles, and to construct the lncRNA-mRNA co-expression network. Top 1 lncRNA with significant difference was selected for mRNA co-expression screening, GO analysis and Pathway analysis. In addition, Top1 lncRNA and its co-expression mRNA were verified in other 30 specimens of intrahepatic cholangiocarcinoma. Results When the screening threshold was P ≤ 0.05 and log2 | Fold Change（FC）| ≥1, 475 differential genes were obtained, including 213 up-regulated mRNA and 262 down regulated mRNA; 438 differential lncRNA were obtained, including 131 up-regulated lncRNA and 307 down regulated lncRNA. Top1 lncRNA was screened as carbamoyl phosphate synthase I-intron transcript 1 (CPS1-IT1). GO analysis and Pathway analysis showed that CPS1-IT1 was associated with 20 biological processes and two cellular functions, involving eight cell signaling pathways. Conclution The mRNA and lncRNA in intrahepatic cholangiocarcinoma form a complex co-expression network and participate in many important biological processes.
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