Krishnaswamy, Smita - Yale University - Biological & Biomedical Sciences

个人简介

Smita Krishnaswamy was trained as a computer scientist with a Ph.D. from the University of Michigan's EECS department where her research focused on algorithms for automated synthesis and verification of nanoscale logic circuits that exhibit probabilistic effects. During her Ph.D., she received a best paper award at DATE 2005 (a top conference in the field of design automation), and an outstanding dissertation award. She published numerous first-author papers on probabilistic network models and algorithms for VLSICAD. In addition, her dissertation was published as a book by Springer in 2013. Following her Ph.D., she joined IBM's TJ Watson Research Center as a scientist in the systems division, where she focused on formal methods for automated error detection. Her Deltasyn algorithm was eventually utilized in IBMs p and z series high-performance chips. She then switched her research efforts to biology. Her postdoctoral training was completed at Columbia University in the systems biology department where she focused on learning computational models of cellular signaling from single-cell mass cytometry data. Although technologies such as mass cytometry, and single-cell RNA sequencing, are able to generate high-dimensional high-throughput single-cell data, the computational, modeling and visualization techniques needed to analyze and make sense of this data are still lacking. Smita's research addresses this challenge by developing scalable computational methods for analyzing and learning predictive network models from massive biological datasets. Her methods for characterizing interactions in cellular signaling networks, published in a recent Science paper, reveal the computation performed by cells as they process signals in terms of stochastic response functions. Smita, along with experimental collaborators, have applied these methods to T cell signaling and have found that signaling response functions are reconfigured through differentiation and disease. For example, Smita and her collaborators found that subtle alterations in receptor-proximal signaling in non-obese diabetic (NOD) mice are amplified through signaling cascades leading to larger defects in downstream signals responsible for damping immune response. Her ongoing work involves creating more sophisticated and accurate models of transformational biological processes by combining both single-cell signaling and genomic data. At Yale, she is creating a forward-looking and interdisciplinary research group that is focused on developing computational techniques to solve today’s challenging biological and medical problems. PhD University of Michigan (2008) MS University of Michigan (2004) BA Kalamazoo College, Mathematics (2002) BS University of Michigan (2002) Postdoctoral Fellowship Columbia University

研究领域

Genetics; Computational Biology; Epithelial-Mesenchymal Transition; Single-Cell Analysis

近期论文

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Single-cell mass cytometry of TCR signaling: Amplification of small initial differences results in low ERK activation in NOD mice Michael Mingueneau, Smita Krishnaswamy, Matthew H. Spitzer, Sean C. Bendall, Erica L. Stone, Stephen M. Hedrick, Dana Pe'er, Diane Mathis, Garry P. Nolan, and Christophe Benoist viSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia El-ad David Amir, Kara L. Davis, Michelle D. Tadmor, Erin F. Simonds, Jacob H. Levine, Sean C Bendall, Daniel K. Shenfeld, Smita Krishnaswamy, Garry P. Nolan, Dana Pe'er Palladium-based mass tag cell barcoding with a doublet-filtering scheme and single-cell deconvolution algorithm Eli R Zunder, Rachel Finck, Gregory K Behbehani, El-ad D Amir, Smita Krishnaswamy, Veronica D. Gonzalez, Cynthia G. Lorang, Zach Bjornson, Matthew H. Spitzer, Bernd Bodenmiller, Wendy J. Fantl, Dana Pe'er, Garry P. Nolan Conditional density-based analysis of T cell signaling in single-cell data Smita Krishnaswamy, Matthew H. Spitzer, Michael Mingueneau, Sean C. Bendall, Oren Litvin, Erica Stone, Dana Pe’er, Garry P. Nolan Design, Analysis and Test of Logic Circuits under Uncertainty Smita Krishnaswamy, Igor L. Markov, John P. Hayes Lecture Notes in Electrical Engineering, Springer DOI:10.1007/978-90-481-9644-9 Yao Y, Welp T, Liu Q, Niu N, Wang X, Britto CJ, Krishnaswamy S, Chupp GL, Montgomery RR: Multiparameter Single Cell Profiling of Airway Inflammatory Cells. Cytometry B Clin Cytom. 2017 Jan. PMID: 27807928 Lowther DE, Goods BA, Lucca LE, Lerner BA, Raddassi K, van Dijk D, Hernandez AL, Duan X, Gunel M, Coric V, Krishnaswamy S, Love JC, Hafler DA: PD-1 marks dysfunctional regulatory T cells in malignant gliomas. JCI Insight. 2016 Apr 21. PMID: 27182555