Ramachandran’s group is interested in developing computational methods for predicting virulence factors where the challenge is to develop good prediction algorithms with small datasets. They are also interested in developing large datasets in the highly portable platform R for systems biology investigations. In these times of thousands of genomes, they are interested in comparative genomics to unravel the mysteries of varying tropism in pathogens, host-pathogen dynamics and disease modelling in complex diseases using, predominantly, open source platforms like R.
His group also focuses on experimental investigations in the signalling of nitrogen metabolism and potential adhesins and their host receptors in M. tuberculosis. He is also actively involved in the Open Source Drug Discovery Project.
Bhanwar Lal Puniya, Deepika Kulshreshtha, Srikant Prasad Verma, Sanjiv Kumar and Srinivasan Ramachandran Integrated gene co-expression network analysis in the growth phase of Mycobacterium tuberculosis reveals new potential drug targets Integrated gene co-expression network analysis in the growth phase of Mycobacterium tuberculosis reveals new potential drug targets. Mol. BioSyst., 2013, Accepted Manuscript DOI: 10.1039/C3MB70278B
Sanjiv Kumar, Bhanwar Lal Puniya, Shahila Parween, Pradip Nahar, Srinivasan Ramachandran. Identification of novel adhesins of M. tuberculosis H37Rv using integrated approach of multiple computational algorithms and experimental analysis. PLOS ONE (Accepted, in production)
Sharma S, Jain S, Nair GN, Ramachandran S. Capsicum annuum enhances l-lactate production by Lactobacillus acidophilus:Implication in curd formation. J Dairy Sci. 2013 May 6. pii: S0022-0302(13)00320-2. doi: 10.3168/jds.2012-6243.
Somkuti J, Jain S, Ramachandran S, Smeller L (2013) Folding–unfolding transitions of Rv3221c on the pressure–temperature plane. High Pressure Research, An International Journal, DOI: 10.1080/08957959.2013.780055
Shachi Gahoi, Rahul Shubhra Mandal, Nikita Ivanisenko, Priyanka Shrivastava, Sriyans Jain, Ashish Kumar Singh, Muthukurrusi Varieth , Raghunandanan, Swarna Kanchan, Bhupesh Taneja, Chhabinath Mandal, Vladimir A. Ivanisenko, Anil Kumar, Rita Kumar, [Open Source Drug Discovery Consortium], Srinivasan Ramachandran* (2013) Computational Screening for New Inhibitors of M. tuberculosis Mycolyltransferases Antigen 85 Group of Proteins as Potential Drug Targets. J Biomol Struct Dyn. 31:.30-43
Pintus SS, Ivanisenko NV, Demenkov PS, Ivanisenko TV, Ramachandran S, Kolchanov NA, Ivanisenko VA. (2013) The substitutions G245C and G245D in the Zn2+-binding pocket of the p53 protein result in differences of conformational flexibility of the DNA-binding domain. J Biomol Struct Dyn. 31:.78-86.
Sachdeva Gaurav, Kumar Kaushal, Jain Preti, Brahmachari, Samir Kumar, Ramachandran, Srinivasan, Notice of Allowance, Korean Patent Application No. 10-2006-7018206, No. of claims 15, Korean Intellectual Property Office. 2012
Ramachandran S, Chaudhuri R, Verma R, Shah AR, Sen R, Paul C. 2012 Chapter 105: Systems Immunology: Data modeling and scripting in R. W. Dubitsky, O. Wolkenhauer, K. Cho, & H. Yokota (eds.) Encyclopedia of Systems Biology, Springer Science + Business Media, LLC.
Chaudhuri R, Verma S, Shah AR, Paul C, Chakraborty S, Puniya BL, Mandal RS, Ramachandran S. (2011) Biological Data Modelling and Scripting in R. in Bioinformatics - Computational Biology and Modeling (ISBN 979-953-307-280-6), Ed: Dr. Ning-Sun Yang, Institute of BioAgricultural Sciences, National Taiwan University, Taipei, Taiwan, InTech Open Access Publishers