James P Sluka

James P Sluka

Research Scientist, The Biocomplexity Institute

Contact Information

(812) 855-2441
Simon Hall MSB-1


  • PhD in Chemistry at California Insitute of Technology, 1987


2016 JP Sluka, X Fu, M Swat, JM Belmonte, A Cosmanescu, SG Clendenon, JF Wambaugh and JA Glazier “A Liver-centric Multiscale Modeling Framework for Xenobiotics”, PLoS One. 2016 Sep 16;11(9):e0162428. doi: 10.1371/journal.pone.0162428. “2016 Best Biological Modeling Paper Award” from the Biological Modeling Specialty Section of the Society of Toxicology.

2016 CE Clancy, G An, WR Cannon, Y Liu, EE May, P Ortoleva, AS Popel, JP Sluka, J Su, P Vicini, X Zhou and DM Eckmann “Multiscale Modeling in the Clinic: Drug Design and Development”, Annals of Biomedical Engineering, 2016 Feb 17; PMID: 26885640.

2016 JF Wambaugh, BA Wetmore, R Pearce, C Strope, R Goldsmith, J Sluka, A Sedykh, A Tropsha, S Bosgra, I Shah, R Judson, RS Thomas, and RW Setzer “Toxicokinetic Triage for Environmental Chemicals”, Toxicological Sciences, 147(1):55-67. PMID: 26085347. “Honorable Mention, Society of Toxicology, Toxicological Sciences Paper of the Year Award 2016.”

2016 Somogyi E, Sluka JP, Glazier JA. 2016. Formalizing knowledge in multi-scale agent based simulations. In Proceedings of the ACM/IEEE 19th International Conference on Model Driven Engineering Languages and Systems (MODELS ’16). ACM, New York, NY, USA, 115-122. DOI: https://doi.org/10.1145/2976767.2976790

2014 Sluka, J, Shirinifard A, Swat M, Cosmanescu A, Heiland R, and Glazier JA “The Cell Behavior Ontology: Describing the intrinsic biological behaviors of real and model cells seen as active agents”, Bioinformatics, 30:16, 2367-2374; doi: 10.1093/bioinformatics/ btu210.

2012 Sluka, JP, Glazier, JA, Swat, M “Infrastructure requirements for moving multiscale modeling from research tools to the clinical and regulatory domains”, in VPH NoE Newsletter,7, January 2012.

2012 R Heiland, M Swat, J Sluka, B Zaitlen, A Shirinifard, GL Thomas, A Lumsdaine, and J.A. Glazier. “Visualizing Cells and their Connectivity Graphs for CompuCell3D”. Biological Data Visualization (BioVis), 2012 IEEE Symposium on , pp.85-90, 14-15 Oct. 2012. doi: 10.1109/BioVis. 2012.6378597.

2001-2007 J Sluka, “PDQ_MED A software package for efficient mining of the biomedical literature in conjunction with ’Ohmics experiments”. Commercial software package. Customers included the National Institute of Environmental Health Sciences (NIEHS), MD Anderson Cancer Center, Duke University, Merck, Eli Lily, and Amgen.

2002 Dodge, JA, Jones, CD, Marron, K, Sluka, JP, Stocksdale, MG, “Compounds and compositions with nitrogen-containing non-basic side chains”, US Patent 6,444,688, Issued Sept. 3, 2002.

1999 Schmid, CR, Sluka, JP, Duke, KM, Glasebrook, AW “Novel nonsteroidal selective estrogen receptor modulators. Carbon and heteroatom replacement of oxygen in the ethoxypiperidine region of raloxifene”, Bioorganic and Medicinal Chemistry Letters 9, 523–528. (PMID: 10098655)

1998 Miles, RM, Turner, CH, Santerre, R, Tu, Y, McClelland, ., Argot, J, DeHoff, BS, Mundy, CW, Rosteck, PR Jr., Bidwell, J, Sluka, JP, Hock, J, Onyia, J. “Analysis of differential gene expression in rat tibia after osteogenic stimulus in vivo: mechanical loading regulates Osteopontin and Myeloperoxidase”, Journal of Cellular Biochemistry 68, 355–365.

1997 Grese, TA, Sluka, JP, Bryant, HU, Cullinan, GJ, Glasebrook, AL, Jones, CD, Matsumoto, K, Palkowitz, AD, Termine, JD, Winter, M., Yang, NN, Dodge, JA “Molecular determinants of tissue selectivity in estrogen receptor modulators”, Proceedings of the National Academy of Sciences USA 94, 14105–14110.(PMID: 9391160)

1990 Sluka, JP, Horvath, SJ, Glasglow, AC, Simon, MI, Dervan, PB “The Importance of Minor Groove Contacts in the Recognition of DNA by the DNA Binding Domain 3 of Hin Recombinase”, Biochemistry 29, 6551–6561. (PMID: 2204415)

1990 Sluka, JP, Griffin, JH, Mack, DP, Dervan, PB “Reagents and Methods for the Solid Phase Synthesis of Protein-EDTA for Use in Affinity Cleaving” Journal of the American Chemical Society 112, 6369–6374.

1987 Sluka, JP, Bruist, MF Horvath, SJ, Simon, MI, Dervan, PB “Synthesis of a Sequence Specific DNA Cleaving Peptide”, Science 238, 1129. (PMID: 3120311)