Shilpa Nadimpalli Kobren

I'm a Research Fellow in Biomedical Informatics at Harvard University. My research focuses on leveraging genome-scale sequencing data with clinical health record data to derive insights on the molecular mechanisms underlying rare human diseases in Dr. Isaac Kohane's lab.

Previously as a Computer Science Ph.D. student at Princeton University, my research focused on detecting and interpreting protein interaction and cellular network perturbations within and across organisms in Prof. Mona Singh's lab. As an undergraduate at Tufts University, I worked with Prof. Lenore Cowen on improving methods for protein structural alignments.

I enjoy traveling, tulips, and pumpkin muffins.

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Commonalities across computational workflows for uncovering explanatory variants in undiagnosed cases

Shilpa Nadimpalli Kobren, Dustin Baldridge, Matt Velinder, Joel B. Krier, Kimberly LeBlanc, Cecilia Esteves, Barbara N. Pusey, Stephan Zuchner, Elizabeth Blue, Hane Lee, Alden Huang, Lisa Bastarache, Anna Bican, Joy Cogan, Shruti Marwaha, Anna Alkelai, David R. Murdock, Pengfei Liu, Daniel J. Wegner, Alexander J. Paul, Undiagnosed Diseases Network, Shamil R. Sunyaev and Isaac S. Kohane (2021)

Genetics in Medicine

PDF BibTex doi: 10.1038/s41436-020-01084-8

PertInInt: An integrative, analytical approach to rapidly uncover cancer driver genes with perturbed interactions and functionalities

Shilpa Nadimpalli Kobren, Bernard Chazelle and Mona Singh (2020)

Cell Systems

PDF BibTex doi: 10.1016/j.cels.2020.06.005

Systematic domain-based aggregation of protein structures highlights DNA-, RNA- and other ligand-binding positions

Shilpa Nadimpalli Kobren and Mona Singh (2019)

Nucleic Acids Research

PDF BibTex doi: 10.1093/nar/gky1224

Pervasive variation of transcription factor orthologs contributes to regulatory network divergence

Shilpa Nadimpalli, Anton V. Persikov, and Mona Singh (2015)

PLoS Genetics

PDF BibTex doi: 10.1371/journal.pgen.1005011

Formatt: Correcting protein multiple structural alignments by incorporating sequence alignment

Noah M. Daniels, Shilpa Nadimpalli, and Lenore Cowen (2012)

BMC Bioinformatics

PDF BibTex doi: 10.1186/1471-2105-13-259

Formatt: Correcting protein multiple structural alignments by sequence peeking

Shilpa Nadimpalli*, Noah M. Daniels*, and Lenore Cowen (2011)

Proceedings of the 2011 ACM Conference on Bioinformatics, Computational Biology and Biomedicine (BCB)

PDF BibTex doi: 10.1145/2147805.2147842

Evolving soft robotic locomotion in PhysX

John Rieffel, Frank Saunders, Shilpa Nadimpalli, Harvey Zhou, Soha Hassoun, Jason Rife, and Barry Trimmer (2009)

Proceedings of the 2009 ACM Conference on Genetic and Evolutionary Computation (GECCO)

PDF BibTex doi: 10.1145/1570256.1570351

Selected Honors



Other Activities

Most recently, I am serving as a co-chair for the Pattern Recognition session at PSB 2020. I am also a primary organizer for the bioinformatics working group in the Undiagnosed Diseases Network. Previously, I've served as a student activity co-chair for ACM BCB 2017 in Boston. I've also served as the Computer Science Representative and an Events Board member on Princeton's Graduate Student Government (2011-2014), as President of Jewish Graduate Students and Young Professionals (2012-2014), and as a member of Princeton's Graduate Women in Science and Engineering (2011-2018). I am an undergraduate mentor through Harvard's WiSTEM Program and a college interviewer through Tufts' Alumni Admissions Program.

For more information, please see my CV.

Last updated: 13-Aug-2019