GlioMarker: An integrated database for knowledge exploration of diagnostic biomarkers in gliomas

Zihan Ran; Zihan Ran; Zihan Ran; Jingcheng Yang; Jingcheng Yang; Jingcheng Yang; Yaqing Liu; Yaqing Liu; XiuWen Chen; Zijing Ma; Shaobo Wu; Yechao Huang; Yechao Huang; Yueqiang Song; Yueqiang Song; Yu Gu; Shuo Zhao; Mengqi Fa; Jiangjie Lu; Qingwang Chen; Qingwang Chen; Zehui Cao; Zehui Cao; Xiaofei Li; Xiaofei Li; Shanyue Sun; Shanyue Sun; Tao Yang

doi:10.3389/fonc.2022.792055

Frontiers in Oncology (Aug 2022)

GlioMarker: An integrated database for knowledge exploration of diagnostic biomarkers in gliomas

Zihan Ran,
Zihan Ran,
Zihan Ran,
Jingcheng Yang,
Jingcheng Yang,
Jingcheng Yang,
Yaqing Liu,
Yaqing Liu,
XiuWen Chen,
Zijing Ma,
Shaobo Wu,
Yechao Huang,
Yechao Huang,
Yueqiang Song,
Yueqiang Song,
Yu Gu,
Shuo Zhao,
Mengqi Fa,
Jiangjie Lu,
Qingwang Chen,
Qingwang Chen,
Zehui Cao,
Zehui Cao,
Xiaofei Li,
Xiaofei Li,
Shanyue Sun,
Shanyue Sun,
Tao Yang

Affiliations

Zihan Ran: Department of Research, Shanghai University of Medicine & Health Sciences Affiliated Zhoupu Hospital, Shanghai, China
Zihan Ran: Inspection and Quarantine Department, The College of Medical Technology, Shanghai University of Medicine & Health Sciences, Shanghai, China
Zihan Ran: The Genius Medicine Consortium (TGMC), Shanghai, China
Jingcheng Yang: The Genius Medicine Consortium (TGMC), Shanghai, China
Jingcheng Yang: State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China
Jingcheng Yang: Center for Intelligent Medicine Research, Greater Bay Area Institute of Precision Medicine, Guangzhou, China
Yaqing Liu: The Genius Medicine Consortium (TGMC), Shanghai, China
Yaqing Liu: State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China
XiuWen Chen: Inspection and Quarantine Department, The College of Medical Technology, Shanghai University of Medicine & Health Sciences, Shanghai, China
Zijing Ma: Inspection and Quarantine Department, The College of Medical Technology, Shanghai University of Medicine & Health Sciences, Shanghai, China
Shaobo Wu: Department of Laboratory Medicine, Tinglin Hospital of Jinshan District, Shanghai, China
Yechao Huang: The Genius Medicine Consortium (TGMC), Shanghai, China
Yechao Huang: State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China
Yueqiang Song: The Genius Medicine Consortium (TGMC), Shanghai, China
Yueqiang Song: State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China
Yu Gu: Inspection and Quarantine Department, The College of Medical Technology, Shanghai University of Medicine & Health Sciences, Shanghai, China
Shuo Zhao: Inspection and Quarantine Department, The College of Medical Technology, Shanghai University of Medicine & Health Sciences, Shanghai, China
Mengqi Fa: Inspection and Quarantine Department, The College of Medical Technology, Shanghai University of Medicine & Health Sciences, Shanghai, China
Jiangjie Lu: Inspection and Quarantine Department, The College of Medical Technology, Shanghai University of Medicine & Health Sciences, Shanghai, China
Qingwang Chen: The Genius Medicine Consortium (TGMC), Shanghai, China
Qingwang Chen: State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China
Zehui Cao: The Genius Medicine Consortium (TGMC), Shanghai, China
Zehui Cao: State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China
Xiaofei Li: The Genius Medicine Consortium (TGMC), Shanghai, China
Xiaofei Li: Department of Toxicology, School of Public Health, Guangxi Medical University, Nanning, China
Shanyue Sun: The Genius Medicine Consortium (TGMC), Shanghai, China
Shanyue Sun: State Key Laboratory of Genetic Engineering, Human Phenome Institute, School of Life Sciences and Shanghai Cancer Center, Fudan University, Shanghai, China
Tao Yang: Department of Radiology, Shanghai University of Medicine & Health Sciences Affiliated Zhoupu Hospital, Shanghai, China

DOI: https://doi.org/10.3389/fonc.2022.792055
Journal volume & issue: Vol. 12

Abstract

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Gliomas are the most frequent malignant and aggressive tumors in the central nervous system. Early and effective diagnosis of glioma using diagnostic biomarkers can prolong patients’ lives and aid in the development of new personalized treatments. Therefore, a thorough and comprehensive understanding of the diagnostic biomarkers in gliomas is of great significance. To this end, we developed the integrated and web-based database GlioMarker (http://gliomarker.prophetdb.org/), the first comprehensive database for knowledge exploration of glioma diagnostic biomarkers. In GlioMarker, accurate information on 406 glioma diagnostic biomarkers from 1559 publications was manually extracted, including biomarker descriptions, clinical information, associated literature, experimental records, associated diseases, statistical indicators, etc. Importantly, we integrated many external resources to provide clinicians and researchers with the capability to further explore knowledge on these diagnostic biomarkers based on three aspects. (1) Obtain more ontology annotations of the biomarker. (2) Identify the relationship between any two or more components of diseases, drugs, genes, and variants to explore the knowledge related to precision medicine. (3) Explore the clinical application value of a specific diagnostic biomarker through online analysis of genomic and expression data from glioma cohort studies. GlioMarker provides a powerful, practical, and user-friendly web-based tool that may serve as a specialized platform for clinicians and researchers by providing rapid and comprehensive knowledge of glioma diagnostic biomarkers to subsequently facilitates high-quality research and applications.

Published in Frontiers in Oncology

ISSN: 2234-943X (Online)
Publisher: Frontiers Media S.A.
Country of publisher: Switzerland
LCC subjects: Medicine: Internal medicine: Neoplasms. Tumors. Oncology. Including cancer and carcinogens
Website: https://www.frontiersin.org/journals/oncology/

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