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Dr.V.Umashankar completed his PhD. from School of Genomics, Dept. of Zoology, Loyola College, University of Madras, Chennai in 2008; M.Phil Genetics from Dr.ALMPGIBMS, University of Madras in 2000; Qualified SLET. He did his PG Diploma in Bioinformatics from University of Mysore in 2003; S-Star Certification in Bioinformatics awarded by National University of Singapore in 2004.He has 17 years of experience in Research &mentoring in Bioinformatics. He is currently HOD & Principal Scientist, Centre for Bioinformatics, Vision Research Foundation, a unit of Sankara Nethralaya since Jan 2010. He was formerly, HOD, Department of Bioinformatics, School of Biosciences, SRM University. He also held positions as Academic Head, Research consultant, Senior Research Analyst in leading Research and Academic Organizations. He has been appointed as member “Board of Studies in Bioinformatics” by University of Madras & SASTRA University.He is also an examiner and advisor for PhD, B.Tech, M.Tech, M.Sc courses offered by leading universities in India. He has mentored 14 M.Phil graduates. Dr.Umashankar is a recipient of RGYI (Rapid Grant for Young Investigators) grant awarded by DBT (for Anti-toxoplasmosis Drug Development) and Early Career Research Award from SERB-DST (for Drug target mining and Systems Biology studies towards targeting ocular Chlamydial Infections) and also serving as Investigator in many of the funded grants from ICMR, CSIR, DST and DBT

Areas of Interest : Ocular Therapeutics and drug development by implementation of Bioinformatics techniques. Major focus in design and development of Peptide/Chemical Inhibitors targeting Ocular angiogenesis, Ocular infections and pH Homeostasis in Cancer cells.He has extensively worked on genome assembly and annotation of microbial Pathogens like Mycobacterium tuberculosis and Pseudomonas aeruginosa towards identification of drug targets.He is also engaged in deciphering transcriptomic changes in the context of Hyperglycemia in Retinal cells by applying NGS technologies.

He has published 72 Research papers in peer reviewed International and national journals and has also written three chapters on Molecular modeling, Cheminformatics and Computational Epigenomics for a book published by John Wiley & Sons (click the underlined links for publications in indexed in Pubmed and Google Scholar ). He is also a reviewer for many of the leading peer reviewed journals like PLOS One,Bioinformatics (OUP), Human Molecular Genetics, GENE and RSC Advances etc. He has delivered many lectures at various National and International conferences as an invited speaker. He recently presented his research work on Drug target mining in Chlamydia trachomatisat ARVO-2018 international conference held at Honolulu, Hawaii, USA. He is the author of Bioinformatics tools & Databases namely, POAP,ACUA, OpenDiscovery, Nitrosoft, Readmoland Indian Plant Anticancer Compound Database (InpacDB), respectively. Many of these tools are used by scientists worldwide and are cited in peer-reviewed journals. Currently involved in the development of NGS and Drug discovery computational pipelines. 'Theoretical model of human ghrelin precursor' (PDB ID: 1p7x) predicted by him is printed and cited on the coverpage of 77th volume of the prestigious book ‘Vitamins and Hormones’ first published in 1943, and is the longest-running serial book published by Elsevier Academic/Press.

Membership of professional bodies in Indian Bioinformatics Society, Society of Toxicology and Bioclues. He has organized many National Level Conferences and Workshops onBioinformatics funded by Government bodies. He was awarded with best faculty award in view of his teaching and research by Vels Academy.

Ongoing projects

Principal Investigator: Dr V Umashankar

Project	Funding Agency
Insilco drug target identification in Chlamydia species through systems biology and molecular modelling approaches pertaining to the development of potential drug molecules	DST-SERB
Genome wide Transcriptome profiling of Human Retinal Cells under diabetic mielieu under the context of Egr-1 expression towards deciphering alternative pathways mediating Retinal Angiogenesis	ICMR
In silico Design and Development of novel peptide inhibitors targeting CD147 through virtual screening and biopanning of peptide libraries and in vitro validation of anticancer efficacies	DBT

Completed Projects

S.No	Project Name	Funding Agency
1	Design and development of novel Anti-Angiogenic molecules by targeting polysaccharide binding domain of Carbonic Anhydrase IX through structural bioinformatics methods and studies on cell culture models	ICMR - PI
2	Molecular modelling and Docking, simulation studies of functional domains of Toxoplasma gondii RON4, RON2 & RON5 to understand the moving junction complex formation towards design of novel peptide and chemical inhibitors and validation through invitro studies	DBT-RGYI
3	Development of therapeutic molecules for diabetic retinopathy from studies on structure/function relationship of PON2 by cloning	CSIR
4	Peripheral Blood Gene Expression Profiling In Eales Disease	ICMR
5	Regulation of Lysyl Oxidase expression in Lens Epithelial Cells and trabecular endothelium	ICMR
6	Molecular modelling and Docking, simulation studies of functional domains of Toxoplasma gondii RON4, RON2 & RON5 to understand the moving junction complex formation towards design of novel peptide and chemical inhibitors and validation through invitro studies	DBT-RGYI
7	Development of modulators Ornithine decarboxylase (ODC) for the therapeutic application in retinoblastoma	CSIR
8	Application of Next Generation Sequencing technique to determine the whole genome sequence of laboratory isolates of Enterococcus fealias, P.aeruginosa, B.cervus (both sensitive and resistant strains) And application of bioinformatics approaches to identify the vulnerable area of drug targets in genome	ICMR
9	Biomarker pattern discovery of graded changes in the opacity of human lens in age-onset cataract: a proteomic approach	ICMR
10	Fuch’s endothelial corneal Dystrophy (FCD)– Fine mapping and identifying candidate gene for the novel loci 20p12.1- q13.2 in early onset family and study the association of TCF4 gene in sporadic late onset FCD cases in our population	ICMR
11	FASN Structure and inhibition: Design of catalytic domains. Identification of novel inhibitors and characterisation of enzyme-inhibitor dynamics using insilico tools and experimental validation in Y79 retinoblastoma cells	DBT
12	Development of therapeutic peptide from proteoglycan LRR-angiogenesis	DBT
13	Identification of novel interacting partners for PEDF in angiogenesis and obesity	DST

Collaborative research as a Core Facility serving other Departments

Design of peptide carrier molecules targeting fungal keratitis (Nanobiotechnology)
Structure Function relationship studies of PRR4 protein (Biochemistry)
Binding mode analysis of Fatty acids with therapeutically important proteins (Biochemistry)
Molecular modeling and Simulation studies of Aptamers and its molecular interactions (Nanobiotechnology& Pathology)
NGS based Variant Analysis of different ocular genetic disorders (Genetics)
Structure-function relationship studies of mutational impact on Retinoschisin - 1 (Genetics)
NGS Data Analysis of Ocular Pathogens& Mycobacterium tuberculosis (Microbiology)
Structure prediction of Lysyl oxidase using Insilico modeling techniques (Biochemistry)
Comparative study of LOX and other amine oxidases (Biochemistry)
Insilico mutation impact analysis in UL54 gene of hCMV (Microbiology)
Diabetic Retinopathy Microarray Analysis Project ( Genetics)
Glaucoma Genome-wide Association Studies (GWAS) (Genetics)
Structural studies on proteins of Ocular therapeutic interest(Biochemistry)
Structure-function studies of the impact of mutations in Mycobacterium tuberculosis proteins (microbiology)
Rule based siRNA&Primer design of SPARC and Copper Transporter Receptor 1.(Biochemistry)
Mutational analysis of Pyrazinamide (PZA) of Mtb using structural bioinformatics approaches (Microbiology)
Structural analysis of CYP4V2 mutations (Genetics)
Structural analysis of SLC4A11mutations (Genetics)
Functional characterization of novel mutations in UL54 of ganciclovir resistant HCMV strain using structural analysis (Microbiology)
Design of SiRNA for copper binding proteins using Bioinformatics tools (Biochemistry)
Structure function analysis of 88KDa protein (Biochemistry)
Characterization of Hypothetical proteins present in tear (Biochemistry)
Insilico modeling and docking studies of Glutamate cysteine ligase (Biochemistry)
Identification of various binding regions/ residues in Osteonectin, PEDF and Decorin (Biochemistry)
Structural and functional analysis of Serum paraoxonase 2 using Insilico strategies (Biochemistry)
Identification of anti-angiogenic peptides in small Leucine rich repeats (Biochemistry)
Identification of Transcription factor Binding sites (CellBiology)
Structural Domain analysis of RIM protein (Genetics)
Structural analysis of RPE 65 mutations(Genetics)

Google Scholar : Check out this link

INVITED BOOK CHAPTERS

Insilico Tools of Molecular Modeling, in Handbook of Systems Toxicology, V.Umashankar and S.Gurunathan, edited by Daniel A. Casciano and Saura C.Sahu. Chichester, UK: John Wiley & Sons, Ltd, pp 579-590. (2011)

Cheminformatics and its Applications, in Handbook of Systems Toxicology, edited by Daniel A. Casciano and Saura C.Sahu. Chichester, V.Umashankar and S.Gurunathan, UK: John Wiley & Sons, Ltd,pp 347-360. (2011)

Databases and Tools for Computational Epigenomics for Computational Epigenomics, Toxicology and Epigenetics, Edited by Saura C.Sahu. Chichester, V. Umashankar and S. Gurunathan, UK: John Wiley & Sons, Ltd,pp. 595-614. (2011)

LIST OF RESEARCH PUBLICATIONS

2018

Umashankar Vetrivel, Nagarajan H. Deciphering ophthalmic adaptive inhibitors targeting RON4 of Toxoplasma gondii: An integrative in silico approach. Life Sciences. 2018 Oct 13. pii: S0024-3205(18)30639-8. doi: 10.1016/j.lfs.2018.10.022. PubMed PMID: 30326220.

Sadhasivam A, Vetrivel U. Identification of potential drugs targeting L,L-diaminopimelate aminotransferase of Chlamydia trachomatis: An integrative pharmacoinformatics approach. Journal of Cellular Biochemistry 2018 Oct 10. doi:10.1002/jcb.27553. PubMed PMID: 30302805.

Nagarajan H, Vetrivel U. Demystifying the pH dependent conformational changes of human heparanase pertaining to structure-function relationships: an in silico approach. Journal of Computer Aided Molecular Design. 2018 Jul 6. doi: 10.1007/s10822-018-0131-0. PubMed PMID: 29980923.

Sudha D, Neriyanuri S, Sachidanandam R, Natarajan SN, Gandra M, Tharigopala A,Sivashanmugam M, Alameen M, Vetrivel U, Gopal L, Khetan V, Raman R, Sen P,Chidambaram S, Arunachalam JP. Understanding variable disease severity in X-linked retinoschisis: Does RS1 secretory mechanism determine disease severity? PLoS One. 2018 May 31;13(5):e0198086. doi: 10.1371/journal.pone.0198086. eCollection 2018. PubMed PMID: 29851975; PubMed Central PMCID: PMC5978886.

Samdani, A., and Umashankar Vetrivel. "POAP: A GNU Parallel based multithreaded pipeline of Open Babel and AutoDock suite for boosted High Throughput Virtual Screening." Computational Biology and Chemistry (2018).

Muthukumaran S, Sulochana KN, Umashankar V. Virtual screening of Natural inhibitors targeting Ornithine Decarboxylase with pharmacophore scaffolding of DFMO and validation by molecular dynamics simulation studies. J Biomol Struct Dyn. 2018 Feb 13:1-30. doi: 10.1080/07391102.2018.1439772. [Epub ahead of print] PubMed PMID: 29436980

2017

Muthukumaran S, Bhuvanasundar R, Umashankar V, Sulochana KN. Insights on ornithine decarboxylase silencing as a potential strategy for targeting retinoblastoma. Biomed Pharmacother. 2018 Feb;98:23-28. doi:10.1016/j.biopha.2017.12.030. Epub 2017 Dec 11. PubMed PMID: 29241071.

Vetrivel U, Nagarajan H, Thirumudi I. Design of inhibitory peptide targeting Toxoplasma gondii RON4-human β-tubulin interactions by implementing structural bioinformatics methods. J Cell Biochem. 2017 Nov 1. doi: 10.1002/jcb.26480. [Epub ahead of print] PubMed PMID: 29091310.

Genome-wide codon usage profiling of ocular infective Chlamydia trachomatis serovars and drug target identification. Anupriya Sadhasivam & Umashankar Vetrivel. Article in Journal of Biomolecular Structure and Dynamics. Published online on Jul 4 2017, page number 1-25. PMID: 28627970 DOI: 10.1080/07391102.2017.1343685

Polymorphism of the PAI-1gene (4G/5G) may be linked with Polycystic Ovary Syndrome and associated pregnancy disorders in South Indian Women. Maniraja Jesintha Mary, Lakshmanan Saravanan, Munuswamy Deecaraman, Melantharu Vijayalakshmi, Vetrivel Umashankar, Jaigopal Sailaja. Article in Bioinformation. 13(5): 149-153 May 2017. http: //www.bioinformation.net / 013 /97320630013149.htm.

Ornithine and its role in metabolic diseases: An appraisal. Muthukumaran Sivashanmugam, Jaidev Ja, Umashankar V., Sulochana K.N. Article in Biomedicine & Pharmacotherapy 86:185–194 • February 2017 DOI: 10.1016/j.biopha.2016.12.024

Inhibition of IKKβ by celastrol and its analogues – an in silico and in vitro approach. Karpagam Veerappan, Sathishkumar Natarajan, Purushoth Ethiraj, Umashankar Vetrivel& Shila Samuel. Article in Pharmaceutical Biology 55(1): 368-373. January 2017. DOI: 10.1080/13880209.2016.1241809

Virulence genome analysis of Pseudomonas aeruginosa VRFPA10 recovered from patient with scleritis. Murugan N, Malathi J, Umashankar V, Madhavan HN. Genom Data. 2017 Feb 6;12:1-3. doi: 10.1016/j.gdata.2017.02.007. eCollection 2017 Jun. PubMed PMID: 28217443; PubMed Central PMCID: PMC5302140.

Probing the intermolecular interactions of PPAR?-LBD with polyunsaturated fatty acids and their anti-inflammatory metabolites to infer most potential binding moieties. Shalini Muralikumar, Umashankar Vetrivel, Angayarkanni Narayanasamy and Undurti N. Das. Lipids Health Dis. 2017; 16: 17. DOI: 10.1186/s12944-016-0404-3.

2016

Unraveling Genomic and Phenotypic nature of Multidrug-Resistant (MDR) Pseudomonas aeruginosa VRFPA04 Isolated from Keratitis Patient. N. Murugan, J. Malathi, V. Umashankar, H.N. Madhavan. MicrobiologicalResearch. 2016; 193. DOI:10.1016/j.micres.2016.10.002. PMID: 27825482

In Silico Structure Prediction of Human Fatty Acid Synthase–Dehydratase: A Plausible Model for Understanding Active Site Interactions. Perinkulam Ravi Deepa, John Arun, Vetrivel Umashankar, A Samdani, Manoharan Sangeetha, Subramanian Krishnakumar. Bioinformatics and biology insights 2016; DOI:10.4137/BBI.S38317.2016. PMID: 27559295

Virtual Screening, Molecular dynamics and binding free energy calculations on Human Carbonic Anhydrase IX catalytic domain for deciphering potential leads. Arun John, Muthukumaran Sivashanmugam, Vetrivel Umashankar, Sulochana Konerirajapuram Natarajan. Journal of Biomolecular Structure & Dynamics. 2016; DOI:10.1080/07391102.2016.1207565. PMID: 27373313

Multilevel Precision-Based Rational Design of Chemical Inhibitors Targeting the Hydrophobic Cleft of Toxoplasma gondii Apical Membrane Antigen 1 (AMA1). Umashankar Vetrivel, Shalini Muralikumar, B Mahalakshmi, K Lily Therese, HN Madhavan, Mohamed Alameen, Indhuja Thirumudi. Genomics & Informatics. 2016; 14(2). DOI:10.5808/GI.2016.14.2.53. PMID: 27445648

Comparative docking of dual conformations in human fatty acid synthase thioesterase domain reveals potential binding cavity for virtual screening of ligands. Arun John, Umashankar Vetrivel, Krishnakumar Subramanian, Perinkulam Ravi Deepa. Journal of Biomolecular Structure & Dynamics 2016; DOI:10.1080/07391102. PMID: 27145135

Targeting CD44, ABCG2 and CD133 markers using aptamers: in silico analysis of CD133 extracellular domain 2 and its aptamer. Subramanian N, Akilandeswari B, Bhutra A, Alameen M, Vetrivel U, Khetan V et al,. RSC Advances. 2016; 6(38): 32115-32123. DOI: 10.1039/C5RA27072C

Resistome and pathogenomics of multidrug resistant (MDR) Pseudomonas aeruginosa VRFPA03, VRFPA05 recovered from alkaline chemical keratitis and post-operative endophthalmitis patient. Murugan N, Malathi J, Umashankar V, Madhavan H. Gene. 2016; 578(1):105-111. PMID: 26692145

Bio-conjugation of antioxidant peptide on surface-modified gold nanoparticles: a novel approach to enhance the radical scavenging property in cancer cell. Kalmodia S, Vandhana S, Tejaswini Rama B, Jayashree B, Sreenivasan Seethalakshmi T, Umashankar V et al,. Cancer Nanotechnology. 2016; 7(1). PMID: 26900409

Probing the biophysical interaction between Neocarzinostatin toxin and EpCAM RNA aptamer. Athyala PK, Kanwar JR, Alameen M, Kanwar RK, Krishnakumar S, Watson J, Vetrivel U, Narayanan J. Biochem Biophys Res Commun. 2016; 469(2):257-62. PMID: 26642954

2015

Homozygosity mapping in Leber congenital amaurosis and autosomal recessive retinitis pigmentosa in South Indian families. Sundaramurthy Srilekha, Tharigopala Arokiasamy, Natarajan N. Srikrupa, Vetrivel Umashankar, Swaminathan Meenakshi, Parveen Sen, Suman Kapur, Nagasamy Soumittra. PLOS ONE. 2015. PMID: 26147992

Draft genome sequence of blaVeb-1, blaoxa-10producing multi-drug resistant (MDR) Pseudomonas aeruginosastrain VRFPA09 recovered from bloodstream infection. Nandagopal Murugan, Jambulingam Malathi, Vetrivel Umashankar, Hajib Narahari Rao Madhavan. Brazilian Journal of Microbiology. 2015; vol.46, n.3, pp. 639-640. PMID: 26413042

Comparative Modeling and Molecular Dynamics Simulation of Substrate Binding in Human Fatty Acid Synthase: Enoyl Reductase and β-Ketoacyl Reductase Catalytic Domains. Arun John, Vetrivel Umashankar, Subramanian Krishnakumar, and Perinkulam Ravi Deepa. Genomics & Informatics. 2015; 13(1): 15-24. PMID: 25873848

Insights on Drug Targeting of Toxoplasma gondii Host Invasion Proteins: A Review. Indhuja Thirumudi, Umashankar Vetrivel, Mahalakshmi B, Lily Therese K, Madhavan HN. Asian Journal of Pharmaceutical and Clinical Research. 2015; 8:3

Drug Discovery: an appraisal. Umashankar, V., and S. Gurunathan. International Journal of Pharmacy and Pharmaceutical Sciences. 2015; 7.4.

Virtual screening studies of seaweed metabolites for predicting potential pparγ agonists. Gurula, H., Loganathan, T., Krishnamoorthy, T., Vetrivel, U., & Samuel, S. International Journal of Pharmacy and Pharmaceutical Sciences. 2015 7(11).

2014

Mutation spectrum in BBS genes guided by homozygosity mapping in an Indian cohort. Sathya Priya C, P. Sen, V. Umashankar, N. Gupta, M. Kabra, G. Kumaramanickavel, C. Stoetzel, H. Dollfus and S. Sripriya. Clin Genet. 2014. doi: 10.1111/cge.12342. PMID: 24400638

In Silico analysis and prioritization of drug targets in Fusarium solani. Muthukumaran Sivashanmmugam, Hemavathy Nagarajam, Umashankar Vetrivel, Gayathri Ramasubban, KL therese, Madhavan HN, Umashankar Vetrivel. Medical Hypotheses, Elsevier. 2014; 84(2). PMID: 25555413

Computational docking studies reveal the potential inhibitory binding mode of Curcumin and its analogues on Lung Resistance Protein. Seethalakshmi Sreenivasan, Mohamed al ameen, Subramanian Krishnakumar and Umashankar Vetrivel. International Journal of Pharmacy and Pharmaceutical Sciences. 2014

Whole-Genome Sequencing and Mutation Analysis of Two Extensively Drug-Resistant Sputum Isolates of Mycobacterium tuberculosis (VRFCWCF XDRTB 232 and VRFCWCF XDRTB 1028) from Chennai, India. Kulandai LT, Lakshmipathy D, Ramasubban G, Vetrivel U, Rao MH, Rathinam S, Narasimhan M.. Genome Announcements, American Society of Microbiology. 2014; 2(6).PMCID: PMC4241668

Whole genome sequence of polyresistant Mycobacterium tuberculosis CWCFVRF PRTB 19 sputum isolate from Chennai, India, closely clustering with East African Indian 5 genogroup. Lakshmipathy D, Vetrivel U, Ramasubban G, Kulandai LT, Madhavan HN, Sridhar R, Meenakshi N.Genome Announcements, American Society of Microbiology.2014; 2(4):e00702-14. PMCID: PMC4102868

Draft Genome Sequence of sputum isolate of Multidrug resistant Mycobacterium tuberculosis CWCFVRF MDRTB 670 strain from Chennai, India with Clinically Suspected Tuberculosis. Gayathri Ramasubban, Dhanurekha Lakshmipathy, Umashankar Vetrivel, Lily Therese Kulandai, Hajib Narahari Madhavan, R Sridhar, N Meenakshi. Genome announcements, American Society of Microbiology. 2014; Vol 2. Issue 3. PMID: 24855307

Importance of ABC transporters in different tissues. Umashankar Vetrivel and Gurunathan Subramanian. Drug metabolism and drug interactions 29.2 2014; 65-66.

Comparative genomic analysis of multidrug-resistant Pseudomonas aeruginosa clinical isolates VRFPA06 and VRFPA08 with VRFPA07.Murugan, Nandagopal, Jambulingam Malathi, Vetrivel Umashankar, and Hajib Narahari Rao Madhavan. Genome announcements, American Society of Microbiology. 2014; no. 2 (2014): e00140-14. PMCID: PMC3945505

Whole-Genome Sequencing of Streptomycin-Resistant Mycobacterium tuberculosis Isolate VRFCWCF MRTB 180 Reveals Novel and Potential Mutations for Resistance. Gayathri Ramasubban, Dhanurekha Lakshmipathy, Umashankar Vetrivel, Lily Therese Kulandai, Hajib Narahari Madhavan, R. Sridhar, N. Meenakshi. Genome announcements, American Society of Microbiology. 2014 2(5): pii: e00919-14. PMID: 25212629

A molecular model of human Lysyl Oxidase (LOX) with optimal copper orientation in the catalytic cavity for induced fit docking studies with potential modulators. Bhuvanasundar R, John A, Sulochana KN, Coral K, Deepa PR4, Umashankar V. Bioinformation. 2014 10(7):406-412. PMID: 25187679

2013

Identification and In silico Analysis of Retinoblastoma Serum microRNA Profile and Gene Targets Towards Prediction of Novel Serum Biomarkers. Madhu Beta, Nalini Venkatesan, Madavan Vasudevan, Umashankar Vetrivel, Vikas Khetan, Subramanian Krishnakumar, Bioinformatics and Biology Insights. 2013; Vol 7, 21-34, PMID: 23400111.

Modulation of MDR1 expression and function in retinoblastoma cells by curcumin. Seethalakshmi Sreenivasan, Sathyabaarathi Ravichandran, UmashankarVetrivel, Subramanian Krishnakumar, Journal of Pharmacology and Pharmacotherapeutics.2013 doi: 10.4103/0976-500X.110882. PMCID: PMC3669568

In silico Analysis of Novel Mutation ala102pro Targeting pncA Gene of M. Tuberculosis. Dhanurekha Lakshmipathy, Gayathri Ramasubban, Lily Therese*, Umashankar Vetrivel, Muthukumaran Sivashanmugam, Sunitha Rajendiran, Sridhar R, Madhavan HN, and Meenakshi N. J Comput Sci Syst Biol. 2013, 6:2.

Draft Genome Sequence of Multidrug-Resistant Pseudomonas aeruginosa Strain VRFPA02, Isolated from a Septicemic Patient in India. Malathi J, Murugan N, Umashankar V, Bagyalakshmi R, Madhavan HN. Genome Announc.American Society of Microbiology. 2013; 1(4). PMCID: PMC3703595

Elucidation Of IRON Binding Patterns Through Insilico Approaches In Human Iron Binding Proteins. Muthukumaran Sivashanmugam, Anusha Kuppuswamy, UmashankarVetrivel, K.N. Sulochana. International Journal of Therapeutic Applications, Volume 10, 2013, 11-18.

Structural studies on AIPL1 and its functional interactions with NUB1 to identify key interacting residues in LCA4. S. Muthukumaran,V. Umashankar, Meena Revathi Valliappan. Journal of Ocular Biology, Diseases, and Informatics. 2013 April. Springer. PMID: 24596939

Virtual screening studies reveal linarin as a potential natural inhibitor targeting cdk-4 in retinoblastoma. S. Muthukumaran & R. Chandana, V. Umashankar. Journal of Pharmacology and Pharmacotherapeutics. 2013. PMID: 24250202

Novel Mutations in the thymidne kinase gene of ocular herpes simplex virus isolate responsible for acyclovir resistance by in silico analysis. Samson Moses Y, Malathi J, UmashankarV, Sherlin and Madhavan H.N, International Journal of Computational Bioinformatics and In Silico Modeling.2013 2(4): 158-165

2012

ICAM-1 K469E polymorphism is a genetic determinant for the clinical risk factors of T2D subjects with retinopathy in Indians: a population-based case–control study. Kumari Vinita1, Sarangapani Sripriya1, Krishnamurthy Prathiba, Kulothungan Vaitheeswaran, Ravichandran Sathyabaarathi, Mahendran Rajesh, John Amali, Vetrivel Umashankar, Govindasamy Kumaramanickavel, Swakshyar Saumya Pal, Rajiv Raman, Tarun Sharma, British Medical Journal Open. 2012; 2:e001036. PMID: 22904330.

Agonistic effect of polyunsaturated fatty acids (PUFAs) and its metabolites on brain-derived neurotrophic factor (BDNF) through molecular docking simulation. Umashankar Vetrivel et al., BMCLipids in Health and Disease.2012 11:109. PMCID: PMC3477081.

In vitro and In silico studies on inhibitory effects of curcumin on multi drug resistance associated protein (MRP1) in retinoblastoma cells. Seethalakshmi Sreenivasan, Sathyabaarathi Ravichandran, UmashankarVetrivel, and Subramanian Krishnakumar, Bioinformation. 2012; 8(1): 13–19. 2012. PMID: 22359429

Phylogenetic comparison of exonic US4, US7 and UL44 regions of clinical herpes simplex virus type 1 isolates showed lack of association between their anatomic sites of infection and genotypic/sub genotypic classification. Harishankar A, Jambulingam M, Gowrishankar R, Venkatachalam A, Vetrivel Umashankar, Ravichandran S, Yesupadam SM and Madhavan HN, Virology Journal, BMC. 2012; 9:65. PMID: 22416856

Studies on New Delhi Metallo-Beta-Lactamse-1 producing Acinetobacter baumannii isolated from donor swab in a tertiary eye care centre, India and structural analysis of its antibiotic binding interactions. Murali Sowmiya, VetrivelUmashankar, Sivashanmugan Muthukumaran, Hajib Narahari rao Madhavan, and Jambulingam Malathi, Bioinformation. 2012; 8(10): 445–452. PMID: 22715297

Elucidation Of Structure - Function Relationship In Families Of Copper Binding Proteins In Homo Sapiens – A Bioinformatics Approach. Mathangi Jayaraman & Sudarshana N, Vidya Natarajan, Umashankar Vetrivel, Sulochana. K.N. International Journal of Pharma and Bio Sciences. 2012 3(3): (B) 647 – 662

2011

A novel in silico approach to identify potential therapeutic targets in human bacterial pathogens. Umashankar Vetrivel Gurunathan Subramanian Sudarsanam Dorairaj. HUGO Journal (Official Journal of Human Genome Organization). 2011; DOI 10.1007/s11568-011-9152-7. Springer. PMID: PMC3238024

Insilico Identification of Novel Inhibitors for Emphysema through Structure Based Drug Design Approaches. Raghavan rajashekaran, Charanya muralidharan, Sathyabaarthi ravichandran, Umashankarvetrivel. Journal of Biology and Life Sciences. 2011; Vol 2, No 1.

Detection of novel coupled mutations in the katG gene (His276Met, Gln295His and Ser315Thr) in a multidrug-resistant Mycobacterium tuberculosis strain from Chennai, India, and insight into the molecular mechanism of isoniazid resistance using structural bioinformatics approaches. Gayathri Ramasubbana, Kulandai Lily Theresea, UmashankarVetrivel, Muthukumaran Sivashanmugamb, Parvathy Rajanc, R. Sridhard, Hajib N. Madhavana, N. Meenakshie. International Journal of Antimicrobial Agents. Elsevier. 2011 PMID: 21330112

Functional characterization of novel mutations in UL54 of ganciclovir resistant HCMV strain using structural analysis. Jambulingam Malathi, VetrivelUmashankar, Ravichandran Sathyabaarathi, Sivashanmugan Muthukumaran, Murali Ishwarya, Hajib Narahari Madhavan. Bioinformation.2011. PMID: 21383907

Molecular screening of the CYP4V2 gene in Bietti crystalline dystrophy that is associated with choroidal neovascularization. Gandra Mamatha, Vetrivel Umashankar, Nachiappan Kasinathan, Tandava Krishnan, Ravichandran Sathyabaarathi, Thirumalai Karthiyayini,1 John Amali,1 Chetan Rao,3 Jagadeesan Madhavan1. Molecular Vision.2011; 17:1970-1977. PMID: 21850171.

Chemical inhibition of Fatty Acid Synthase: molecular docking analysis and biochemical validation in ocular cancer cells. P. R. Deepa, S. Vandhana, S. Muthukumaran, V.Umashankar, U. Jayanthi, S. Krishnakumar, J Ocul Biol Dis Infor. Springer, 2011. PMID: 23181152

Comparative modeling of PON2 and analysis of its substrate binding interactions using computational methods. Subramanian Barathi & Muralidaran Charanya & Shivashanmugam Muthukumaran & Narayanasamy Angayarkanni &VetrivelUmashankar.J Ocul Biol Dis Infor,springer.2011; DOI 10.1007/s12177-011-9057-7. PMID: 22319641

2010

Ab initio model of HIV’s Vif and simulation studies of APOBEC3G-Vif complex.UmashankarVetrivel. International Journal of Integrative Biology (IJIB). 2010, Vol. 10, No. 1, 29.

Homocysteinethiolactone and Paraoxonase: Novel markers of diabetic retinopathy. (2010). Barathi, S., Angayarkanni, N., Pasupathi, A., Natarajan, S. K., Pukraj, R., Dhupper, M., … Sivashanmugham, M. Diabetes Care, 33(9), 2031–2037. http://doi.org/10.2337/dc10-0132

Dr.V.Umashankar a recipient of RGYI (Rapid Grant for Young Investigators) grant awarded by DBT and Early Career Research Award from SERB-DST.