Evaluation of high-throughput functional categorization of human disease genes. - James L. Chen; Yang Liu 023; Lee T. Sam; Jianrong Li; Yves A. Lussier (BMC Bioinform., 2007)

Image-Based Modeling Reveals Dynamic Redistribution of DNA Damage into Nuclear Sub-Domains. - Sylvain V. Costes; Artem L. Ponomarev; James L. Chen; David Nguyen; Francis A. Cucinotta; Mary Helen Barcellos-Hoff (PLoS Comput. Biol., 2007)

Mechanism-anchored profiling derived from epigenetic networks predicts outcome in acute lymphoblastic leukemia. - Xinan Yang; Yong Huang; James L. Chen; Jianming Xie; Xiao Sun 006; Yves A. Lussier (BMC Bioinform., 2009)

Clinical Ontologies. - Yves A. Lussier; James L. Chen (Encyclopedia of Database Systems, 2009)

Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models. - Xinan Yang; Younghee Lee; Yong Huang; James L. Chen; H. Rosie Xing; Yves A. Lussier (BMC Bioinform., 2010)

Protein interaction network underpins concordant prognosis among heterogeneous breast cancer signatures. - James L. Chen; Lee T. Sam; Yong Huang; Younghee Lee; Jianrong Li; Yang Liu 023; H. Rosie Xing; Yves A. Lussier (J. Biomed. Informatics, 2010)

Protein-network modeling of prostate cancer gene signatures reveals essential pathways in disease recurrence. - James L. Chen; Jianrong Li; Walter M. Stadler; Yves A. Lussier (J. Am. Medical Informatics Assoc., 2011)

Complex-disease networks of trait-associated single-nucleotide polymorphisms (SNPs) unveiled by information theory. - Haiquan Li; Younghee Lee; James L. Chen; Ellen Rebman; Jianrong Li; Yves A. Lussier (J. Am. Medical Informatics Assoc., 2012)

Advantages of genomic complexity: bioinformatics opportunities in microRNA cancer signatures. - Yves A. Lussier; Walter M. Stadler; James L. Chen (J. Am. Medical Informatics Assoc., 2012)

Classifier-Free, Integrated Genomic Predictions of Prostate Cancer Recurrence. - Chaitanya Shivade; James L. Chen (MedInfo, 2013)

Research and applications: Network models of genome-wide association studies uncover the topological centrality of protein interactions in complex diseases. - Younghee Lee; Haiquan Li; Jianrong Li; Ellen Rebman; Ikbel Achour; Kelly Regan; Eric R. Gamazon; James L. Chen; Xinan Holly Yang; Nancy J. Cox; Yves A. Lussier (J. Am. Medical Informatics Assoc., 2013)

How essential are unstructured clinical narratives and information fusion to clinical trial recruitment? - Preethi Raghavan; James L. Chen; Eric Fosler-Lussier; Albert M. Lai (CoRR, 2015)

Analysis of aggregated cell-cell statistical distances within pathways unveils therapeutic-resistance mechanisms in circulating tumor cells. - A. Grant Schissler; Qike Li; James L. Chen; Colleen Kenost; Ikbel Achour; Dean Billheimer; Haiquan Li; Walter W. Piegorsch; Yves A. Lussier (Bioinform., 2016)

Clinical Ontologies. - Yves A. Lussier; James L. Chen (Encyclopedia of Database Systems (2nd ed.), 2018)

Continuum of Interoperability in Oncology EHR Implementations. - Elmer V. Bernstam; Jeremy L. Warner; John C. Krauss; Edward P. Ambinder; Wendy S. Rubinstein; George Komatsoulis; Robert S. Miller; James L. Chen (AMIA, 2019)

Recommendations for patient similarity classes: results of the AMIA 2019 workshop on defining patient similarity. - Nathan D. Seligson; Jeremy L. Warner; William S. Dalton; David Martin; Robert S. Miller; Debra Patt; Kenneth L. Kehl; Matvey B. Palchuk; Gil Alterovitz; Laura K. Wiley; Ming Huang 006; Feichen Shen; et al. (J. Am. Medical Informatics Assoc., 2020)

Quantitating and assessing interoperability between electronic health records. - Elmer V. Bernstam; Jeremy L. Warner; John C. Krauss; Edward P. Ambinder; Wendy S. Rubinstein; George Komatsoulis; Robert S. Miller; James L. Chen (J. Am. Medical Informatics Assoc., 2022)