Bio

Professional Education


  • Doctor of Philosophy, Indian Institute of Science (2019)
  • Master of Science, Jawaharlal Nehru University (2013)
  • Bachelor of Science, St. Xavier's College, University of Calcutta (2011)

Stanford Advisors


  • Jin Li, Postdoctoral Faculty Sponsor

Publications

All Publications


  • A facile method of mapping HIV-1 neutralizing epitopes using chemically masked cysteines and deep sequencing PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA Datta, R., Chowdhury, R., Manjunath, K., Hanna, L., Varadarajan, R. 2020; 117 (47): 29584?94

    Abstract

    Identification of specific epitopes targeted by neutralizing antibodies is essential to advance epitope-based vaccine design strategies. We report a facile methodology for rapid epitope mapping of neutralizing antibodies (NAbs) against HIV-1 Envelope (Env) at single-residue resolution, using Cys labeling, viral neutralization assays, and deep sequencing. This was achieved by the generation of a library of Cys mutations in Env glycoprotein on the viral surface, covalent labeling of the Cys residues using a Cys-reactive label that masks epitope residues, followed by infection of the labeled mutant virions in mammalian cells in the presence of NAbs. Env gene sequencing from NAb-resistant viruses was used to accurately delineate epitopes for the NAbs VRC01, PGT128, and PGT151. These agreed well with corresponding experimentally determined structural epitopes previously inferred from NAb:Env structures. HIV-1 infection is associated with complex and polyclonal antibody responses, typically composed of multiple antibody specificities. Deconvoluting the epitope specificities in a polyclonal response is a challenging task. We therefore extended our methodology to map multiple specificities of epitopes targeted in polyclonal sera, elicited in immunized animals as well as in an HIV-1-infected elite neutralizer capable of neutralizing tier 3 pseudoviruses with high titers. The method can be readily extended to other viruses for which convenient reverse genetics or lentiviral surface display systems are available.

    View details for DOI 10.1073/pnas.2010256117

    View details for Web of Science ID 000593986600003

    View details for PubMedID 33168755

    View details for PubMedCentralID PMC7703538

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