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Chakravarti, Deb
 

Chakravarti, Deb

Curriculum Vitae
Director, York College FDA Partnership
Professor
Chemistry

Phone: 718-262-2661
Office Location: AC-3F01
DChakravarti@york.cuny.edu

Office Hours  
During the present Distance Learning mode: Office Hours provided through Blackboard Ultra or Telephone   
Friday (Spring semester - Distance Learning: email dchakravarti@york.cuny.edu to obtain link or telephone number for joining Blackboard session)  9:30 am to 11:30 am 
Or by appointment (email dchakravarti@york.cuny.edu)   

Education

Degree Institution Field Dates
DPhil  University of Oxford  Protein Chemistry/Immunochemistry [Adviser: Prof. Rodney R. Porter, F.R.S., Nobel Laureate (1972)]  1982 
PhD  University of Calcutta  Biochemistry  1979 
MS  University of Calcutta  Biochemistry [First Class - Rank First (Gold Medalist)]  1974 
BS  University of Calcutta  Chemistry (Honors in Chemistry) [First Class - Rank First (Gold Medalist)]  1972 
I worked on the human complement proteins involved in host defense at the University of Oxford (with Prof. Rodney Porter, Nobel Laureate) and at The Scripps Research Institute. Later I worked on vaccines as an Assistant Professor of Medicine at the University of Alabama at Birmingham. Subsequently at Wyeth Vaccines (Pfizer), I was involved in the R&D of vaccines against several infectious diseases including application of genomics and proteomics and high throughput identification of bacterial surface proteins as vaccine candidates. I was actively involved in the "well characterization" of some of the most successful conjugate vaccines, such as HibTITER, Meningitec and the blockbuster product Prevnar. Currently my research is focused on the characterization of biomarkers and knowledge discovery using bioinformatics and systems biology approaches, such as organ specific differential proteome profiling (2D gels and LC-MS/MS) to delineate the molecular basis of aging in mouse models.

Areas of Expertise

Biotechnology and Pharmaceutical R&D: Vaccines/Biologics/Biosimilars/Drugs
Bioprocessing (Downstream)
Regulatory Affairs
Protein & Analytical Chemistry
Proteomics & Biomarkers
Bioinformatics
Biochemistry
Immunology & Infectious diseases

Articles in Field Of Expertise

B. Chakravarti, C. Sherpa, D. Bose, K. Paul Chowdhury, K. Khadar, Y.C. Zhang and D.N. Chakravarti. "Pancreatic proteome profiling of type 1 diabetic mouse: differential expression of proteins involved in exocrine function, stress response, growth, apoptosis and metabolism." Biochem. Biophys. Res. Commun. Epub ahead of print doi: 10.1016/j.bbrc.2016.04.121 : In Press 2016.

B. Chakravarti and D.N. Chakravarti. "Liquid chromatography – tandem mass spectrometry – application for clinical chemistry laboratory." J. Mol. Biomark. Diagn. 6:244, 2015: 1-2.

A. Marshall, R. Lutfeali, A. Raval, D. N. Chakravarti and B. Chakravarti. "Differential hepatic protein tyrosine nitration of mouse due to aging – effect on mitochondrial energy metabolism, quality control machinery of the endoplasmic reticulum and metabolism of drugs." Biochem. Biophys. Res. Commun. 430, 2013: 231-235 [DNC and BC are equal senior authors].

B. Chakravarti, B. Mallik, and D.N. Chakravarti. "Proteomics and Systems Biology – Application in Drug Discovery and Development." Methods Mol. Biol. 662, 2010: 3-28.

B. Chakravarti, P. Fathy, M. Sindicich, B. Mallik and D. N. Chakravarti. "Comparison of SYPRO Ruby and Flamingo fluorescent stains for application in proteomic research." Anal. Biochem. 398, 2010: 1-6.

F. Kalinec, P. Webster, A. Maricle, D. Guerrero, D. N. Chakravarti, B. Chakravarti, R. Gellibolian and G. Kalinec. "Glucocorticoid-stimulated, transcription independent release of Annexin A1 by Cochlear Hensen Cells." Br. J. Pharmacol. 158, 2009: 1820-1834.

B. Chakravarti, B. Seshi, W. Ratanaprayul, N. Dalal, L. Lin, A. Raval and D. N. Chakravarti. "Proteome profiling of aging in mouse models. Differential expression of proteins involved in metabolism, transport and stress response in kidney." Proteomics. 9, 2009: 580-597.

B. Chakravarti, A. Raval, S. Gallagher and D. N. Chakravarti. "A highly uniform UV transilluminator: A new system without the need of software correction." BIOforum Europe. 12, 2008: 38-39.

B. Chakravarti, M. Louie, W. Ratanaprayul, S. Gallagher and D. N. Chakravarti. "A highly uniform UV transillumination imaging system for quantitative analysis of nucleic acids and proteins." Proteomics. 8, 2008: 1789-1797.

B. Chakravarti, W. Ratanaprayul, N. Dalal and D. N. Chakravarti. "Comparison of SYPRO Ruby and Deep Purple using commonly available UV transilluminator: wide-scale application in proteomic research." J. Proteome Res. 7, 2008: 2797-2802.

B. Chakravarti, M. Oseguera, N. Dalal, P. Fathy, B. Mallik, A. Raval and D. N. Chakravarti. "Proteomic profiling of aging in the mouse heart: Altered expression of mitochondrial proteins." Arch. Biochem. Biophys. 474, 2008: 22-31.

B. Chakavarti and D. Chakavarti. "Electrophoretic Separation of Proteins." J. Vis. Exp. (16), e758, 2008: doi:10.3791/758 [Chakravarti misspelled as Chakavarti].

S. Gallagher and D. Chakavarti. "Immunoblot Analysis." J. Vis. Exp. (16), e759, 2008: doi:10.3791/759 [Chakravarti misspelled as Chakavarti].

S. Gallagher and D. Chakavarti. "Staining Proteins in Gels." J. Vis. Exp. (17), e760, 2008: doi:10.3791/760 [Chakravarti misspelled as Chakavarti].

B. Chakravarti and D.N. Chakravarti. "Oxidative modification of proteins: age-related changes." Gerontology. 53, 2007: 128-139.

B. Chakravarti, S. Lewis, D. N. Chakravarti and A. Raval. "Resolution of three dimensional structure of proteins and protein complexes from chemical cross-linking and mass spectrometry: A biochemical and computational overview." Current Proteomics. 3, 2006: 1-21.

N. Gupta, A. Law, R. Poddar, M. Louie, A. Ray and D.N. Chakravarti. "Toxicoproteomics: Applications in drug development." Current Proteomics. 2, 2005: 97-102.

A. Law, N. Gupta, M. Louie, R. Poddar, A. Ray and D.N. Chakravarti. "Identification and characterization of plant allergens using proteomic approaches." Current Proteomics. 2, 2005: 147-164.

D.N. Chakravarti, S. Gallagher and B. Chakravarti. "Difference gel electrophoresis: Application in quantitative proteomics research." Current Proteomics. 1, 2004: 261-271.

A. Rajan, J. Mullen, N. Bhatnagar, A. Dubey, A. Niemz, B. Chakravarti and D.N. Chakravarti. "Micro-parallel liquid chromatography for analysis of peptides and proteins." JALA. 9, 2004: 312-317.

D.N. Chakravarti. "From the decline and fall of protein chemistry to proteomics." Biotechniques. Mar Suppl 2002: 2-3.

D.N. Chakravarti, B. Chakravarti and I. Moutsatsos. "Informatic tools for proteome profiling." Biotechniques. Mar Suppl 2002: 4-10, 12-15.

D.N. Chakravarti, M.J. Fiske, L.D. Fletcher and R.J. Zagursky. "Application of genomics and proteomics for identification of bacterial gene products as potential vaccine candidates." Vaccine. 19, 2001: 601-612.

D.N. Chakravarti, M.J. Fiske, L.D. Fletcher and R. Zagursky. "Mining Genomes and Mapping Proteomes: Identification and Characterization of Protein Subunit Vaccines." Dev. Biol. 103, 2000: 81-90.

D. Chen, J.C. McMichael, K.R. VanDerMeid, A.W. Masi, E. Bortell, J.D. Caplan, D.N. Chakravarti and V.L. Barniak. "Evaluation of a 74-kDa transferrin-binding protein from Moraxella (Branhamella) catarrhalis as a vaccine candidate." Vaccine. 18, 2000: 109-118.

A.A. Shukla, R.L. Hopfer, D.N. Chakravarti, E. Bortell and S.M. Cramer. "Purification of an antigenic vaccine protein by selective displacement chromatography." Biotechnol. Prog. 14, 1998: 92-101.

J.C. McMichael, M.J. Fiske, R.A. Fredenburg, D.N. Chakravarti, K.R. VanDerMeid, V. Barniak, J. Caplan, E. Bortell, S. Baker, R. Arumugham and D. Chen. "Isolation and characterization of two proteins from Moraxella catarrhalis that bear a common epitope." Infect. Immun. 66, 1998: 4374-4381.

B. Chakravarti, D.N. Chakravarti, J. Devecis, B. Seshi and G.N. Abraham. "Effect of age on mitogen induced protein tyrosine phosphorylation in human T cell and its subsets: down-regulation of tyrosine phosphorylation of ZAP-70." Mech. Ageing Dev. 104, 1998: 41-58.

B. Chakravarti, D.N. Chakravarti and H.J. Muller-Eberhard. "Purification and characterization of a phagocytosis inducing factor: Role in cell-substratum adherence." Biochem. Biophys. Res. Commun. 243, 1998: 591-597.

B. Chakravarti, S. Lagoo-Deenadayalan, J.S. Parker, D.R. Whitfield, A. Lagoo and D.N. Chakravarti. "In vivo molecular analysis of cytokines in a murine model of ocular onchocerciasis: Up-regulation of IL-4 and IL-5 mRNAs and not IL-2 and IFN mRNAs in the cornea due to experimental interstitial keratitis." Immunol. Letts. 54, 1996: 59-64.

B. Chakravarti, B.M. Greene, S.K. Dey, J.S. Parker, T.R. Unnasch, T.A. Herring, A. Gbakima, M.L. Eberhard and D.N. Chakravarti. "Onchocerca volvulus: Expression and purification of recombinant antigen RAL2 - Studies on immunogenicity and pathogenicity." Biochem. Arch. 12, 1996: 55-69.

B. Chakravarti, J.H. Lass, E. Diaconu, C.E. Roy, T.A. Herring, D.N. Chakravarti and B.M. Greene. "Characterization of native pathogenic antigens of Onchocerca volvulus: Identification of high molecular mass protein antigens eliciting interstitial keratitis in a guinea pig model." Exp. Eye Res. 60, 1995: 347-358.

B. Chakravarti, T.A. Herring, J.H. Lass, J.S. Parker, R.P. Bucy, E. Diaconu, J. Tseng, D.R. Whitfield, B.M. Greene and D. N. Chakravarti. "Infiltration of CD4+ T cells into cornea during development of Onchocerca volvulus-induced experimental sclerosing keratitis in mice." Cell. Immunol. 159, 1994: 306-314.

B. Chakravarti, D.N. Chakravarti and H.J. Muller-Eberhard. "Role of de novo protein synthesis by mononuclear leukocytes in opsonin-independent phagocytosis." Cell. Immunol. 154, 1994: 134-142.

B. Chakravarti, J.H. Lass, D.S. Bardenstein, E. Diaconu, C.E. Roy, T.A. Herring, D.N. Chakravarti and B.M. Greene. "Immune-mediated Onchocerca volvulus sclerosing keratitis in the mouse." Exp. Eye Res. 57, 1993: 21-27.

D.N. Chakravarti, B. Chakravarti, C.A. Parra and H.J. Muller-Eberhard. "Structural homology of complement protein C6 with other channel-forming proteins of complement." Proc. Natl. Acad. Sci. (USA). 86, 1989: 2799-2803.

D.N. Chakravarti and H.J. Muller-Eberhard. "Biochemical characterization of the human complement protein C6: association with -thrombin-like enzyme and absence of serine protease activity in cytolytically active C6." J. Biol. Chem. 263, 1988: 18306-18312.

R.G. DiScipio, D.N. Chakravarti, H.J. Muller-Eberhard and G.H. Fey. "The structure of human complement component C7 and the C5b-7 complex." J. Biol. Chem. 263, 1988: 549-560.

D.N. Chakravarti, R.D. Campbell and R.R. Porter. "The chemical structure of the C4d fragment of the human complement component C4." Mol. Immunol. 24, 1987: 1187-1197.

B. Chakravarti and D.N. Chakravarti. "Phagocytosis: An overview." Pathol. Immunopathol. Res. 6, 1987: 316-342.

D.N. Chakravarti, B. Chakravarti and P. Chakrabarti. "Studies on phospholipase activities in Saccharomyces cerevisiae." Biochem. Arch. 3, 1987: 61-67.

D.N. Chakravarti and T. Kristensen. "Recent advances in the study of the molecular structure of the complement proteins." Pathol. Immunopathol. Res. 5, 1986: 317-351.

D.N. Chakravarti, R.D. Campbell and J. Gagnon. "Amino acid sequence of a polymorphic segment from fragment C4d of human complement component C4." FEBS Letters. 154, 1983: 387-390.

D.N. Chakravarti, B. Chakravarti and P. Chakrabarti. "Studies on phospholipase activities in Neurospora crassa conidia." Arch. Biochem. Biophys. 206, 1981: 392-402.

D.N. Chakravarti, B. Chakravarti and P. Chakrabarti. "Incorporation of photolabile azido fatty acid probes in Neurospora crassa and Saccharomyces cerevisiae." Experientia. 37, 1981: 353-354.

D.N. Chakravarti, B. Chakravarti and P. Chakrabarti. "Studies on Phospholipase activities in Neurospora crassa mycelia." Lipids. 15, 1980: 830-837.

D.N. Chakravarti, B. Chakravarti and P. Chakrabarti. "Studies on disruption of Saccharomyces cerevisiae cells in the modified Eaton press." J. Inst. Chem. 52, 1980: 239-240.

D.N. Chakravarti, B. Chattopadhyay, P. Chakrabarti, D. Mukherji and D. Chakravarti. "A modified Eaton press for disruption of yeast cells." J. Inst. Chem. 50, 1978: 94-97.

Chapters in Field Of Expertise

B. Mallik, B. Chakravarti and D.N. Chakravarti. "Principles of Chromatography." Current Protocols Essential Laboratory Techniques, Eds. S. Gallagher, E. Wiley. John Wiley & Sons, New Jersey. Online edition : Proof pages: 6.1.1 to 6.1.23 (accepted 26 July 2016), In Press, 2016.

B. Chakravarti, B. Mallik and D.N. Chakravarti. "Column Chromatography." Current Protocols Essential Laboratory Techniques, Eds. S. Gallagher, E. Wiley. John Wiley & Sons, New Jersey. Online edition : Proof pages: 6.2.1 to 6.2.15 (accepted 25 July 2016), In Press, 2016.

D.N Chakravarti, B. Chakravarti, and B. Mallik. "Reagent Preparation: Theoretical and Practical Discussions." Current Protocols in Essential Laboratory Techniques, Eds. S. Gallagher, E. Wiley. John Wiley & Sons, New Jersey. UNIT 3.1. Second edition. 2012: 3.1.1-3.1.14.

E.A. Wiley, D.N. Chakravarti, and K.M. Slade. "Measurement of pH." Current Protocols in Essential Laboratory Techniques, Eds. S. Gallagher, E. Wiley. John Wiley & Sons, New Jersey. UNIT 3.2. Second edition. 2012: 3.2.1-3.2.15.

B. Mallik, B. Chakravarti, and D.N. Chakravarti. "Overview of Chromatography." Current Protocols in Essential Laboratory Techniques, Eds. S. Gallagher and E. Wiley. John Wiley & Sons, New Jersey. UNIT 6.1. Second edition. 2012: 6.1.1-6.1.10.

B. Chakravarti, B. Mallik, and D.N. Chakravarti. "Column Chromatography." Current Protocols in Essential Laboratory Techniques, Eds. S. Gallagher, E. Wiley: in Current Protocols in Essential Laboratory Techniques Online (accompanying online supplement to the Second edition), John Wiley & Sons, New Jersey. UNIT 6.2. Second edition: accompanying online supplement. 2012: 6.2.1-6.2.14.

D.N. Chakravarti, B. Chakravarti and B. Mallik. "Reagent Preparation: Theoretical and Practical Discussions." Current Protocols in Essential Laboratory Techniques, Eds. S. Gallagher and E. Wiley, John Wiley & Sons, New Jersey. UNIT 3.1. 2008: 3.1.1-3.1.13.

E.A. Wiley and D.N. Chakravarti. "Measurement of pH." Current Protocols in Essential Laboratory Techniques, Eds. S. Gallagher and E. Wiley, John Wiley & Sons, New Jersey. UNIT 3.2. 2008: 3.2.1-3.2.12.

B. Mallik, B. Chakravarti and D.N. Chakravarti. "Overview of Chromatography." Current Protocols in Essential Laboratory Techniques, Eds. S. Gallagher and E. Wiley. John Wiley & Sons, New Jersey. UNIT 6.1. 2008: 6.1.1-6.1.22.

B. Chakravarti, B. Mallik and D.N. Chakravarti. "Column Chromatography." Current Protocols in Essential Laboratory Techniques, Eds. S. Gallagher and E. Wiley, John Wiley & Sons, New Jersey. UNIT 6.2. 2008: 6.2.1-6.2.14.

B. Chakravarti, S. Gallagher and D.N. Chakravarti. "Difference gel electrophoresis (DIGE) using CyDye DIGE fluor minimal dyes." Current Protocols in Molecular Biology, Eds. F.M. Ausubel, R. Brent, R.E. Kingston, D.D. Moore, J.G. Seidman, J.A. Smith, and K. Struhl. John Wiley & Sons, New York. 2005: 10.23.1-10.23.8.

B. Chakravarti and D.N. Chakravarti. "Protein phosphorylation in T-cell signaling: effect of age." Advances in Cell Aging and Gerontology, Ed. M. Mattson. Elsevier. Volume 16. 2004: 35-56.

B. Chakravarti and D.N. Chakravarti. "Onchocerciasis." Encyclopedia of Immunology, Eds. I.M. Roitt and P.J. Delves. Academic Press, San Diego, CA. Second edition. 1998: 1872-1875.

Patents

R.J. Zagursky, A.W. Masi, B.A. Green, D.N. Chakravarti, D.P. Russell and J.L. Wooters. . Streptococcus pneumoniae Open Reading Frames Encoding Polypeptide Antigens and Uses Thereof. Patent : United States Patent Number 8,241,642, and issued 14 August, 2012.

R.J. Zagursky, A.W. Masi, B.A. Green, D.N. Chakravarti, D.P. Russell and J.L. Wooters. . Streptococcus pneumoniae Open Reading Frames Encoding Polypeptide Antigens and Uses Thereof. Patent : United States Patent Number 7,384,775, and issued 10 June, 2008.

Professional Honors, Prizes, Fellowships

President’s Undergraduate Research Mentors Award For Student Research Engagement, Annual Research Day: for enhancing student research and for commitment to the college’s deepening and widening of student research pursuits, York College, The City University of New York (CUNY): 2011, 2012, 2013, 2014 and 2015.

Outstanding leadership: 2014-2015 Award: York College (CUNY) Student Government.

Students' Choice Award for Outstanding Teaching, Keck Graduate Institute of Applied Life Sciences, The Claremont Colleges: 2006 and 2008.

Declared as a Chartered Chemist by the the Institution of Chemists (India): 1999.

Wyeth Lederle Vaccines (now Pfizer Vaccines) R&D Teamwork Award: The Team Leader of the Protein Characterization Team for FDA approval of the Product License Application for a recombinant conjugate vaccine carrier protein: 1998.

Elected Fellow of the Institution of Chemists (India): 1986.

State Scholarship of the Government of West Bengal, India for higher studies and research in the U.K.: 1979 to 1883.

Commonwealth Scholarship of the Commonwealth Universities Association, U.K.: 1978 (declined).

National Science Talent Search (NSTS) Scholarship of the National Council for Educational Research and Training, Government of India: 1969 to 1979.

National Scholarship of the Government of India: 1969 and 1972.

Jagadish Chandra Bose National Science Talent Search (JBNSTS) Science Fair – First Prize: 1969.

Grants-In-Aid

Professional Staff Congress (PSC)-CUNY, Enhanced ENHC-44-76 Award #66824-00 44, Role: Principal Investigator (PI), Molecular Basis of Hepatic Dysfunction Due to Aging. start date: July 2013; ending date: December 2014: $ 11,956.68.

Other Professional Activities and Public Service

Chair Judge / Judge (Section: Engineering; Type: Oral Presentations) - The New York City Metro and Long Island Junior Science and Humanities Symposium (NYCM JSHS and NYLI JSHS) of the Academy of Applied Science, organized and hosted by the York College: 2016.

Invited to review manuscript for the journal PLoS ONE: 2016.

Chair Judge / Judge (Sections: Chemistry/Biology/Medicine and Health Sciences/Environmental Science; Types: Research Papers/Project Reports/Oral Presentations/Poster Presentations) - (i) The New York City Metro and Long Island Junior Science and Humanities Symposium (NYCM JSHS and NYLI JSHS) of the Academy of Applied Science, organized and hosted byYork College, (ii) The Annual Science and Math Exposition for local high school students organized by York College, and (iii) The New York City Science and Engineering Fair (NYCSeF, affiliated with the Intel International Science and Engineering Fair) sponsored by the New York City Department of Education and CUNY: 2015.

Chair Judge / Judge (Chemistry and Biology) - The New York City Metro Junior Mathematics, Science and Humanities Syposium and Science Expo for High School Students organized by York College, CUNY: 2010, 2011, 2012, 2013, 2014.