In this study, four survival-related and metabolism-related lncRNAs (AC138430.1, AGAP2-AS1, AP001783.1, and AP005233.2) were identified for prognosis prediction in patients with intrahepatic cholangiocarcinoma based on transcriptome data from public databases, and were verified in an independent cohort via quantitative real-time PCR. Here, AGAP2 is linked to intrahepatic cholangiocarcinoma.