| Award | Organization |
|---|---|
| Junior Research Fellowship | Bharathidasan University, India (1989). |
| Senior Research Fellowship | Senior Research Fellowship Council of Scientific and Industrial Research (CSIR), India (1992). |
| AMBO Young Scientist Travel Award | Asian Molecular Biology Organization, Japan (1994). |
| Research Associateship | Department of Science and Technology (DST), India (1995). |
| Visiting Fellowship | Saha Institute of Nuclear Physics, India (1995). |
| ICTP Young Scientist Travel Award | International Center for Theoretical Physics, Trieste, Italy (1995). |
| Post Doctoral Research Fellowship | International Center for Genetic Engineering and Biotechnology (ICGEB), Trieste, Italy (1995). |
| Post Doctoral Research Fellowship | The Institute of Physical and Chemical Research (RIKEN), Japan (1997). |
| STA Fellowship | Science and Technology Agency, Japan (1998). |
| Young Scientist Travel Award | The Biophysical Society of Japan, (1999). |
| RIKEN Researcher Fellowship | The Institute of Physical and Chemical Research, Japan (2000). |
| Young Scientist Travel Award | ISMB 2000, USA (2000). |
| ICTP Young Scientist Travel Award | International Center for Theoretical Physics, Trieste, Italy (2001). |
| Oxford University Press Bioinformatics Prize | Best Poster Award at Genome Informatics Workshop 2002. |
| JSPS-ESF Invited Participant for Bioinformatics Discussion Meeting | Japan Society for the Promotion of Sciences and European Science Foundation (2003, 2006). |
| Daiwa Foundation Award | Daiwa-Anglo Japanese Foundation, UK (2004). |
| Okawa Science Foundation Research Grant Award | Okawa Science Foundation, Japan (2005). |
| JSPS Travel Award | Japan Society for the Promotion of Sciences (2007). |
| Outstanding Intellectuals of the 21st Century | International Who's Who in the world (2010) |
| Best paper award | International Conference on Intelligent Computing (2010) |
| ICTP Associateship award | Associate and Federation, Italy (2012). |
| ICGEB short term visiting fellowship | International Centre For Genetic Engineering And Biotechnology (2012). |
| Indo-Australia Senior Scientist S&T Visiting Fellowship | Indian National Science Academy (2012). |
| Guest Associate Professorship, Japan | Chuo University (2013) |
| International Fellowship for Senior Biomedical Scientists | Indian Council of Medical Research, India (2013). |
| Incentive award for best publications | Department of Biotechnology, India (2014). |
| Awarded for identifying a hit compound for cYes kinase inhibitor | Tokyo Institute of Technology, Japan (2014). |
| Visiting Associate Professorship | Tokyo Institute of Technology, Japan (2014). |
| Foreign visiting Associate Professorship, | Chuo University, Japan (2015) |
| Outstanding performance award (The DDN prize) | 2nd IPAB contest for Computational Drug Discovery, Tokyo Institute of Technology, Japan for predicting a new inhibitor for the target enzyme (2015) |
| Institute Research and Development Award at mid-career level | IIT Madras, India (2016). |
| Best Bioinformatician Award (Ranked 2) in Bioinformatics Review | In Bioinformatics Review (2017). |
| Albert Nelson Marquis Lifetime Achievement Award | Albert Nelson Marquis Lifetime Achievement Award (2018). |
| Tamilnadu Scientist Award in Biological Sciences for the year 2017 | Tamilnadu Scientist Award in Biological Sciences for the year 2017 (2018) |
| Ranked topmost 0.5% of researchers in Bioinformatics, Biophysics and overall | By standardised citation metrics published in PLoS Biology (2017,2018) |
| Ranked as No. 1 Scientist in Bioinformatics in India | Based on a Stanford University survey |
| Ranked as 61 among 18,000 all over the world in Bioinformatics | Ranked as 61 among 18,000 all over the world in Bioinformatics (2020) |
| Ranked topmost 0.5% of researchers in Bioinformatics, Biophysics and overall | By standardised citation metrics (2021) |
| ASC-Masila Vijaya Award for Excellence in Scientific Research and Publications | Chennai Academy of Sciences (2022) |