Jishnu Das, PhD

Jishnu Das, PhD

Contact

Campus: 200 Lothrop Street

Office: W1041 BST

Pittsburgh, PA 15261

Ph: 412-648-4234

JISHNU@pitt.edu

Education

  • BTech - Indian Institute of Technology, Kanpur (2006-2010)
  • PhD – Cornell University (2010-2016)
  • Postdoc – Ragon Institute of MGH, MIT & Harvard and MIT BE (2016-2019)

Academic Affiliation

  • Assistant Professor, Immunology
  • Assistant Professor, Computational Biology
  • Core Faculty Member, Center for Systems Immunology

About Research

Our research focuses on the development and use of novel systems approaches to analyze high-dimensional immunological datasets, and elucidate mechanisms of natural and vaccine-mediated immunity. Our previous work has utilized systems approaches to analyze Mendelian mutations in the context of three-dimensional protein-protein interaction networks, to understand molecular mechanisms of corresponding disorders. We have also developed network analyses frameworks to characterize the evolutionary dynamics of these protein networks. Another dimension of our past work has been the use of statistical methods for the analyses of high-dimensional data and machine-learning approaches to elucidate correlates of vaccine-mediated immunity in HIV/SIV and malaria.

Current research in the lab has 2 broad arms:

1. Creative use of existing machine-learning, high-dimensional statistical and topological network-analyses methods for biologically meaningful integration of multi-omic datasets. These analyses help us understand immune mechanisms in a wide range of contexts, encompassing both natural and vaccine-mediated immunity.

2. Development of novel methods (at the intersection of machine learning and network systems biology) for the analyses of high-dimensional immunological datasets (transcriptomic, phenotypic and functional)

Selected Publications

Bing X, Bunea F, Royer M, Das J^ “Latent model based clustering for biological discovery”. iScience (Cell Press) 2019; 14:125-135 ^=corresponding author

Fragoza R, Das J* et al, “Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations.” Nature Communications 2019; 10(1):4141 *=co-first

Ackerman M, Das J et al, “Route of immunization defines multiple mechanisms of vaccine-mediated protection against SIV.” Nature Medicine 2018; 24(10): 1590-1598.

Sadanand S*, Das J* et al, “Temporal variation in HIV-specific IgG subclass antibodies during acute infection differentiates spontaneous controllers from chronic progressors.” AIDS 2018; 32(4):443-450 *=co-first

Goetghebuer T*, Smolen K*, Adler C*, Das J* et al, “Initiation of Antiretroviral Therapy Before Pregnancy Reduces the Risk of Infection-related Hospitalization in Human Immunodeficiency Virus-exposed Uninfected Infants Born in a High-income Country.” Clinical Infectious Diseases 2018; 68(7):1193-1203 *=co-first

Vo T*, Das J* et al, “A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human.” Cell 2016; 164(1-2):310-323 *=co-first

Wei X*, Das J* et al, “A massively parallel pipeline to clone DNA variants and examine molecular phenotypes of human disease mutations.” PLoS Genetics 2014; 10(12):e1004819 *=co-first

Das J et al, “Elucidating common structural features of human pathogenic variations using large-scale atomic-resolution protein networks.” Human Mutation 2014; 35(5): 585-593.

Das J et al, “Cross-species protein interactome mapping reveals species-specific wiring of stress response pathways.” Science Signaling 2013; 6(276):ra38.

Das J et al, “HINT: High-quality protein interactomes and their applications in understanding human disease.” BMC Systems Biology 2012; 6:92

Das J et al, “Genome-scale analysis of interaction dynamics reveals organization of biological networks.” Bioinformatics 2012; 28(14):1873-1878

Wang X*, Wei X*, Thijssen B, Das J* et al, “Three-dimensional reconstruction of protein networks provides insight into human genetic disease.” Nature Biotechnology 2012; 30(2): 159-164 *=co-first