PMID- 37635767 OWN - NLM STAT- PubMed-not-MEDLINE LR - 20230829 IS - 2001-0370 (Print) IS - 2001-0370 (Electronic) IS - 2001-0370 (Linking) VI - 21 DP - 2023 TI - IHGA: An interactive web server for large-scale and comprehensive discovery of genes of interest in hepatocellular carcinoma. PG - 3987-3998 LID - 10.1016/j.csbj.2023.08.003 [doi] AB - Mining gene expression data is valuable for discovering novel biomarkers and therapeutic targets in hepatocellular carcinoma (HCC). Although emerging data mining tools are available for pan-cancer-related gene data analysis, few tools are dedicated to HCC. Moreover, tools specifically designed for HCC have restrictions such as small data scale and limited functionality. Therefore, we developed IHGA, a new interactive web server for discovering genes of interest in HCC on a large-scale and comprehensive basis. Integrative HCC Gene Analysis (IHGA) contains over 100 independent HCC patient-derived datasets (with over 10,000 tissue samples) and more than 90 cell models. IHGA allows users to conduct a series of large-scale and comprehensive analyses and data visualizations based on gene mRNA levels, including expression comparison, correlation analysis, clinical characteristics analysis, survival analysis, immune system interaction analysis, and drug sensitivity analysis. This method notably enhanced the richness of clinical data in IHGA. Additionally, IHGA integrates artificial intelligence (AI)-assisted gene screening based on natural language models. IHGA is free, user-friendly, and can effectively reduce time spent during data collection, organization, and analysis. In conclusion, IHGA is competitive in terms of data scale, data diversity, and functionality. It effectively alleviates the obstacles caused by HCC heterogeneity to data mining work and helps advance research on the molecular mechanisms of HCC. CI - (c) 2023 The Authors. FAU - Zhang, Qiangnu AU - Zhang Q AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. AD - Integrated Chinese and Western Medicine Postdoctoral Research Station, Jinan University, 510632 Guangzhou, China. FAU - Hu, Weibin AU - Hu W AD - Key Laboratory of Brain, Cognition and Education Sciences, Ministry of Education, Institute for Brain Research and Rehabilitation, South China Normal University, 510631 Guangzhou, China. FAU - Xiong, Lingfeng AU - Xiong L AD - Department of Hepatobiliary Surgery, The First Affiliated Hospital of Guangdong Pharmaceutical University, 510632 Guangzhou, China. FAU - Wen, Jin AU - Wen J AD - Department of Neurology, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, the First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Wei, Teng AU - Wei T AD - Cytotherapy Laboratory, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, the First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Yan, Lesen AU - Yan L AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Liu, Quan AU - Liu Q AD - Laboratory Medicine Center, Huazhong University of Science and Technology Union Shenzhen Hospital (Nanshan Hospital), 518000 Shenzhen, China. FAU - Zhu, Siqi AU - Zhu S AD - Laboratory Medicine Center, Huazhong University of Science and Technology Union Shenzhen Hospital (Nanshan Hospital), 518000 Shenzhen, China. FAU - Bai, Yu AU - Bai Y AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Zeng, Yuandi AU - Zeng Y AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Yin, Zexin AU - Yin Z AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Yang, Jilin AU - Yang J AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Zhang, Wenjian AU - Zhang W AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Wu, Meilong AU - Wu M AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Zhang, Yusen AU - Zhang Y AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Peng, Gongze AU - Peng G AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Bao, Shiyun AU - Bao S AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. FAU - Liu, Liping AU - Liu L AD - Division of Hepatobiliary and Pancreas Surgery, Department of General Surgery, Shenzhen People's Hospital (The Second Clinical Medical College, Jinan University, The First Affiliated Hospital, Southern University of Science and Technology), 518020 Shenzhen, China. LA - eng PT - Journal Article DEP - 20230806 PL - Netherlands TA - Comput Struct Biotechnol J JT - Computational and structural biotechnology journal JID - 101585369 PMC - PMC10457689 OTO - NOTNLM OT - Data mining OT - Gene expression profile OT - Hepatocellular carcinoma OT - Prognosis OT - Web tools COIS- No potential conflict of interest was reported by the authors. EDAT- 2023/08/28 06:42 MHDA- 2023/08/28 06:43 PMCR- 2023/08/06 CRDT- 2023/08/28 04:26 PHST- 2023/06/06 00:00 [received] PHST- 2023/08/04 00:00 [revised] PHST- 2023/08/04 00:00 [accepted] PHST- 2023/08/28 06:43 [medline] PHST- 2023/08/28 06:42 [pubmed] PHST- 2023/08/28 04:26 [entrez] PHST- 2023/08/06 00:00 [pmc-release] AID - S2001-0370(23)00278-7 [pii] AID - 10.1016/j.csbj.2023.08.003 [doi] PST - epublish SO - Comput Struct Biotechnol J. 2023 Aug 6;21:3987-3998. doi: 10.1016/j.csbj.2023.08.003. eCollection 2023.