TY - JOUR
T1 - EBD: an eye biomarker database
AU - Zhang, Xueli
AU - Kong, Lingcong
AU - Liu, Shunming
AU - Zhang, Xiayin
AU - Shang, Xianwen
AU - Zhu, Zhuoting
AU - Huang, Yu
AU - Ma, Shuo
AU - Jason, Ha
AU - Kiburg, Katerina V.
AU - Zheng, Chunwen
AU - Hu, Yunyan
AU - Li, Cong
AU - Wu, Guanrong
AU - Liang, Yingying
AU - He, Mengxia
AU - Wang, Yan
AU - Bai, Xiaohe
AU - Shi, Danli
AU - Wang, Wei
AU - Zhang, Chi
AU - Zhao, Ke
AU - Yuan, Haining
AU - Hu, Guang
AU - Hu, Yijun
AU - Liang, Huiying
AU - Yu, Honghua
AU - Zhang, Lei
AU - He, Mingguang
N1 - Publisher Copyright:
© The Author(s) 2023. Published by Oxford University Press.
PY - 2023/5/4
Y1 - 2023/5/4
N2 - Motivation: Many ophthalmic disease biomarkers have been identified through comprehensive multiomics profiling, and hold significant potential in advancing the diagnosis, prognosis, and management of diseases. Meanwhile, the eye itself serves as a natural biomarker for several systemic diseases including neurological, renal, and cardiovascular systems. We aimed to collect and standardize this eye biomarkers information and construct the eye biomarker database (EBD) to provide ophthalmologists with a platform to search, analyze, and download these eye biomarker data. Results: In this study, we present the EBD , a world-first online compilation comprising 889 biomarkers for 26 ocular diseases and 939 eye biomarkers for 181 systemic diseases. The EBD also includes the information of 78 “nonbiomarkers”—the objects that have been proven cannot be biomarkers. Biological function and network analysis were conducted for these ocular disease biomarkers, and several hub pathways and common network topology characteristics were newly identified, which may promote future ocular disease biomarker discovery and characterizes the landscape of biomarkers for eye diseases at the pathway and network level. The EBD is expected to yield broader utility among developmental biologists and clinical scientists in and outside of the eye field by assisting in the identification of biomarkers linked to eye disorders and related systemic diseases.
AB - Motivation: Many ophthalmic disease biomarkers have been identified through comprehensive multiomics profiling, and hold significant potential in advancing the diagnosis, prognosis, and management of diseases. Meanwhile, the eye itself serves as a natural biomarker for several systemic diseases including neurological, renal, and cardiovascular systems. We aimed to collect and standardize this eye biomarkers information and construct the eye biomarker database (EBD) to provide ophthalmologists with a platform to search, analyze, and download these eye biomarker data. Results: In this study, we present the EBD , a world-first online compilation comprising 889 biomarkers for 26 ocular diseases and 939 eye biomarkers for 181 systemic diseases. The EBD also includes the information of 78 “nonbiomarkers”—the objects that have been proven cannot be biomarkers. Biological function and network analysis were conducted for these ocular disease biomarkers, and several hub pathways and common network topology characteristics were newly identified, which may promote future ocular disease biomarker discovery and characterizes the landscape of biomarkers for eye diseases at the pathway and network level. The EBD is expected to yield broader utility among developmental biologists and clinical scientists in and outside of the eye field by assisting in the identification of biomarkers linked to eye disorders and related systemic diseases.
UR - http://www.scopus.com/inward/record.url?scp=85159727814&partnerID=8YFLogxK
U2 - 10.1093/bioinformatics/btad194
DO - 10.1093/bioinformatics/btad194
M3 - Journal article
C2 - 37052519
AN - SCOPUS:85159727814
SN - 1367-4803
VL - 39
SP - 1
EP - 8
JO - Bioinformatics
JF - Bioinformatics
IS - 5
ER -