Research Contributions
Prof. Samir K. Brahmachari has made profound contributions to the fields of genomics, molecular biophysics, bioinformatics, and open-source drug discovery. His work spans over four decades, and his research has influenced global scientific and healthcare initiatives.
Publications
Prof. Brahmachari has authored over 190 peer-reviewed publications in leading scientific journals.
The following are some of the highlights of his prolific research
The following are some of the highlights of his prolific research
A. Polypeptides and Proteins
B. DNA Structural Polymorphism and Chromatin Organisation
C. Repetitive DNA: Structure, Function, Genome Organisation and Variation
D. miRNA Mediated Regulation
E. Pharmacogenomics and Translational Medicine
F. Affordable Drug Discovery
G. Innovation and Policy
H. System Biology and Preventive Predictive Health
Publications where Prof. Brahmachari is a lead “Indian Genome Variation Consortium” Author
Publications where Prof. Brahmachari is a lead “Open Source Drug Discovery Consortium” Author
Publications by Prof. Brahmachari’s Students and Associates under his Mentorship
Patents
| S.No. | Title | Inventors | Country (Publication Date) | Filing Date | Grant Date | Patent No. |
|---|---|---|---|---|---|---|
| 1. | Computational method for identifying adhesin and adhesin- like proteins of therapeutic potential | Sachdeva Gaurav, Kumar Kaushal, Preti Jain, Brahmachari SK, Ramachandran S | India | 29-May-06 | ||
| US | 20-Jul-04 | 9-Sep-08 | 7424370 | |||
| WO | 07-Feb-05 | |||||
| JP | 7-Aug-06 | |||||
| EP | 6-Sep-06 | |||||
| KR | 6-Sep-06 | |||||
| CN | 6-Oct-10 | |||||
| SG | 7-Aug-06 | 2-Nov-10 | 124684 | |||
| 2. | A computer-based method for identifying conserved invariant peptide motifs | Brahmachari SK, Dash D | BR | 30-Sep-02 | (14-Jan-03) | |
| CA | 07-Dec-01 | (11-Oct-01) | ||||
| CN | 26-Nov-02 | 20-Jul-05 | 218305 | |||
| CZ (15-May-02) | 04-Jan-02 | |||||
| EP (02-Jan-03) | 31-Aug-00 | 12-Jan-05 | 1268512 | |||
| EP | 26-Feb-02 | |||||
| HU (28-May-03) | 30-Sep-02 | |||||
| India | 16-Sep-02 | |||||
| IS | 01-Jan-02 | 7-Apr-08 | 147435 | |||
| JP (30-Sep-03) | 24-Jan-02 | |||||
| KO | 14-Jan-02 | 23-Nov-07 | 780874 | |||
| RU | 12-Jan-02 | 27-Mar-05 | 2249044 | |||
| US | 30-Mar-00 | |||||
| WO (17-Feb-05) | 31-Aug-00 | |||||
| 3. | A method for predicting an individual's bronchodilatory response to a beta agonist | Kukreti R, Pallav Bhatnagar, Rao CB, Ghosh B, BrahmachariSK, Randeep Guleria, Chinmoyee Das | India | 10-Dec-04 | 9-Jun-11 | 248009 |
| US | 28-Apr-04 | |||||
| WO | 29-Apr-04 | |||||
| KR | 28-Nov-06 | 23-Oct-09 | 10-0924371 | |||
| AU | 2-Nov-06 | 7-Oct-10 | 2004319074 | |||
| CA | 30-Oct-06 | |||||
| JP | 30-Oct-06 | |||||
| EP | 9-Nov-06 | |||||
| NZ | 9-Nov-06 | |||||
| CN | 30-Nov-06 | |||||
| 4. | Targets for human micrornas in avian influenza virus (H5N1) genome | Samir Kumar Brahmachari, Manoj Hariharan, Vinod Scaria, Beena Pillai | India | 31-Mar-06 | ||
| US | 29-Mar-07 | |||||
| 5. | Computational method for the identification of candidate proteins useful as anti-infectives | Brahmachari SK, Ramachandran S, Nandi T, Rao CB | US | 30-Mar-01 | 22-Apr-08 | 7363166 |
| 6. | Novel allelic variant of cyp2c19 associated with drug metabolism | Brahmachari SK, Ravina Fernandes, Sharma Nitin, Suparna Martis, Kukreti R, Mukerji M, | India | 15-Jul-04 | 22-Feb-11 | 246257 |
| US | 22-Sep -05 | |||||
| WO | 15-Jul-05 | |||||
| AU | 5-Feb-07 | 26-Aug-10 | 2005264056 | |||
| 7. | Method of detection of allelic variants of SCA2 gene | Brahmachari SK, Choudhry Shweta, Mukerji Mitali, Jain Satish | US (23-Sep-03) | 08-Nov-00 | 23-Sep-03 | 6623927 |
| 8. | Targets for human micrornas in HIV-1 genome and a method thereof | Brahmachari SK, Pillai B, Manoj Hariharan | India | 10-Oct-05 | ||
| US | 10-Oct-06 | 2-Apr-11 | 7825230 | |||
| WO | 9-Oct-06 | |||||
| CA | 10-Apr-08 | |||||
| AU | 4-Nov-08 | |||||
| CH | 30-Apr-08 | |||||
| EP | 30-Apr-08 | |||||
| 9. | Novel primers for screening schizophrenia and a method thereof | Brahmachari SK, Ranjana, Chitra, Salim Q, Jain S | AU | 27-Mar-03 | 6-Sep-07 | 2002247937 |
| BR | 31-Mar-03 | |||||
| CA | 27-Mar-03 | |||||
| EP | 31-Mar-03 | 29-Apr-09 | EP1485499 | |||
| IL | 27-Mar-03 | 1-Sep-10 | 155123 | |||
| India | 06-Aug-04 | 10-Feb-09 | 228704 | |||
| JP | 28-Mar-03 | 21-Nov-08 | 4220906 | |||
| US | 21-Mar-02 | 20-Jul-04 | 6764824 | |||
| WO | 25-Mar-02 | |||||
| CN | 25-Mar-02 | 28-May-08 | ZL02802565.2 | |||
| RU | 23-May-08 | 20-Nov-08 | 2338788 | |||
| KR | 25-Sep-04 | 19-Aug-09 | 913985 | |||
| 10. | A computer based method for predicting protein coding dna sequences useful as drug targets | Brahmachari SK, Dash D, Ramakant Sharma, Jitendra Kumar Maheshwari | India | 30-Jun-05 | ||
| US (23-Jun-05) | 05-Dec-03 | |||||
| IL | 5-Jun-06 | |||||
| CA | 20-Sep-06 | |||||
| CN | 24-Jul-06 | 16-Dec-09 | ZL200480040837.3 | |||
| JP | 6-May-06 | 16-Apr-10 | 4495166 | |||
| EP | 6-May-06 | 29-Sep-10 | 1690207 | |||
| WO | 9-Jan-04 | |||||
| 11. | A computer based method for identifying peptides useful as drug targets | Brahmachari SK, Dash D | US | 30-Mar-00 | 2-Feb-10 | 7657378 |
| 12. | A method to assess site-specific yield potential of crops | Brahmachari SK, Kumar Niti, Khan JA, Hariharan M, Bargaje R, Gunjan | IN | 24-Aug-07 |
Software and Database Copyrights Filed
- Software programme titled “PEPLIB- programme for finding common peptides in different genomes”. Authors: Debasis Dash, S.K. Brahmachari. (CR-29/2000) filed on 05/02/2001. (Registration No. L-19609/2001, Registration Date 27-Sep-01)
- Software programme titled “PL-HostFA”. Authors: Debasis Dash, Mamta Khandelwal, S.K. Brahmachari. (CR-27/2001) filed on 21/12/2001. (Registration No. SW-886/2002, Registration Date 30-Sep-02)
- Software programme titled “PAT FIND”. Authors: Debasis Dash, S.K. Brahmachari. (CR-28/2001) filed on 21/12/2001. (Registration No. SW-887/2002, Registration Date 21-Dec-01)
- Software programme titled “PEPLIMP- programme to stitch common peptides found in different genomes”. Authors: Debasis Dash, S.K. Brahmachari. (CR-30/2000) filed on 05/02/2001. (Registration No. L-19608/2001, Registration Date 27-Sep-01)
- Software programme titled “PEPEXTRACT- programme to find proteins that contain specific pattern of amino-acids”. Authors: Debasis Dash, S.K. Brahmachari. (CR-31/2000) filed on 05/02/2001. (Registration No. L-19607/2001, Registration Date 27-Sep-01)
- Software programme titled “PEPSTICH”. Authors: Debasis Dash, S.K. Brahmachari. (CR-32/2000) filed on 05/02/2001. (Registration No. L-19606/2001, Registration Date 27-Sep-01)
- Software programme titled “Process.cgi- programme for finding common peptides in different genomes”. Authors: Debasis Dash, S.K. Brahmachari. (CR-29/2001) filed on 21/12/2001. (Registration No. SW-888/2002, Registration Date 30-Sep-02)
- “Interconnections of pathways containing candidate genes for schizophrenia”. Authors: C.B. Rao, S.K. Brahmachari. (CR-42/2002) filed on 14/11/2002.
- “EXPOLDB database”. Authors: S. Ramachandran, Vineet Grover, S.K. Brahmachari. (CR-43/2002) filed on 14/11/2002. (Registration No. SW-1355/2003, Registration Date 28-Aug-03)
- “Comprehensive peptide signatures database” (COPS DB). Authors: Debasis Dash, Tulika Prakash, S.K. Brahmachari. (CR-09/2003) filed on 27/02/2003.
- “Genedecipher”. Authors: S.K. Brahmachari, Debasis Dash, Ramakant Sharma, Jitendra Maheshwari. (CR-28/2003) filed on 31-10-2003. (Registration No. SW-1799/2005, Registration Date 27-Apr-05)
- “STAMPSZ – Signal Transduction and metabolic pathway specific for schizophrenia”. Authors: Sambit Gaan, Simone Gupta, C.B. Rao, S.K. Brahmachari. (CR-23/2004) filed on 04/10/2004.
- “The Immortal Coils” (50 years of Collagen Triple Helix: A Celebration of Science). Authors: S.K. Brahmachari. (CR-28/2004) filed on 06/08/2004. (Registration No. CF-381/2005, Registration Date 27-May-05)
- “High Throughput – sequence, screening and SNP (HT-SSS)”. Joint copyright application (CSIR and Silicogene Informatics). Authors: Mitali Mukerji, Debasis Dash, Dipayan Dasgupta, Siddharth Bisht, S.K. Brahmachari. (CR-31/2005) filed on 19/12/2005.
- “Program to stitch common peptides found in different genomes (RESULT.CGI)”. Authors: Debasis Dash, S.K. Brahmachari. (CR-30/2001) filed on 21/12/2001. (Registration No. SW-889/2002, Registration Date 30-Sep-02)
- “Questionnaire for Prakriti Analysis”. Authors: S.K. Brahmachari, Mitali Mukerji, Bhavana Prasher, Chandrika B-Rao, Sapna Negi, Shilpi Aggarwal. (CR-39/2004) filed on 17/12/2004. (Registration No. SW-2284/2005, Registration Date 13-May-05)
- “Family pedigrees for the genomic studies of diabetes in Indian population”. Authors: S.K. Brahmachari, Somesh Sharma. (CR-18/2005) filed on 19/12/2005. (Registration No. L-25921/2006, Registration Date 17-Feb-06)
- “Family pedigrees for the genomic studies of asthma in Indian population”. Authors: S.K. Brahmachari, Somesh Sharma. (CR-19/2005) filed on 19/12/2005. (Registration No. L-25922/2006, Registration Date 17-Feb-06)
- “Family pedigrees for the genomic studies of schizophrenia in Indian population”. Authors: S.K. Brahmachari, Somesh Sharma, Ritushree Kukreti, S. Tripathi, Sanjeev Jain, S. Khubendran. (CR-17/2005) filed on 19/12/2005.
- “MIRACLE: microRNA target prediction software incorporating RNA secondary structure”. Authors: Shiva Kumar, Vinod Scaria, Manoj Hariharan, Souvik Maiti, S.K. Brahmachari. (CR-9/2006) filed on 18/05/2006.
- “MIDAS, A tool for de novo microRNA design”. Authors: S.K. Brahmachari, Souvik Maiti, Vinod Scaria, Manoj Hariharan, Shiva Kumar. (CR-23/2006) filed on 30/10/2006.
- “VIRGO: Software for prediction of viral microRNA precursors”. Authors: S.K. Brahmachari, Vinod Scaria, Shiva Kumar, Faraz Alam Ansari. (CR-24/2006) filed on 30/10/2006.
- “SVM based software for prediction of eukaryotic microRNA precursors (EumiR)”. Authors: S.K. Brahmachari, Vinod Scaria, Shiva Kumar, Faraz Alam Ansari. (CR-25/2006) filed on 27/11/2006.
S&T Leadership
Prof. Brahmachari has played a pivotal role in shaping scientific research policy and fostering national and international collaborations
Founding Director, CSIR-Institute of Genomics and Integrative Biology (1997–2007):
Prof. Brahmachari established the CSIR-IGIB as one of India’s leading institutes in genomics, where cutting-edge research on human genetics and disease mechanisms continues to shape the Indian scientific landscape.
Advisory Roles and Global Leadership:
Prof. Brahmachari has served as a member of several prestigious advisory boards and scientific committees. Notably, he has been on the International Advisory Panel of the United Nations Development Programme (UNDP), the Advisory Board of the Global Research Alliance, and the Council of the Human Genome Organization (HUGO).
Director General, CSIR (2007–2013)
As the Director General of CSIR, Prof. Brahmachari oversaw several transformative projects, including national initiatives in genomics and biotechnology. Under his leadership, CSIR achieved significant advancements in molecular biology and open-source drug discovery.
Open Source Drug Discovery (OSDD)
Prof. Brahmachari is the founder of OSDD, which is an innovative approach to drug discovery that emphasizes collaboration, transparency, and accessibility. This initiative has brought together researchers from around the world to address neglected diseases like tuberculosis and malaria.
Establishing ACSIR
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