Knowledge Representation of Protein PTMs and Complexes in the Protein Ontology: Application to Multi-Faceted Disease Analysis. - Karen Ross; Catalina O. Tudor; Gang Li 021; Ruoyao Ding; Irem Çelen; Julie Cowart; Cecilia N. Arighi; Darren A. Natale; Cathy H. Wu (ICBO, 2014)

Protein Ontology: a controlled structured network of protein entities. - Darren A. Natale; Cecilia N. Arighi; Judith A. Blake; Carol J. Bult; Karen R. Christie; Julie Cowart; Peter D'Eustachio; Alexander D. Diehl; Harold J. Drabkin; Olivia Helfer; Hongzhan Huang; Anna Maria Masci; et al. (Nucleic Acids Res., 2014)

Protein Ontology (PRO): enhancing and scaling up the representation of protein entities. - Darren A. Natale; Cecilia N. Arighi; Judith A. Blake; Jonathan P. Bona; Chuming Chen; Sheng-Chih Chen; Karen R. Christie; Julie Cowart; Peter D'Eustachio; Alexander D. Diehl; Harold J. Drabkin; William D. Duncan; et al. (Nucleic Acids Res., 2017)

Cloud-based Semantic Integration and Knowledge Discovery Systems in Precision Medicine. - Chuming Chen; Julie E. Cowart; Jia Ren; Sachin Gavali; Yuqi Wang; Hongzhan Huang; Cathy H. Wu; Leslie Arminski; Jian Zhang 051; Peter B. McGarvey (BCB, 2018)

RESTful API for iPTMnet: An Integrated Resource for Protein Post-translational Modification Network Discovery. - Sachin Gavali; Julie Cowart; Chuming Chen; Karen Ross; Cathy H. Wu (BCB, 2018)

iTextMine: integrated text-mining system for large-scale knowledge extraction from the literature. - Jia Ren; Gang Li 021; Karen Ross; Cecilia N. Arighi; Peter B. McGarvey; Shruti Rao; Julie Cowart; Subha Madhavan; K. Vijay-Shanker; Cathy H. Wu (Database J. Biol. Databases Curation, 2018)

iPTMnet: an integrated resource for protein post-translational modification network discovery. - Hongzhan Huang; Cecilia N. Arighi; Karen E. Ross; Jia Ren; Gang Li 021; Sheng-Chih Chen; Qinghua Wang 003; Julie Cowart; K. Vijay-Shanker; Cathy H. Wu (Nucleic Acids Res., 2018)

Understanding the factors related to the opioid epidemic using machine learning. - Sachin Gavali; Chuming Chen; Julie Cowart; Xi Peng 005; Shanshan Ding; Cathy H. Wu; Tammy Anderson (BIBM, 2021)

COVID-19 Knowledge Graph from semantic integration of biomedical literature and databases. - Chuming Chen; Karen E. Ross; Sachin Gavali; Julie E. Cowart; Cathy H. Wu (Bioinform., 2021)

Understanding the factors driving the opioid epidemic using machine learning. - Sachin Gavali; Chuming Chen; Julie Cowart; Xi Peng 005; Shanshan Ding; Cathy Wu 001; Tammy Anderson (CoRR, 2021)

A knowledge graph representation learning approach to predict novel kinase-substrate interactions. - Sachin Gavali; Karen Ross; Chuming Chen; Julie Cowart; Cathy H. Wu (CoRR, 2022)