BACKGROUND/AIMS: Hepatocellular carcinoma (HCC) usually develops following chronic liver inflammation caused by hepatitis C or B virus. Through expression profiling in a rare type of HCC, for which the causes are unknown, we sought to find key genes responsible for each step of hepatocarcinogenesis in the absence of viral influence. METHODS: We used 68 non-B, non-C liver tissues (20 HCC, 17 non-tumor, 31 normal liver) for expression profiling with PCR-array carrying 3072 genes known to be expressed in liver tissues. To select the differentially expressed genes, we performed random permutation testing. A weighted voting classification algorithm was used to confirm the reliability of gene selection. We then compared these genes with the results of previous expression profiling studies. RESULTS: A total of 220 differentially expressed genes were selected by random permutation tests. The classification accuracies using these genes were 91.8, 92.0 and 100.0% by a leave-one-out cross-validation, an additional PCR-array dataset and a Stanford DNA microarray dataset, respectively. By comparing our results with previous reports on virus-infected HCC, four genes (ALB, A2M, ECHS1 and IGFBP3) were commonly selected in some studies. CONCLUSIONS: The 220 differentially expressed genes selected by PCR-array are potentially responsible for hepatocarcinogenesis in the absence of viral influence.
BACKGROUND/AIMS: Hepatocellular carcinoma (HCC) usually develops following chronic liver inflammation caused by hepatitis C or B virus. Through expression profiling in a rare type of HCC, for which the causes are unknown, we sought to find key genes responsible for each step of hepatocarcinogenesis in the absence of viral influence. METHODS: We used 68 non-B, non-C liver tissues (20 HCC, 17 non-tumor, 31 normal liver) for expression profiling with PCR-array carrying 3072 genes known to be expressed in liver tissues. To select the differentially expressed genes, we performed random permutation testing. A weighted voting classification algorithm was used to confirm the reliability of gene selection. We then compared these genes with the results of previous expression profiling studies. RESULTS: A total of 220 differentially expressed genes were selected by random permutation tests. The classification accuracies using these genes were 91.8, 92.0 and 100.0% by a leave-one-out cross-validation, an additional PCR-array dataset and a Stanford DNA microarray dataset, respectively. By comparing our results with previous reports on virus-infected HCC, four genes (ALB, A2M, ECHS1 and IGFBP3) were commonly selected in some studies. CONCLUSIONS: The 220 differentially expressed genes selected by PCR-array are potentially responsible for hepatocarcinogenesis in the absence of viral influence.
Authors: Dominik A Megger; Thilo Bracht; Michael Kohl; Maike Ahrens; Wael Naboulsi; Frank Weber; Andreas-Claudius Hoffmann; Christian Stephan; Katja Kuhlmann; Martin Eisenacher; Jörg F Schlaak; Hideo A Baba; Helmut E Meyer; Barbara Sitek Journal: Mol Cell Proteomics Date: 2013-03-05 Impact factor: 5.911
Authors: Simone Carotti; Maria Zingariello; Maria Francesconi; Laura D'Andrea; M Ujue Latasa; Leticia Colyn; Maite G Fernandez-Barrena; Rocco Simone Flammia; Mario Falchi; Daniela Righi; Giorgia Pedini; Francesco Pantano; Claudia Bagni; Giuseppe Perrone; Rosa Alba Rana; Matias A Avila; Sergio Morini; Francesca Zalfa Journal: Oncogene Date: 2021-05-20 Impact factor: 9.867
Authors: Joe Gray; Dipankar Chattopadhyay; Gary S Beale; Gillian L Patman; Luca Miele; Barry P King; Stephen Stewart; Mark Hudson; Christopher P Day; Derek M Manas; Helen L Reeves Journal: BMC Cancer Date: 2009-08-05 Impact factor: 4.430
Authors: Abdel-Rahman N Zekri; Mohamed M Hafez; Abeer A Bahnassy; Zeinab K Hassan; Tarek Mansour; Mahmoud M Kamal; Hussein M Khaled Journal: BMC Res Notes Date: 2008-10-29