TY - JOUR
T1 - Ontology-based Modeling, Representation, and Analysis of Biomarkers in Healthy and Disease Kidney Tissue
AU - Kidney Precision Medicine Project
AU - Liu, Yingtong
AU - Ju, Wenjun
AU - Steck, Becky
AU - Jain, Sanjay
AU - Kretzler, Matthias
AU - He, Yongqun
N1 - Publisher Copyright:
© 2021 Copyright for this paper by its authors.
PY - 2021
Y1 - 2021
N2 - Biomarker reflects an underlying biological state or identity. Extensive kidney studies have resulted in the discovery of many kidney cell and disease biomarkers. Our manual literature annotations have identified 150 cell-specific markers for 73 kidney cell types and 38 diabetic kidney disease (DKD)-related biomarkers. To systematically study these biomarkers, we first surveyed and ontologically defined the term biomarker and different types of biomarkers. The Kidney Tissue Atlas Ontology (KTAO) has been further used as a platform to model and represent these kidney biomarkers by including the biomarker gene name, cell type, disease, and axioms linking the biomarkers and other terms. Gene Ontology (GO) analysis revealed 9 shared enriched GO terms in both biomarker sets. A DL-query was performed to demonstrate the advantages of ontology-based modeling and analysis of kidney biomarkers.
AB - Biomarker reflects an underlying biological state or identity. Extensive kidney studies have resulted in the discovery of many kidney cell and disease biomarkers. Our manual literature annotations have identified 150 cell-specific markers for 73 kidney cell types and 38 diabetic kidney disease (DKD)-related biomarkers. To systematically study these biomarkers, we first surveyed and ontologically defined the term biomarker and different types of biomarkers. The Kidney Tissue Atlas Ontology (KTAO) has been further used as a platform to model and represent these kidney biomarkers by including the biomarker gene name, cell type, disease, and axioms linking the biomarkers and other terms. Gene Ontology (GO) analysis revealed 9 shared enriched GO terms in both biomarker sets. A DL-query was performed to demonstrate the advantages of ontology-based modeling and analysis of kidney biomarkers.
KW - DKD
KW - KTAO
KW - Kidney biomarker
KW - Ontology
UR - http://www.scopus.com/inward/record.url?scp=85124427448&partnerID=8YFLogxK
M3 - Conference article
AN - SCOPUS:85124427448
SN - 1613-0073
VL - 3073
SP - 70
EP - 76
JO - CEUR Workshop Proceedings
JF - CEUR Workshop Proceedings
T2 - 2021 International Conference on Biomedical Ontologies, ICBO 2021
Y2 - 16 September 2021 through 18 September 2021
ER -