Sudin Bhattacharya, Ph.D.
Senior Research Investigator
B.S., Mechanical Engineering, Jadavpur University, Kolkata, India, 1997.
M.S., Mechanical Engineering, University of Kentucky, 1999.
Ph.D., Mechanical Engineering, University of Michigan, Ann Arbor, 2006.
I am interested in the regulation of cell fate in normal physiological conditions vis-à-vis under perturbation by potentially toxic chemicals. Hierarchical networks of gene and protein interactions underlie cell fate choices in both “healthy” and “diseased”/”toxic” states. At The Hamner’s Institute for Chemical Safety Sciences, we are using a combination of genome-wide data analysis and computational pathway modeling to unravel and reconstruct the signaling and transcriptional regulatory networks that enable cells to respond in a finely-tuned manner to changing environments. This “integrative network toxicology” approach will be a key component of improved risk assessment for toxicity testing in the 21st century. In collaboration with Drs. Patrick McMullen, Harvey Clewell and Melvin Andersen, I am developing a spatial, multi-cellular “virtual tissue” model of the human liver to study the effects of exposure to the common environmental contaminant TCDD. I am also working with Drs. Qiang Zhang, Melvin Andersen and Rory Conolly (US EPA) to develop deterministic and stochastic models of B cell differentiation and its disruption by TCDD, as part of a Superfund Research Project led by Norbert Kaminski (Michigan State University). Along with Drs. Zhang and Andersen, I have been closely involved in the development and teaching of the Computational Systems Biology and Dose Response Modeling Workshop offered as part of The Hamner’s education and training program.
Selected Publications - click to view
P. D. McMullen, S. Bhattacharya, C. G. Woods, B. Sun, K. Yarborough, S. M. Ross, M. E. Miller, M. T. McBride, E. L. LeCluyse, R. A. Clewell and M. E. Andersen, A map of the PPARα transcription regulatory network for primary human hepatocytes.Chemico-Biological Interactions 209:14 (2014). http://www.sciencedirect.com/science/article/pii/S0009279713002895
P. Godoy, N. J. Hewitt, U. Albrecht, M.E. Andersen, N. Ansari, S. Bhattacharya et al, Recent advances in 2D and 3D in vitro systems using primary hepatocytes, alternative hepatocyte sources and non-parenchymal liver cells and their use in investigating mechanisms of hepatotoxicity, cell signaling and ADME, Archives of Toxicology 87(8): 1315 (2013). http://link.springer.com/article/10.1007/s00204-013-1078-5
Q. Zhang, S. Bhattacharya and M.E. Andersen, Ultrasensitive response motifs: basic amplifiers in molecular signalling networks. Open Biology 3:130031 (2013). http://rsob.royalsocietypublishing.org/content/3/4/130031.abstract
Q. Zhang, D. E. Kline, S. Bhattacharya, R. B. Crawford, R. B. Conolly, R. S. Thomas, M. E. Andersen and N. E. Kaminski, All-or-none suppression of B cell terminal differentiation by environmental contaminant 2,3,7,8-tetrachlorodibenzo-p-dioxin. Toxicology and Applied Pharmacology 268(1):17 (2013). http://www.sciencedirect.com/science/article/pii/S0041008X13000367
M. E. Andersen, P. McMullen and S. Bhattacharya, Toxicogenomics for transcription factor-governed molecular pathways: moving on to roles beyond classification and prediction. Archives of Toxicology 87(1):7 (2013). http://link.springer.com/article/10.1007/s00204-012-0980-6
B. S. Karthikeyan, M. Zeeshan, S. Bhattacharya, Q. Zhang, M. E. Andersen and M. A. Akbarsha, Scientists in India Sensitized About Systems Biology Approach to Toxicity Testing: Hands-on Workshop on Computational Systems Biology and Dose-Response Modeling. ALTEX Proceedings 2(1): 83 (2013). http://altweb.jhsph.edu/altex/proceedings/2_1/Shanmugan1.pdf
S. Bhattacharya, L. K. M. Shoda, Q. Zhang, C. Woods, B. A. Howell, S. Q. Siler, J. L. Woodhead, Y. Yang, P. McMullen, P. B. Watkins and M. E. Andersen, Modeling drug- and chemical- induced hepatotoxicity with systems biology approaches. Frontiers in Physiology 3:462 (2012). http://www.frontiersin.org/systems_biology/10.3389/fphys.2012.00462/abstract
S. Bhattacharya, Q. Zhang and M. E. Andersen, A deterministic map of Waddington's epigenetic landscape for cell fate specification. BMC Systems Biology 5:85 (2011). http://www.biomedcentral.com/1752-0509/5/85
S. Bhattacharya, Q. Zhang, P. L. Carmichael, K. Boekelheide and M. E. Andersen, Toxicity Testing in the 21st Century: Defining New Risk Assessment Approaches Based on Perturbation of Intracellular Toxicity Pathways. PLoS ONE 6(6): e20887 (2011). http://www.plosone.org/article/info:doi/10.1371/journal.pone.0020887
S. Bhattacharya, Q. Zhang and M. E. Andersen, Double-negative feedback loops as a common design motif in the transcriptional networks regulating cell fate. International Journal of Design Engineering 4(1):41-57 (2011). http://www.inderscience.com/search/index.php?action=record&rec_id=41408
S. Bhattacharya, Q. Zhang and M.E. Andersen, The Role of Core Biological Motifs in Dose-Response Modeling: An Example with Switch-Like Circuits, in Systems Biology in Drug Discovery and Development, Young D.L. and Michelson S. (ed.), John Wiley & Sons (2011). http://www.wiley.com/WileyCDA/WileyTitle/productCd-0470261234,descCd-tableOfContents.html
S. Bhattacharya, R. B. Conolly, N. E. Kaminski, R. S. Thomas, M. E. Andersen and Q. Zhang, A Bistable Switch Underlying B Cell Differentiation and Its Disruption by the Environmental Contaminant 2,3,7,8-tetrachlorodibenzo-p-dioxin. Toxicological Sciences 115(1):51-65 (2010). http://toxsci.oxfordjournals.org/cgi/content/short/115/1/51
Q. Zhang, S. Bhattacharya, D. E. Kline, R. B. Crawford, R. B. Conolly, R. S. Thomas, N. E. Kaminski and M. E. Andersen, Stochastic Modeling of B Lymphocyte Terminal Differentiation and Its Suppression by Dioxin. BMC Systems Biology 4:40 (2010). http://www.biomedcentral.com/1752-0509/4/40
Q. Zhang, S. Bhattacharya, M. E. Andersen and R. B. Conolly, Computational Systems Biology and Dose-Response Modeling in Relation to New Directions in Toxicity Testing. Journal of Toxicology and Environmental Health Part B 13(2):253 (2010). http://www.informaworld.com/smpp/content~db=all~content=a923252202
S. Bhattacharya, Q. Zhang and M.E. Andersen, Bistable Signaling Motifs and Cell Fate Decisions, in Quantitative Modeling in Toxicology, Krishnan K. and Andersen M.E. (ed.), John Wiley & Sons (2010). http://www.wiley.com/WileyCDA/WileyTitle/productCd-0470998091,descCd-tableOfContents.html
Q. Zhang, S. Bhattacharya, C.G. Woods and M.E. Andersen, Ultrasensitive Response Motifs in Biochemical Networks, in Quantitative Modeling in Toxicology, Krishnan K. and Andersen M.E. (ed.), John Wiley & Sons (2010). http://www.wiley.com/WileyCDA/WileyTitle/productCd-0470998091,descCd-tableOfContents.html
M.E. Andersen, Q. Zhang and S. Bhattacharya, Gene and Protein Expression – Modeling Nested Motifs in Cellular and Tissue Response Networks, in Quantitative Modeling in Toxicology, Krishnan K. and Andersen M.E. (ed.), John Wiley & Sons (2010). http://www.wiley.com/WileyCDA/WileyTitle/productCd-0470998091,descCd-tableOfContents.html
M.E. Andersen, S. Bhattacharya and W. Hanneman, Molecular Toxicology – A Risk Assessment Perspective, in Comprehensive Toxicology, 2nd edition, Vol. 2, McQueen C. (ed.), Elsevier Science, Oxford (2010). http://www.elsevierdirect.com/brochures/tox2/content.html
Q. Zhang, Y.M. Tan, S. Bhattacharya and M.E. Andersen, Computational Systems Biology Modeling of Dosimetry and Cellular Response Pathways, in Drug Efficacy, Safety, and Biologics Discovery: Emerging Technologies and Tools, Ekins S. and Xu J.J. (ed.), John Wiley & Sons, Hoboken, New Jersey (2009). http://www3.interscience.wiley.com/cgi-bin/summary/122212402/SUMMARY
S. Bhattacharya and J. Kieffer, Molecular Dynamics Simulation Study of Growth Regimes during Polycondensation of Silicic Acid: from Silica Nanoparticles to Porous Gels, Journal of Physical ChemistryC 112 (6), 1764 -1771 (2008). http://pubs.acs.org/doi/abs/10.1021/jp073808f
S. Bhattacharya and J. Kieffer, Fractal dimensions of silica gels generated using reactive molecular dynamics simulations, Journal of Chemical Physics 122, 094715 (2005). http://jcp.aip.org/jcpsa6/v122/i9/p094715_s1
- Barbara A. Wetmore, Ph.D.
- Bin Sun, Ph.D.
- Brett A. Howell, Ph.D.
- Chad Deisenroth, Ph.D.
- Darol E. Dodd, Ph.D., DABT
- Edward L. LeCluyse, Ph.D.
- Harvey J. Clewell III, Ph.D., DABT
- Jeffrey L. Woodhead, Ph.D.
- Jerry Campbell, Jr., Ph.D.
- Kristina Wolf, Ph.D.
- Longlong Yang, Ph.D.
- Melvin E. Andersen, Ph.D., DABT, CIH
- Merrie Mosedale, Ph.D.
- Michael B. Black, Ph.D.
- Miyoung Yoon, Ph.D.
- O. Joe Trask, B.S.
- Patrick McMullen, Ph.D.
- Paul B. Watkins, M.D.
- Pergentino Balbuena, Ph.D.
- Qiang Zhang, M.D., Ph.D.
- Rebecca A. Clewell, Ph.D.
- Rebecca Alyea, Ph.D.
- Sudin Bhattacharya, Ph.D.
- Yuching Yang, Ph.D.