Staib, Frank and Krupp, Markus and Maass, Thorsten and Itzel, Timo and Weinmann, Arndt and Lee, Ju-Seog and Schmidt, Bertil and Mueller, Martina and Thorgeirsson, Snorri S. and Galle, Peter R. and Teufel, Andreas (2014) CellMinerHCC: a microarray-based expression database for hepatocellular carcinoma cell lines. LIVER INTERNATIONAL, 34 (4). pp. 621-631. ISSN 1478-3223, 1478-3231
Full text not available from this repository. (Request a copy)Abstract
Background & Aims Therapeutic options for hepatocellular carcinoma (HCC) still remain limited. Development of gene targeted therapies is a promising option. A better understanding of the underlying molecular biology is gained in in vitro experiments. However, even with targeted manipulation of gene expression varying treatment responses were observed in diverse HCC cell lines. Therefore, information on gene expression profiles of various HCC cell lines may be crucial to experimental designs. To generate a publicly available database containing microarray expression profiles of diverse HCC cell lines. Methods Microarray data were analyzed using an individually scripted R program package. Data were stored in a PostgreSQL database with a PHP written web interface. Evaluation and comparison of individual cell line expression profiles are supported via public web interface. Results This database allows evaluation of gene expression profiles of 18 HCC cell lines and comparison of differential gene expression between multiple cell lines. Analysis of commonly regulated genes for signaling pathway enrichment and interactions demonstrates a liver tumor phenotype with enrichment of major cancer related KEGG signatures like 'cancer' and 'inflammatory response'. Further molecular associations of strong scientific interest, e.g. 'lipid metabolism', were also identified. Conclusions We have generated CellMinerHCC (), a publicly available database containing gene expression data of 18 HCC cell lines. This database will aid in the design of in vitro experiments in HCC research, because the genetic specificities of various HCC cell lines will be considered.
| Item Type: | Article |
|---|---|
| Uncontrolled Keywords: | CANCER STEM-CELLS; LARGE GENE LISTS; RESOURCES; PREDICTION; PROFILES; ONTOLOGY; HCC; P53; oncogenomics; bioinformatics; liver cancer; systems biology; HCC |
| Subjects: | 600 Technology > 610 Medical sciences Medicine |
| Divisions: | Medicine > Lehrstuhl für Innere Medizin I |
| Depositing User: | Dr. Gernot Deinzer |
| Date Deposited: | 15 Nov 2019 11:33 |
| Last Modified: | 15 Nov 2019 11:33 |
| URI: | https://pred.uni-regensburg.de/id/eprint/10412 |
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