ORIGINAL RESEARCH article
Front. Oncol.
Sec. Cancer Genetics
Volume 15 - 2025 | doi: 10.3389/fonc.2025.1692732
dbGVOSCC: A Comprehensive Database of Genetic Variation for Systems Genetics Research on Oral Squamous Cell Carcinoma
Provisionally accepted
Yi Zhou1
Yutao Wu1,2Wenjing Shi3
Ying Bo Zhang1
Xingyun Liu1Yuxin Zhang1
Zhan Chaoying1Bingyue Chen1Weidong Tian2*
Bairong Shen1*- 1Department of Breast Surgery and Institute for Systems Genetics, Frontiers Science Center for Disease-Related Molecular Network, West China Hospital, Sichuan University, Chengdu, China
- 2State Key Laboratory of Oral Diseases & National Engineering Laboratory for Oral Regenerative Medicine, West China Hospital of Stomatology, Sichuan University, Chengdu, China
- 301life Institute, Chengdu, China
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Oral squamous cell carcinoma (OSCC) is a highly aggressive malignancy of the oral epithelium, marked by a high rate of lymph node metastasis and a profound negative impact on patients' quality of life. Despite its severity, no routine screening program currently exists for OSCC. To address the genetic heterogeneity underlying OSCC, we have developed a database of genetic variation in oral squamous cell carcinoma (dbGVOSCC; http://www.sysbio.org.cn/dbGVOSCC/). dbGVOSCC comprises 1,788 entries of somatic genetic variations, including 329 epimutations/methylations, 411 single nucleotide polymorphisms (SNPs), 258 point-mutations excludes SNP, 98 insertion-deletion mutations (indels), 348 copy number variations (CNVs), 28 instances of loss of heterozygosity (LOH), 1 locus mutation, and 333 unspecified gene mutations, all manually curated from 400 original research articles. Bioinformatics analysis enabled by dbGVOSCC facilitates the exploration and identification of critical factors driving OSCC. In addition, our database exhibits superior accuracy and more structured output compared with ChatGPT-5, further supported by a high System Usability Scale (SUS) (88.75) and Net Promoter Score (NPS) (90). In conclusion, dbGVOSCC represents a robust and reliable knowledge base, offering clinicians and researchers an open-source platform for personalized genotype-phenotype association studies and systems genetics research into the mechanisms of OSCC.
Keywords: oral squamous cell carcinoma, dbGVOSCC database, cancer heterogeneity, Genetic variations, precision oncology
Received: 26 Aug 2025; Accepted: 14 Oct 2025.
Copyright: © 2025 Zhou, Wu, Shi, Zhang, Liu, Zhang, Chaoying, Chen, Tian and Shen. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
* Correspondence:
Weidong Tian, drtwd@sina.com
Bairong Shen, bairong.shen@scu.edu.cn
Disclaimer: All claims expressed in this article are solely those of the authors and do not necessarily represent those of their affiliated organizations, or those of the publisher, the editors and the reviewers. Any product that may be evaluated in this article or claim that may be made by its manufacturer is not guaranteed or endorsed by the publisher.