PhD Title: Modeling polyketide synthases and related macromolecular complexes
Supervisors: Dr Peter J. Winn and Professor Christopher M. Thomas
Rohit Farmer is working with Dr. Peter J. Winn and Prof. Christopher M. Thomas to understand and re-engineer Polyketide antibiotic biosynthetic pathways using a mixture of computational methods and genetic manipulation techniques.
Rohit Farmer studied biotechnology at Allahabad Agricultural Institute in India and worked on modeling START domains in plants during his final year project. While working on this modeling project he gained interest in computational biology, which lead him to do masters in Bioinformatics. During his masters project he worked on Epigenetics. Rohit joined the University of Birmingham in 2011 to do a PhD with Dr. Peter Winn. His work focuses on modeling large macromolecular complexes in order to understand and re-engineer biosynthetic pathways involved in antibiotic production.
Rohit’s research interest includes molecular modeling, bioinformatics, epigenetics and antibiotic synthesis.
Rohit Farmer has served Bharat Parivar (a student society at the guild of students) as Secretary and helped organize BEAR PG conference 2012. He is a member of the International Society for Computational Biology (ISCB), The Biochemical Society and The Protein Society. He has also helped to establish the regional student group UK for ISCB Student Council. In his spare time, Rohit enjoys sporting activities and traveling.
Singh S, Sablok G, Farmer R, Singh AK, Gautam B, Kumar S. Molecular dynamic simulation and inhibitor prediction of cysteine synthase structured model as a potential drug target for trichomoniasis. Biomed Res Int. 2013;2013:390920. [PMID: 24073401]
Haines AS, Dong X, Song Z, Farmer R, Williams C, Hothersall J, Płoskoń E,Wattana-Amorn P, Stephens ER, Yamada E, Gurney R, Takebayashi Y, Masschelein J,Cox RJ, Lavigne R, Willis CL, Simpson TJ, Crosby J, Winn PJ, Thomas CM, Crump MP. A conserved motif flags acyl carrier proteins for β-branching in polyketide synthesis. Nat Chem Biol. 2013 Nov;9(11):685-92. [PMID: 24056399.]
Paital B, Kumar S, Farmer R, Chainy GB. In silico prediction of 3D structure of Mn superoxide dismutase of Scylla serrata and its binding properties with inhibitors. Interdiscip Sci. 2013 Mar;5(1):69-76. [PMID: 23605642]
Kumar S, Farmer R, Turnbull AP, Tripathy NK, Manjasetty BA. Structural and functional conservation profiles of novel cathepsin L-like proteins identified in the Drosophila melanogaster genome. J Biomol Struct Dyn. 2013 Dec;31(12):1481-9. [PMID: 23256878]
Gautam B, Singh G, Wadhwa G, Farmer R, Singh S, Singh AK, Jain PA, Yadav PK. Metabolic pathway analysis and molecular docking analysis for identification of putative drug targets in Toxoplasma gondii: novel approach. Bioinformation. 2012;8(3):134-41. [PMID: 22368385]
Paital B, Kumar S, Farmer R, Tripathy NK, Chainy GB. In silico prediction and characterization of 3D structure and binding properties of catalase from the commercially important crab, Scylla serrata. Interdiscip Sci. 2011 Jun;3(2):110-20. [PMID: 21541840]
Singh S, Singh G, Singh AK, Gautam G, Farmer R, Lodhi SS, Wadhwa G. Prediction and analysis of paralogous proteins in Trichomonas vaginalis genome. Bioinformation. 2011 Mar 2;6(1):31-4. [PMID: 21464842]
Fazil MH, Kumar S, Farmer R, Pandey HP, Singh DV. Binding efficiencies of carbohydrate ligands with different genotypes of cholera toxin B: molecular modeling, dynamics and docking simulation studies. J Mol Model. 2012 Jan;18(1):1-10. [PMID: 21409571]
Farmer R, Gautam B, Singh S, Yadav PK, Jain PA. Virtual screening of AmpC/β-lactamase as target for antimicrobial resistance in Pseudomonas aeruginosa. Bioinformation. 2010 Jan 17;4(7):290-4. [PMID: 20978601]