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Dr. Gajendra P.S. Raghava
(FNASc; FASc)

Scientist Bioinformatics Centre

Institute of Microbial Technology

(CSIR-IMTECH) Sector 39A

Chandigarh 160036

INDIA

 


Brief Biodata

Background: Raghava is a scientist working at Bioinformatics Centre, Institute of Microbial Technology (IMTECH), Chandigarh, India. He did his MSc Physics from N.A.S. College, Meerut, UP in 1986. Raghava did his MTech from Indian Institute of Technology (I.I.T.), New Delhi in 1986. In 1996 he received a doctorate in bioinformatics from Institute of Microbial Technology and Panjab University, Chandigarh.

Professional Experience: He worked as Postdoctoral fellow at Oxford university, Oxford and European Bioinformatics Institute, Cambridge UK (1996-98). Worked as Bioinformatics specialist at UAMS, USA (2002-3 & 2006) where he establish bioinformatics infastructure. Raghava woked as visiting professor at POSTECH, South Korea (2004)

Scientific Contribution: Raghava is a strong suporter of open source software and open access, all resouces develoed at his group are free for scientific use. His group developed more than 180 web servers and 20 databases in the field of computer-aided drug/vaccine design (probably highest number of services developed/maintained from a single group in the world). These services are heavily used by scientific community, nearly 100,000 hits per day. Group published more than 150 research papers in reputed journals with avargae impact factor more than 3. Most of papers are highly cited, total citations more than 5000 with h-index 41 and g-index 91 as per google scholar. In addition group contributed/maintained number of web sites that include i) CRDD, ii) OSCADD, iii) OSDDlinux, iv) CSIR Informatics Portal, v) GENESIS, vi) GPSR Packages, vii) OSDDchem, viii) Sysborg2, ix) OSDD .

Major Awards/Honours: He got following major national awards/recognition

  • Shanti Swarup Bhatnagar Award in Biological Science, 2008
  • National Bioscience Award for Carrier Development, for year 2005-2006
  • NASI-Reliance Industries Platinum Jubilee Award, 2009;
  • Thomson Reuters Research Excellence - India Research Front Awards, 2009
  • Prestigious J. C. Bose National Fellowship by DST, 2010.
  • Young national leadership award by Lakshmipat Singhania-IIM Lucknow, 2011
  • Fellow of National Academy of Sciences (F.N.A.Sc)
  • Fellow of Indian Academy of Science (F.A.Sc.) Banglore.

Curriculam Vitae of Gajendra P.S. Raghava

(1)  Name in full: Raghava, Gajendra Pal Singh

(2)  Date of Birth: 25th May 1963

(3)  Nationality: Indian

(4)  Field of Specialization: Bioinformatics

(5)  Designation: Senior Principal Scientist

(6)  Address:
     Official:Dr G P S Raghava, Head Bioinformatics Centre, Institute of Microbial Technology, Sector-39A, Chandigarh, India
     Tel: 0172-269055   Fax: 0172-2690632  E-mail: raghava@imtech.res.in

(7)  Academic career and professional attainments:

DegreeInstitutionYearRemarks
Ph.D.IMTECH/Panjab Univ. Chandigarh1996--
M.Tech.Indian Institute of Technology, Delhi19867.41 CGPA
M.Sc.Meerut University, Meerut198468.9%
B.Sc.Meerut University, Meerut198266.4%

(8)   National Awards/Recognition
  • Fellow of National Academy of Sciences, India
  • Fellow of Indian Academy of Sciences, Banglore
  • National Bioscience Award for Carrier Development 2006, by DBT
  • Shanti Swarup Bhatnagar Award 2008 in Biological Sciences
  • Thomson Reuters Research Excellence - India Research Front Awards 2009
  • NASI-Reliance Industries Platinum Jubilee Award (2009)
  • JC Bose National Fellowship, 2010-15 by Department of Science and Technology, India
  • Lakshmipat Singhania-IIM Lucknow National Leadership Awards 2011 (Young Leader in category of Science and Technology)
  • One paper listed in top 70 highly cited papers (ranked 18) published by CSIR scientists in last 70 years


(9)   Intellectual property etc.:   More than 70 Copyrights on software developed at Raghava’s group.

(10)   Major Scientific Contribution: Raghava has made major contribution field of bioinformatics particularly in the field of computer-aided epitope/peptide based vaccines. His papers have been cited more than 5000 times. One of his methods, Propred (Bioinformatics 2002; 18:196-7) has been cited nearly 400 times.
Potential Drug Targets: He has developed a number of novel tools for anotating genomes and proteomes for the possible identification of disease associated genes and proteins.
  • Annotation at nucleotide level: He has developed highly accurate methods for predicting genes and spectral repeats in genomes. These methods have been published in the top journals in the field (e.g. Genome Research; Bioinformatics).
  • Annotation at protein level: He has described strategies for predicting and classifying the important functions of proteins. These include i) GPCRpred: Prediction of G-protein coupled receptor; ii) NRpred: method for nuclear receptors; iii) PSLpred/ESLpred/HSLpred for subcellular localization of proteins; iv) VICMpred/BTXpred for bacterial toxins and virulent proteins and v) Mitpred for mitochondrial proteins.
  • Structure Prediction: He has developed a number of methods for predicting secondary, super-secondary and tertiary structure of proteins. His secondary structure prediction method was ranked within the top 5 methods in the world, according to the community wide competitions like CASP, CAFASP and EVA. Moreover his are the only servers from Asia that participates and compete successfully in most of the international competitions.
Computer-Aided Vaccine Design: Raghava has been working in the field of immunoinformatics for last 10 years in order to understand the immune system with help of computer. The major aim has been to identify potential subunit vaccine candidates.
  • Databases of Epitopes: A number of databases have been developed by his group that include; I) MHCBN: consisting 25000 MHC/TAP binders and T-cell epitopes; ii) BCIPEP have 3500 experimentally annotated B-cell epitopes and iii) HaptenDB have Haptens (antigenic but not immunogenic).
  • Prediction of helper T-cell Epitopes: In this area he has developed the following major programs: I) Propred: Prediction of promiscuous binders for 51 MHC class II alleles using virtual matrices; ii) HLADR4pred: Prediction of HLA-DR4 binder using a highly accurate method and iii) MOT: Prediction of MHC class II binders using matrix optimization technique (MOT).
  • CTL Epitopes: For this he has adopted a comprehensive approach, which includes methods for each component involved in endogenous antigen processing; I) Propred1: Prediction of promiscuous binders for 47 MHC class I alleles using virtual matrices; ii) nHLApred: Highly accurate prediction method for 67 MHC class I alleles; iii) MMBpred: Searching a potential vaccine candidate by introducing mutations at selected positions in the antigenic sequence and iv) TAPpred: prediction of T-cell epitopes (Protein Science, 2004, 13:596-607). He has developed a direct method for predicting CTL epitopes with an accuracy of around 75%. This allows discrimination between the MHC binder T-cell epitopes and the MHC binder non-epitopes (Vaccine, 2004, 22:3195-204).
  • B-Cell Epitopes: Raghava used for the first time machine learning based method for predicting B-cell epitope and increase accuracy from 58 to 67%. National Institute of Allergy and Infectious Diseases (NIH, USA) organize a workshop September 7-8, 2006 in Bethesda; and invite Raghava to present his epitope prediction tools and to take part in the discussion on the progress in the field of epitope prediction (J Mol Recognit. 2007, 75-82). Recently method has been developed first time for predicting conformational B-cell epitopes.

(11)   Summary: Raghava is a highly original and dedicated bioinformatician, who has developed methods that provide extremely useful research-based service to scientific community in the field of life sciences. He has published more than 150 papers in highly reputed journals and these are highly cited by scientific community (total citations ~ 5300). In last five years his papers got around 3700 citations. First time his group developed public domain web servers in the field of chemo/pharmaco-informatics. He got Thomson Reuters Research Excellence - India Research Front Awards 2009 because two of his papers ranked in the category of highly cited papers in the world. These papers are regularly used by the biologists for designing epitope based vaccines. Broadly, he made major contribution in following three areas- vaccine-informatics, drug-informatics and genome/proteome annotations. In addition to bioinformatics, his group discovered novel cell penetrating, anti-cancer, anti-bacterial and tumor homing peptides using bioinformatics appropach and validated these peptides using experimental techniques. His group is responsible for creating important primary databases in the field of biology/chemistry. Recently his group developed OSDDlinux (Operating System for Drug Discovery) a platform for drug discovery that integrate most of open source software used for drug discovery (http://osddlinux.osdd.net/ ).

Major Achievements

Raghava published more than 150 research papers in reputed journals, developed 15 currated databases, 70 copyrights and 150 web servers. Following are major achievements.

  1. Young Leader Award in Science & Technology, Lakshmipat Singhania - IIM Lucknow National Leadership awards 2011.

  2. Prestigious JC Bose National Fellowship 2010.

  3. Shanti Swarup Bhatnagar Awards 2008 in Biological Sciences.

  4. NASI-Reliance Industries Platinum Jubilee Awards, 2009 in Biological Sciences.

  5. Ranked 18 in highly cited papers published by CSIR scientists in last 70 years (1942-2012)

  6. Thomson Reuters Research Excellence - India Research Front Awards 2009.

  7. National Bioscience Award of year 2005-6 for career development by Department of Biotechnology (Govt. of India) New Delhi.

  8. Fellow of the Indian Academy of Sciences, Banglore for his excellent contribution in the field of Bioinformatics

  9. Fellow of National Academy of Sciences by "The National Academy of Sciences, India" for his excellent contribution in the field of Bioinformatics.

  10. Ranked 30th among worldwide bioinformatics heads and 1st in indian bioinformatics heads.

  11. Listed as a hot 100 authors by BioMed Central for his contributions.

  12. Raghava has H-index 41 with more than 5300 citations in Jan 2014 as per google scholar .

  13. Associate Editor of BMC Research Notes

  14. Associate Editor of BMC Bioinformatics

  15. Academic Editor of Plos One

  16. Member of editorial board of number of journals.

  17. Research fellowship (1984-86) was awarded by IIT Delhi, after qualifying national test GATE.

  18. BBSRC fellowship, funded by UK for postdoctoral studies at Oxford University, UK from 1996 to 1998.

  19. Invited by University of Arkansas for Medical Sciences (UAMS), Little Rock, USA to establish Bioinformatics (http://bioinformatics.uams.edu/)

  20. Visiting Professorship for six months (March 2004 to August 2004) to initiate Bioinformatics activities at Pohang University of Science and Technolgy (POSTECH).

  21. Methods developed at group successfully participate and ranked in top methods in the world in international competitions like CASP, CAFASP and EVA.

  22. Raghava was a key figure in the development  of BioSuite which is a bioinformatics software developed by TCS with experts in bioinformatics under NMITLI programmee. This package has been launched by Honable President of India Dr APJ Abdul Kalam, on 14th July 2004.

  23. In collaboration with private company Biomantra a software package VaxiPred: Computer aided vaccine design, was developed. This package has been launched by Director General, CSIR Dr R A Mashlekar on 15th of December 2004.

  • Receiving Young Leader Award from President of India, Pranab Mukherjee


  • Receiving S. S. Bhatnagar Award from Prime Minister Dr Manmohan Singh


  • Receiving National Bioscience Award from Science and Technology minister Shri Kapil Sibal


  • Thomson reuters Indian research awards 2009


  • VaxiPred software launch for public by DG, CSIR