Karthik Raman
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Research InterestsPublicationsHonours and Awards
- Metabolic network analysis
- Computational modelling and simulation of biological systems/networks
- Metabolic engineering (strain improvement through in silico modelling)
- Systems and synthetic biology
- High-performance GPGPU computing for systems biology
- Complex systems analysis
- Design principles of biological networks
- (2018) Computational prediction of synthetic lethals in Genome-Scale metabolic models using Fast-SL , Springer New York DOI
- (2017) A general mechanism for the propagation of mutational effects in proteins. Biochemistry 56(1):294-305 PMID DOI
- (2017) Elucidating the biosynthetic pathways of volatile organic compounds in mycobacterium tuberculosis through a computational approach Mol. Biosyst. 13(4):750-755 PMIDDOI
- (2017) Predicting novel metabolic pathways through subgraph mining.Bioinformatics (Oxford, England) 33(24):3955-3963 PMID
- (2016) In silico approaches to metabolic engineering DOI
- (2015) Critical assessment of genome-scale metabolic networks: the need for a unified standard Briefings In Bioinformatics 16(6):1057-1068 , Oxford University Press PMID DOI
- (2015) Fast-SL: an efficient algorithm to identify synthetic lethal sets in metabolic networks Bioinformatics 31(20):3299-3305 , Oxford University Press PMID DOI
- (2014) Fast-SL: an efficient algorithm to identify synthetic lethal reaction sets in metabolic networks
- (2014) Revisiting robustness and evolvability: evolution in weighted genotype spaces Plos One 9(11):e112792+ , Public Library of Science DOI
- (2014) The organisational structure of protein networks: revisiting the centrality–lethality hypothesis Systems And Synthetic Biology 8(1):73-81 , Springer Netherlands DOI
- (2014) A systems theoretic approach to systems and synthetic biology i: models and system characterizations , Springer DOI
- (2014) A systems theoretic approach to systems and synthetic biology II: analysis and design of cellular systems , Springer DOI
- (2013) Identification of putative and potential cross-reactive chickpea (cicer arietinum) allergens through an in silico approach Computational Biology And Chemistry 47:149-155 DOI
- (2011) Evolvability and robustness in a complex signalling circuit Molecular Biosystems7(4):1081-1092 , The Royal Society of Chemistry DOI
- (2011) Systems biology of tuberculosis: insights for drug discovery , Springer New York , New York, NY DOI
- (2010) A systems perspective of host–pathogen interactions: predicting disease outcome in tuberculosis Molecular Biosystems 6(3):516-530 , The Royal Society of Chemistry PMID DOI
- (2010) Systems biology Resonance 15(2):131-153 DOI
- (2010) Construction and analysis of protein-protein interaction networks Automated Experimentation2(1):2+ PMID DOI
- (2010) The evolvability of programmable hardware Journal Of The Royal Society Interface 8(55):269-281 PMID DOI
- (2009) Flux balance analysis of biological systems: applications and challenges. Briefings In Bioinformatics 10(4):435-449 PMID DOI
- (2009) Strategies for efficient disruption of metabolism in mycobacterium tuberculosis from network analysis Mol. Biosyst. 5(12):1740-1751 , The Royal Society of Chemistry DOI
- (2008) Mycobacterium tuberculosis interactome analysis unravels potential pathways to drug resistance Bmc Microbiology 8:234 DOI
- (2008) targetTB: a target identification pipeline for mycobacterium tuberculosis through an interactome, reactome and genome-scale structural analysis. Bmc Systems Biology2(1):109+ PMID DOI
- (2008) PathwayAnalyser: a systems biology tool for flux analysis of metabolic pathways Nature Precedings , Nature Publishing Group DOI
- (2007) Metabolome based reaction graphs of m. tuberculosis and m. leprae: a comparative network analysis Plos One 2(9):e881+ , Public Library of Science , Molecular Biophysics Unit, Indian Institute of Science, Bangalore, India. PMID DOI
- (2007) Model driven drug discovery: principles and practices , Artech House Publishers
- (2007) Hallmarks of mycolic acid biosynthesis: a comparative genomics study Proteins: Structure, Function, And Bioinformatics 69(2):358-368 , Bioinformatics Centre and Supercomputer Education and Research Centre, Indian Institute of Science, Bangalore 560012, India DOI
- (2006) Principles and practices of pathway modelling Current Bioinformatics 1(2):147-160 , Bentham Science Publishers DOI
- (2005) Flux balance analysis of mycolic acid pathway: targets for Anti-Tubercular drugs Plos Computational Biology 1(5):e46+ , Public Library of Science PMID DOI
- Young Faculty Recognition Award (IIT Madras), for excellence in teaching and research (2015)
- Sir Vithal N. Chandavarkar Memorial Medal for the best Ph.D. thesis in the Supercomputer Education and Research Centre, Indian Institute of Science (2011)