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Dr. Chongle Pan

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Chongle Pan of the School of Computer Science

Chongle Pan

E-mail:  cpan@ou.edu
Web: 
 www.omicsbio.org
Phone:  (405) 325-2972 | Office:  DEH 231

EDUCATION
PhD, University of Tennessee, Knoxville
BS, East China Normal University

EXPERIENCE
Associate Professor, School of Computer Science, Department of Microbiology and Plant Biology, University of Oklahoma
Senior Research Scientist, Computer Science and Mathematics Division, Oak Ridge National Laboratory
Research Scientist, Computer Science and Mathematics Division, Oak Ridge National Laboratory

RESEARCH INTERESTS
Bioinformatics, artificial intelligence, high-performance computing, knowledge discovery, big -omics data, machine learning, knowledge graph, graph theory.

BIOGRAPHY
Dr. Chongle Pan is an associate professor in the School of Computer Science and the Department of Microbiology and Plant Biology at the University of Oklahoma. Prior to joining OU, he worked as a senior research scientist in the Computer Science and Mathematics Division of Oak Ridge National Laboratory. Dr. Pan has published more than 60 peer-reviewed journal publications and is the corresponding author on 14 publications. He has mentored 6 postdoctoral researchers, 3 of whom then became tenure-track assistant professors of computer science in the U.S. His research focuses on using artificial intelligence and machine learning for knowledge discovery in bioinformatics and developing new high-performance computing algorithms for scalable analytics of big -omics data.

SELECTED PUBLICATIONS
Q. Yao, Z. Li, Y. Song, S. J. Wright, X. Guo, S. G. Tringe, M.M. Tfaily, L. Paša-Tolic, T. C. Hazen, B. L. Turner, M. A. Mayes, C. Pan (2018) Community Proteogenomics Reveals the Systemic Impact of Phosphorus Availability on Microbial Functions in Tropical Soil. Nature Ecology and Evolution 2(3):499-509

X. Guo, Z. Li, Q. Yao, R.S. Mueller, J. K. Eng, D. L. Tabb, W. J. Hervey, and C. Pan (2018) Sipros Ensemble Improves Database Searching and Filtering for Complex Metaproteomics, Bioinformatics  34(5):795-802

Z. Li, Q. Yao, S. P. Dearth, M. R. Entler, H. F. Castro Gonzalez, J. K. Uehling, R. J. Vilgalys, G. B. Hurst, S. R. Campagna, J. L. Labbe, and C. Pan. (2017) Integrated proteomics and metabolomics suggests symbiotic metabolism and multimodal regulation in a fungal-endobacterial system, Environmental Microbiology 19, 1041-1053

T.-H. Ahn, J. Chai, and C. Pan. (2015) Sigma: Strain-level inference of genomes from metagenomic analysis for biosurveillance, Bioinformatics 31, 170-177.

Y. Wang, G. Kora, B. P. Bowen, and C. Pan. (2014) MIDAS: A Database-Searching Algorithm for Metabolite Identification in Metabolomics, Analytical Chemistry 86, 9496-9503.

B. Haider, T.-H. Ahn, B. Bushnell, J. Chai, A. Copeland, and C. Pan. (2014) Omega: an Overlap-graph de novo Assembler for Metagenomics, Bioinformatics 30, 2717-2722

J. Chai, G. Kora, T.-H. Ahn, D. Hyatt, and C. Pan. (2014) Functional phylogenomics analysis of bacteria and archaea using consistent genome annotation with UniFam, BMC Evolutionary Biology 14:207. doi: 10.1186/s12862-014-0207-y

Z. Li, Y. Wang, Q. Yao, N. B. Justice, T.-H. Ahn, D. Xu, R. L. Hettich, J. F. Banfield, and C. Pan. (2014) Diverse and divergent protein post-translational modifications in two growth stages of a natural microbial community, Nature Communications 5:4405. doi: 10.1038/ncomms5405