Journal article
CIGene: a literature-based online resource for cancer initiation genes
BMC Genomics, Vol.19, 552
2018
Abstract
Background: Cancer initiation genes (CIGs) are genes that can directly promote cell proliferation or induce cancer. There are thousands of published studies identifying various CIGs; however, no systematic collection or description is available. Results: To construct a CIG reference for genetic screening, we have collected 177 human genes curated from 1507 PubMed abstracts. To facilitate data queries and browsing, the identified CIGs along with extensive bioinformatic annotations were stored in an online database called CIGene. Initial functional analysis revealed an overlooked role for cell motility in cancer initiation. Subsequent cross-referencing of known tumor suppressor genes and oncogenes against the 177 CIGs identified 96 and 81 CIGs with and without known oncogenic roles, respectively. Successive network analyses of all 177 CIGs determined that the two groups of genes were more likely to link within their group. The distinct molecular functions for these groups were also confirmed with functional studies. While the 96 known oncogenic genes had fundamental roles in gene regulation and signaling, the remaining 81 genes possessed more ancillary functions, such enhancer binding. Further network and mutational analysis of the 96 known oncogenic genes revealed that mutations in these genes were highly prevalent in multiple cancers. By focusing on breast cancer, we found that 32 of the 96 genes with mutations in breast cancers were significantly associated with patient survival. Conclusions: As the first literature-based online resource for CIGs, CIGene will serve as a useful gateway for the systematic analysis of cancer initiation. CIGene is freely available to all academic users at http://soft.bioinfo-minzhao.org/cigene/.
Details
- Title
- CIGene: a literature-based online resource for cancer initiation genes
- Authors
- Yining Liu (Author) - Guangzhou Medical University, People's Republic of ChinaMingyu Luo (Author) - Peking University, People's Republic of ChinaQijun Li (Author) - Guangzhou Medical University, People's Republic of ChinaJiachun Lu (Author) - Guangzhou Medical University, People's Republic of ChinaMin Zhao (Author) - University of the Sunshine Coast - Faculty of Science, Health, Education and EngineeringHong Qu (Author) - Peking University, People's Republic of China
- Publication details
- BMC Genomics, Vol.19, 552; 10
- Publisher
- BioMed Central Ltd.
- Date published
- 2018
- DOI
- 10.1186/s12864-018-4944-y
- ISSN
- 1471-2164; 1471-2164
- Copyright note
- Copyright © The Author(s). 2018 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated
- Organisation Unit
- School of Science and Engineering - Legacy; University of the Sunshine Coast, Queensland; GeneCology Research Centre - Legacy; School of Health and Sport Sciences - Legacy; School of Science, Technology and Engineering; Centre for Bioinnovation
- Language
- English
- Record Identifier
- 99451429402621
- Output Type
- Journal article
- Research Statement
- false
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- Domestic collaboration
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- Biotechnology & Applied Microbiology
- Genetics & Heredity
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