Dr. Kalaiarasan P

Dr. Kalaiarasan P

Assistant Professor
Qualification : Ph.D. in Bioinformatics
Email : kalaiarp1@srmist.edu.in
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Dr. Kalaiarasan Ponnusamy joined SRM Institute of Science and Technology as Assistant Professor on May 29, 2025. He has an extensive research portfolio comprising more than 70 peer-reviewed publications with an H-index of 26 and over 3,600 citations. His research has been published in leading international journals, including Science, Nature, Nucleic Acids Research, and Briefings in Bioinformatics.

Prior to joining SRMIST, he served as Assistant Director at the National Centre for Disease Control (2021–2025), New Delhi, where he made significant contributions to India's SARS-CoV-2 genomic surveillance efforts under the Indian SARS-CoV-2 Genomics Consortium (INSACOG). His work contributed to studies on the Delta and Omicron variants, viral evolution, and immune escape mechanisms.

At SRM, he leads the Synthetic Systems Virology Laboratory (SSV Lab), where his research focuses on developing integrative computational biology approaches to understand infectious diseases, cancer, metabolic disorders, rare genetic diseases, and host–pathogen interactions. His expertise spans genomics, transcriptomics, multi-omics data integration, systems biology, structural bioinformatics, molecular modeling, network biology, and machine learning-based predictive analytics.

His laboratory utilizes next-generation sequencing (NGS), computational systems biology, and artificial intelligence to investigate disease mechanisms, identify biomarkers, discover therapeutic targets, and develop predictive models for precision medicine. Current research activities include genome analysis, variant interpretation, regulatory genomics, transcriptomics, proteomics, interactome analysis, microbiome research, antimicrobial resistance, and host–microbe interactions.

His systems biology research has advanced the understanding of biological networks, apoptosis regulation, miRNA-mediated signaling, and disease-associated regulatory mechanisms. In structural bioinformatics and computational drug discovery, his work focuses on protein structure analysis, molecular docking, molecular dynamics simulations, and structure-based identification of therapeutic candidates for infectious, genetic, neurological, and cancer-related diseases.

Through the integration of genomics, systems biology, and artificial intelligence, his research aims to bridge computational discoveries with translational biomedical applications, contributing to precision medicine, infectious disease surveillance, and therapeutic development.

Interested students, postdoctoral fellows, and researchers are invited to explore the innovative research activities of the Synthetic Systems Virology Laboratory (SSV Lab) through our laboratory website.

Website Link: SSV LAB

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I am currently serving as an Assistant Professor in the Division of Medical Research at SRM Institute of Science & Technology (SRMIST), Kattankulathur, Tamil Nadu. I have 16 years of research experience in bioinformatics, computational biology, genomics, systems biology, synthetic biology, and structural bioinformatics.

My academic background includes a Ph.D. in Bioinformatics (Biotechnology), with my doctoral research carried out at Jawaharlal Nehru University, New Delhi, under the supervision of Padma Shri Professor R. N. K. Bamezai. I also hold an M.Sc. in Bioinformatics and a B.Sc. in Biochemistry from the University of Madras. Prior to joining SRMIST, I served as Assistant Director (Bioinformatician) at the National Centre for Disease Control (NCDC), Delhi, Research Associate and DST-SERB National Post-Doctoral Fellow at Jawaharlal Nehru University, and Junior Research Fellow at JNU.

My research interests include Genome Informatics, Next Generation Sequencing and RNA analysis, Computational Systems Biology, Synthetic Biology, Structural Bioinformatics, human genomics, pathogen variant evolution, high-throughput gene expression analysis, drug-target identification, computational screening of compounds, molecular dynamics simulations, biological network modelling, machine learning in systems biology, and miRNA informatics.

A significant part of my research has focused on genomic surveillance and pathogen genomics. I have contributed to the analysis of more than 35,000 Indian SARS-CoV-2 genome sequences as part of INSACOG and contributed to studies involving the identification and characterization of SARS-CoV-2 variants in India. I have also contributed to research involving cancer biology, systems-level regulation, synthetic biology, genetic studies, databases, and computational tools.

My research profile includes 60 publications, an h-index of 24, more than 3,400 citations, and an average impact factor of 7.1. My research has been published in international journals including Science, Nature, Briefings in Bioinformatics, Nucleic Acids Research, PLOS Genetics, Journal of Infectious Diseases, mSystems, and Cancer Letters.
 I have received recognition for my contributions to research, including an award from the Director of the National Centre for Disease Control for outstanding work during the COVID-19 pandemic in 2021, the Best Young Scientist Award at the INSCR International Conference in 2017, and an award in the Cytoscape competition from the University of California, San Diego, in 2015.

I have also contributed to student training and academic mentoring, having guided or co-supervised Master's and Bachelor's students during my doctoral and postdoctoral tenure. In addition to research and teaching, I have delivered invited lectures and training programmes in areas including bioinformatics, NGS data analysis, biomedical data analysis, molecular structure and computational biology.

My current research vision is focused on integrating computational, genomic, systems, synthetic, and structural biology approaches to address complex biomedical and infectious disease problems. Through interdisciplinary research, student mentorship, collaborative projects, and advanced computational approaches, I aim to contribute to the development of innovative solutions in biomedical research and precision medicine.

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  • Ph.D. Bioinformatics (Biotechnology), Shri Mata Vaishno Devi University (SMVDU), India; Research conducted at Jawaharlal Nehru University (JNU), New Delhi                                                          Supervisor: Padma Shri Prof. R. N. K. Bamezai
  • M.Sc. Bioinformatics, University of Madras, Chennai, India
  • B.Sc. Biochemistry, University of Madras, Chennai, India
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  • DST-SERB National Postdoctoral Fellowship (NPDF) in Bioinformatics and Synthetic Biology, Jawaharlal Nehru University (JNU), New Delhi, India, 2018
  • Ph.D. in Bioinformatics (Biotechnology), Shri Mata Vaishno Devi University (SMVDU), Katra, Jammu (Research Work: Jawaharlal Nehru University (JNU), New Delhi), 2011–2015
  • M.Sc. in Bioinformatics, University of Madras, Chennai, Tamil Nadu, 2006–2008
  • B.Sc. in Biochemistry, University of Madras, Chennai, Tamil Nadu, 2003–2006
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  • Assistant Director, Biotechnology Division, National Centre for Disease Control (NCDC), Ministry of Health & Family Welfare, Government of India (2021–2025)
  • Research Associate, School of Biotechnology, Jawaharlal Nehru University (JNU), New Delhi, India (2018–2021)
  • DST-SERB National Postdoctoral Fellow, School of Biotechnology, Jawaharlal Nehru University (JNU), New Delhi, India (2016–2018)
  • Guest Faculty (M.Sc. Bioinformatics), Jamia Millia Islamia, New Delhi, India (2015–2016)
  • Junior Research Fellow, School of Life Sciences, Jawaharlal Nehru University (JNU), New Delhi, India (2009–2010)
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  • Assistant Professor – 2025–Present
    Institute: SRM Institute of Science & Technology (SRMIST), Chengalpattu, Tamil Nadu
  • Assistant Director (Bioinformatician) – 2021–2025
    Institute: National Centre for Disease Control (NCDC), Delhi
  • Research Associate – 2018–2021
    Institute: School of Biotechnology, Jawaharlal Nehru University (JNU), New Delhi
  • DST-SERB National Post-Doctoral Fellow – 2016–2018
    Institute: School of Biotechnology, Jawaharlal Nehru University (JNU), New Delhi
  • Junior Research Fellow – 2009–2010
     Institute: School of Life Sciences, Jawaharlal Nehru University (JNU), New Delhi
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  • Computational Systems and Synthetic Biology
  • Structural Bioinformatics
  • Pathogen Genomics
  • Human Genetics
  • AI in Biomedical Research
  • Multi-omics Data Analysis
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My research interests focus on Genome Informatics, Computational Systems Biology, Synthetic Biology, and Structural Bioinformatics, with particular emphasis on Next Generation Sequencing data analysis, RNA analysis, human genomics, pathogen genome evolution, and high-throughput gene expression analysis. I am also interested in miRNA informatics, biological network modelling, machine learning approaches in systems biology, computational drug-target identification, and molecular dynamics-based investigation of protein structure and function.

I am a computational and systems biology researcher with 16 years of research experience spanning genomics, bioinformatics, systems biology, synthetic biology, structural biology, and biomedical research. My research involves analysing large-scale genomic and transcriptomic datasets, understanding pathogen evolution, identifying molecular and genetic determinants of disease, computational screening of therapeutic compounds, and designing synthetic proteins and peptides.

My research has included large-scale genomic surveillance of SARS-CoV-2, where I contributed to the analysis of more than 35,000 Indian SARS-CoV-2 genome sequences as part of INSACOG and contributed to the identification and characterization of major viral variants in India. I have also worked on cancer biology, microRNA-mediated regulation, genetic studies, biological networks, pathogen genomics, and computational approaches for understanding disease mechanisms.

My expertise encompasses NGS data analysis, genome informatics, phylogenetic analysis, RNA and miRNA analysis, molecular genomics, protein structure analysis, molecular dynamics simulations, computational screening, and systems-level modelling. I have experience with computational platforms and tools including Illumina DRAGEN, BWA, Cufflinks, HISAT2, Cytoscape, Schrödinger, GROMACS, GOLD, MOE, Discovery Studio, AutoDock, MODELLER, PyMOL, VMD, and Chimera, along with programming in R, Python, and Perl.

I am particularly interested in developing interdisciplinary research programmes that integrate genomics, computational systems biology, synthetic biology, structural bioinformatics, and experimental approaches to address complex biomedical, infectious disease, and therapeutic research questions.

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Best Five Papers

  1. S. Dhar, R. Marwal, V.S. Radhakrishnan, Kalaiarasan P* [First Author], B. Jolly, R.C. Bhoyar, V. Sardana, S. Naushin, M. Rophina, T.A. Mellan, S. Mishra, C. Whittaker, S. Fatihi, M. Datta, P. Singh, U. Sharma, R. Ujjainiya, N. Bhateja, M.K. Divakar, M.K. Singh, M. Imran, V. Senthivel, R. Maurya, N. Jha, P. Mehta, A. Vivekanand, P. Sharma, V.R. Arvinden, U. Chaudhary, L. Thukral, S. Flaxman, S. Bhatt, R. Pandey, D. Dash, M. Faruq, H. Lall, H. Gogia, P. Madan, S. Kulkarni, H. Chauhan, S. Sengupta, S. Kabra, S.-C.-G.C. The Indian, R.K. Gupta, S.K. Singh, A. Agrawal, P. Rakshit: Genomic characterization and Epidemiology of an emerging SARS-CoV-2 variant in Delhi, India. Science 374(6570):995-999. 2021 [Impact Factor: 63.7]
  2. Mlcochova, P., S. A. Kemp, M. S. Dhar, G. Papa, B. Meng, Iatm Ferreira, R. Datir, D. A. Collier, A. Albecka, S. Singh, R. Pandey, J. Brown, J. Zhou, N. Goonawardane, S. Mishra, C. Whittaker, T. Mellan, R. Marwal, M. Datta, S. Sengupta, Kalaiarasan P, S. Radhakrishnan, A. Abdullahi, O. Charles, P. Chattopadhyay, P. Devi, D. Caputo, T. Peacock, C. Wattal, N. Goel, A. Satwik, R. Vaishya, M. Agarwal, Sars-CoV-Genomics Consortium Indian, Consortium Genotype to Phenotype Japan, Citiid-Nihr BioResource COVID-19 Collaboration, A. Mavousian, J. H. Lee, J. Bassi, C. Silacci-Fegni, C. Saliba, D. Pinto, T. Irie, I. Yoshida, W. L. Hamilton, K. Sato, S. Bhatt, S. Flaxman, L. C. James, D. Corti, L. Piccoli, W. S. Barclay, P. Rakshit, A. Agrawal, and R. K. Gupta: SARS-CoV-2 B.1.617.2 Delta variant replication and immune evasion. Nature 599(7883):114-119. 2021 [Impact Factor: 69.5]
  3. Nafis S, Kalaiarasan P* [First Author], Brojen Singh RK, Husain M, Bamezai RN: Apoptosis regulatory protein-protein interaction demonstrates hierarchical scale-free fractal network. Brief Bioinform 16(4):675-699. 2015 [Impact Factor: 8.9]
  4. Kalaiarasan P* [First Author], Kumar B, Chopra R, Gupta V, Subbarao N, Bamezai RN: In silico screening, genotyping, molecular dynamics simulation and activity studies of SNPs in pyruvate kinase M2. PLoS One 10(3): e0120469. 2015 [Impact Factor: 3.8]
  5. Kumar R, Mahmoud MM, Tashkandi HM, Haque S, Harakeh S, Kalaiarasan P* [Corresponding Author], Haider S: Combinatorial Network of Transcriptional and miRNA Regulation in Colorectal Cancer. In: International Journal of Molecular Sciences. 24. 2023 [Impact Factor: 6.2]

 Rest of the Research Articles

2026

  1. Kumar R, Haque S , Kalaiarasan P*, Haider S*: Characterization of nsSNPs in CDC5L and Their Potential Inhibitor: An In Silico Approach. ChemistrySelect, 11(23): [Impact Factor: 2.3].
  2. S Sathish, Kalaiarasan P*, T Madhavan*: Computational Identification of Potential JAK1 Inhibitors Targeting Breast Cancer: Leveraging the SANC Database for Drug Discovery. Journal of Pharmaceutical Innovation 21 (4), 404. [Impact Factor: 2.7].
  3. Kulkarni MP, Singh M, Haider S, Kalaiarasan P, De Rubis G, Panth N, Taylor-Blair HC, Cordina J, Patel VK, Gupta G et al: Quercetin nanoemulsion ameliorates key hallmarks of lung cancer. Journal of Drug Delivery Science and Technology, 119:108182. [Impact Factor: 4.9].
  4. Ramanathan G, Dhanasekaran S, Kalaiarasan P: Exploring Brassica oleracea var. botrytis Leaf Compounds for Diabetes Treatment: A Docking and Molecular Dynamics Study. ChemistrySelect, 11(5):e05743. [Impact Factor: 2.3].

 2024

  1. Yadav A, Shinde PB, Dhar MS, Kalaiarasan P, Marwal R, Vs R, Kedia S, Ahuja V, Sharma KK: Draft genome sequences of multi-drug-resistant Escherichia coli strains isolated from ulcerative colitis patients. Microbiol Resour Announc
  2. Yadav A, Shinde PB, Mohan H, Dhar MS, Kalaiarasan P, Marwal R, Radhakrishnan VS, Goyal S, Kedia S, Ahuja V et al: Gut Colonization With Antibiotic-Resistant Escherichia coli Pathobionts Leads to Disease Severity in Ulcerative Colitis. International Journal of Antimicrobial Agents 64(4):107289. [Impact Factor: 4.9].
  3. Ghosh, A., P. Kanta, M. Ramola, R. Mohindra, K. Goyal, R. Kishore, V. Suri, P. V. M. Lakshmi, C. Chauhan, M. Sharma, P. Rakshit, Kalaiarasan P, T. Dikid and M. P. Singh (2024). Rapid Decline of SARS-CoV-2 Viral Load in Single vs. Double-Dose (Short-Interval <6 Weeks) ChAdOx nCoV-19 Vaccinated Health-Care Workers. Current Microbiology 81(4): 95 [Impact Factor: 2.6].
  4. Yadav A, Shinde PB, Dhar MS, Kalaiarasan P, Marwal R, V SR, Sharma KK: Draft genome sequence of Kluyvera ascorbata HAK22 isolated from human feces. Microbiol Resour Announc. 13(1):e0089023.

 2023

  1. Shikha S, Jogi MK, Jha R, Kumar RA, Sah T, Singh P, Sagar R, Kumar A, Marwal R, Kalaiarasan P et al: Genome sequencing of SARS-CoV-2 omicron variants in Delhi reveals alterations in immunogenic regions in spike glycoprotein. Front Immunol. 14:1209513 [Impact Factor: 7.3].
  2. Kumar R, Madhavan T, Kalaiarasan P, Sohn H, Haider S: Computational study of the motor neuron protein KIF5A to identify nsSNPs, bioactive compounds, and its key regulators. Front Genet. 14:1282234. [Impact Factor: 3.7].
  3. Khan MJ, Singh P, Jha P, Nayek A, Malik MZ, Bagler G, Kumar B, Kalaiarasan P, Ali S, Chopra M et al: Investigating the link between miR-34a-5p and TLR6 signaling in sepsis-induced ARDS. 3 13 (8): 282 [Impact Factor: 2.8].
  4. Gnanasekaran P, Gupta N, Kalaiarasan P, Devendran R, George B, Chakraborty S: Betasatellite-encoded betaC1 protein regulates helper virus accumulation by interfering with the ATP hydrolysis activity of geminivirus-encoded replication initiator protein. J Gen Virol, 104(6) [Impact Factor: 5.1].
  5. Kumar R, Nagar S, Haider S, Sood U, Kalaiarasan P, Dhingra GG, Anand S, Dua A, Singh M, Kumar R et al: Monkeypox virus: phylogenomics, host-pathogen interactome and mutational cascade. Microb Genom. 9(4) [Impact Factor: 5.2].
  6. Kumar R, Mahmoud MM, Tashkandi HM, Haque S, Harakeh S, Kalaiarasan P*, Haider S*: Combinatorial Network of Transcriptional and miRNA Regulation in Colorectal Cancer. In: International Journal of Molecular Sciences. 24. [Impact Factor: 6.2]
  7. Kashyap J, Kumari N, Kalaiarasan P, Tyagi RK: Hereditary Vitamin D-Resistant Rickets (HVDRR) associated SNP variants of vitamin D receptor exhibit malfunctioning at multiple levels. Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, 1866 (1) 194891. [Impact Factor: 6.3]
  8. Kumar R, Malik Z, Singh M, Rachna, Mani S, Kalaiarasan P*, Haider S*: Amyotrophic Lateral Sclerosis Risk Genes and Suppressor. Current Gene Therapy, 23:1-1. [Impact Factor: 4.7]

 2022

  1. Bhat ZI, Naseem A, Kumar B, Kalaiarasan P, Tiwari RR, Sharma GD, Rizvi MMA: Association of PARK-2 Non-synonyms Polymorphisms and Their In Silico Validation Among North Indian Colorectal Cancer Patients. Journal of Gastrointestinal Cancer, 53(3):674-682. [Impact Factor: 1.6]
  2. Chakrabarti A, Kaushik M, Khan J, Soota D, Kalaiarasan P, Saini S, Manvati S, Singhal J, Ranganathan A, Pati S et al: tREPs─A New Class of Functional tRNA-Encoded Peptides. ACS Omega 7(22):18361-18373. [Impact Factor: 4.1]
  3. Pathak, AK, Mishra, GP, Uppili, B, Walia, S, Fatihi, S, Abbas, T, Banu, S, Ghosh, A, Kanampalliwar, A, Jha, A, Fatma, S, Aggarwal, S, Dhar, MS, Marwal, R, Radhakrishnan, VS, Kalaiarasan P, Kabra, S, Rakshit, P, Bhoyar, RC, Jain, A, Divakar, MK, Imran, M, Faruq, M, Sowpati, DT, Thukral, L, Raghav, Sunil K and Mukerji, M: Spatio-temporal dynamics of intra-host variability in SARS-CoV-2 genomes. Nucleic Acids Research: gkab1297. [Impact Factor: 19.2]
  4. Jha P, Singh P, Arora S, Sultan A, Nayek A, Kalaiarasan P, Syed MA, Dohare R, Chopra M: Integrative multiomics and in silico analysis revealed the role of ARHGEF1 and its screened antagonist in mild and severe COVID-19 patients. J Cell Biochem. [Impact Factor: 4.5]
  5. Kemp SA, Cheng MTK, Hamilton WL, Kamelian K, Indian S-C-GC (Kalaiarasan P), Singh S, Rakshit P, Agrawal A, Illingworth CJR, Gupta RK: Transmission of B.1.617.2 Delta variant between vaccinated healthcare workers. Sci Rep 12(1):10492. [Impact Factor: 4.6]

 2021

  1. Gnanasekaran P, Gupta N, Kalaiarasan P, Chakraborty S: Geminivirus Betasatellite-Encoded βC1 Protein Exhibits Novel ATP Hydrolysis Activity That Influences Its DNA-Binding Activity and Viral Pathogenesis. J Virol 95(17): e0047521. [Impact Factor:4.5]
  2. Gupta V, Haider S, Verma M, Sinhvi N, Kalaiarasan P, Malik Md, Verma H, Kumar R, Sood U, Hira P, Satija S, Singh Y, Lal R: Comparative Genomics and Integrated Network Approach Unveiled Undirected Phylogeny Patterns, Co-mutational Hotspots, Functional Crosstalk and Regulatory Interactions in SARS-CoV-2. mSystems 6(1). [Impact Factor: 6.3]

 2020

  1. Nagar S, Talwar C, Haider S, Puri A, Kalaiarasan P, Gupta M, Sood U, Bajaj A, Lal R, Kumar R: Phylogenetic Relationships and Potential Functional Attributes of the Genus Parapedobacter: A Member of Family Sphingobacteriaceae. Front Microbiol 11:1725. [Impact Factor: 4.2]

 2019

  1. Haider S*, Kalaiarasan P*, Singh RKB, Chakraborti A, Bamezai RNK: Hamiltonian energy as an efficient approach to identify the significant key regulators in biological networks. PLoS One14: e0221463. [Impact Factor: 3.8]
  2. Kumar Sah R, Garg S, Dangi P, Kalaiarasan P, Singh S: Phosphatidic acid homeostasis regulated by a type-2 phosphatidic acid phosphatase represents a novel druggable target in malaria intervention. Cell Death Discov 5:107. [Impact Factor: 4.1]
  3. Singh SK, Yende AS, Kalaiarasan P, Tyagi RK: A comprehensive evaluation of anti-diabetic drugs on nuclear receptor PXR platform. Toxicol In Vitro 60:347-58. [Impact Factor: 3.6]
  4. Gnanasekaran P, Kalaiarasan P, Chakraborty S: A gemini virus betasatellite encoded betaC1 protein interacts with PsbP and subverts PsbP-mediated antiviral defence in plants. Mol Plant Pathol 20:943-60. [Impact Factor: 4.3]
  5. Naseem A, Bhat ZI, Kalaiarasan P, Kumar B, Bin Hafeez Z, Tiwari RR, et al: Assessment of epigenetic alterations and in silico analysis of mutation affecting PTEN expression among Indian cervical cancer patients. J Cell Biochem 120:15851-66. [Impact Factor: 4.1]
  6. Manvati S, Mangalhara KC, Kalaiarasan P, Chopra R, Agarwal G, Kumar R, et al: miR-145 supports cancer cell survival and shows association with DDR genes, methylation pattern, and epithelial to mesenchymal transition. Cancer Cell Int 19:230. [Impact Factor: 4.1]

 2018

  1. Saini SK, Kalaiarasan P*, Singh RK, Manvati S, Bamezai RNK. MicroRNA (hsa-miR-19b-2-5p) targets key mitochondrial biogenesis genes-a bioinformatics analysis. Mitochondrion 43:30-6. [Impact Factor: 3.9]
  2. Biswas A, Dhar PK, Kaushal G, Usha Kumari, Kalaiarasan P*: The Stochastic human red blood cell model and its applications. Research Reports
  3. Rana M, Dash A.K, Kalaiarasan P, Tyagi R.K: Nuclear localization signal region in nuclear receptor PXR governs the receptor association with mitotic chromatin. Chromosome Research 26(4):255-276. [Impact Factor: 3.4]
  4. Kashif M, Tabrez S, Husein A, Arish M, Kalaiarasan P, Manna PP, Subbarao N, Akhter Y, Rub A: Identification of novel inhibitors against UDP-galactopyranose mutase to combat leishmaniasis. J Cell Biochem 119(3):2653-2665. [Impact Factor: 4.2]

2017

  1. Aggarwal S, Nayek A, Pradhan D, Verma R, Yadav M, Kalaiarasan P, Jain AK: dbGAPs: A comprehensive database of genes and genetic markers associated with psoriasis and its subtypes. Genomics 110(4):240-247. [Impact Factor: 6.2]
  2. Chandra Mangalhara K, Manvati S, Saini SK, Kalaiarasan P, Agarwal G, Abraham SK, Bamezai RN: ERK2- ZEB1-miR-101-1axis contributes to epithelial-mesenchymal transition and cell migration in cancer. Cancer letters 391:59-73. [Impact Factor: 7.4]
  3. Singh RK, Saini S, Verma D, Kalaiarasan P, Bamezai RNK: Mitochondrial ND5 mutation mediated elevated ROS regulates apoptotic pathway epigenetically in a P53 dependent manner for generating pro-cancerous phenotypes. Mitochondrion 35:35-43. [Impact Factor: 3.9]
  4. Naseem A, Bhat ZI, Kalaiarasan P, Kumar B, Gandhi G, Rizvi MMA: Genetic and epigenetic alterations affecting PARK-2 expression in cervical neoplasm among North Indian patients. Tumour biology 39(6):1010428317703635. [Impact Factor: 3.6]
  5. Kumar R, Verma H, Haider S, Bajaj A, Sood U, Kalaiarasan P, Nagar S, Shakarad MN, Negi RK, Singh Y et al: Comparative Genomic Analysis Reveals Habitat-Specific Genes and Regulatory Hubs within the Genus Novosphingobium. mSystems 2(3). [Impact Factor: 6.3]

 2016

  1. Nafis S, Kalaiarasan P*, Husain M, Singh RK, Bamezai RN: Identification of key regulators and their controlling mechanism in a combinatorial apoptosis network: a systems biology approach. Molecular bioSystems12(11):3357-3369. [Impact Factor: 3.2]
  2. Abdelhameed AS, Ajmal MR, Kalaiarasan P, Subbarao N, Khan RH: Interaction of the recently approved anticancer drug nintedanib with human acute phase reactant α 1-acid glycoprotein. Journal of Molecular Structure 1115:171-179. [Impact Factor: 2.0]
  3. Sudhakar DR, Kalaiarasan P, Subbarao N: Docking and molecular dynamics simulation study of EGFR1 with EGF-like peptides to understand molecular interactions. Molecular BioSystems. [Impact Factor: 3.2]
  4. Vijayan R, Elavarasi P, Kalaiarasan P, Subbarao N, Manoharan N: Pharmacophore based Virtual Screening for Identification of Marine Bioactive Compounds as Inhibitors against Macrophage infectivity potentiator (Mip) protein of Chlamydia trachomatis. RSC Advances 6:18946- 18957. [Impact Factor: 3.0]
  5. Ali S, Nafis S, Kalaiarasan P, Rai E, Sharma S, Bamezai R: Understanding Genetic Heterogeneity in Type 2 Diabetes by Delineating Physiological Phenotypes: SIRT1 and its Gene Network in Impaired Insulin Secretion. The review of diabetic studies: RDS 13(1):17. [Impact Factor: 3.8]

 2015

  1. Manvati S, Mangalhara KC, Kalaiarasan P, Srivastava N, Bamezai RN: miR-24-2 regulates genes in survival pathway and demonstrates potential in reducing cellular viability in combination with docetaxel. Gene 567(2):217-224. [Impact Factor: 2.9]
  2. Kalaiarasan P*, Kumar B, Chopra R, Gupta V, Subbarao N, Bamezai RN: In silico screening, genotyping, molecular dynamics simulation and activity studies of SNPs in pyruvate kinase M2. PLoS One 10(3): e0120469. [Impact Factor: 3.8]
  3. Chaturvedi SK, Alam P, Khan JM, Siddiqui MK, Kalaiarasan P, Subbarao N, Ahmad Z, Khan RH: Biophysical insight into the anti-amyloidogenic behavior of taurine. Int J Biol Macromol 80:375-384. [Impact Factor: 5.1]

2014

  1. Singh RK, Srivastava A, Kalaiarasan P, Manvati S, Chopra R, Bamezai RN: mtDNA germ line variation mediated ROS generates retrograde signaling and induces pro-cancerous metabolic features. Sci Rep 4:6571. [Impact Factor: 4.7]
  2. Manvati S, Mangalhara KC, Kalaiarasan P, Srivastava N, Kumar B, Bamezai RN: MiR-101 induces senescence and prevents apoptosis in the background of DNA damage in MCF7 cells. PLoS One  9 (10): e111177. [Impact Factor: 3.8]
  3. Kalaiarasan P*, Subbarao N, Bamezai RN: Molecular simulation of Tyr105 phosphorylated pyruvate kinase M2 to understand its structure and dynamics. J Mol Model 20(9):2447. [Impact Factor: 1.3]
  4. Chopra R, Kalaiarasan P, Ali S, Srivastava AK, Aggarwal S, Garg VK, Bhattacharya SN, Bamezai RN: PARK2 and proinflammatory/anti-inflammatory cytokine gene interactions contribute to the susceptibility to leprosy: a case-control study of North Indian population. BMJ Open 4(2): e004239. [Impact Factor: 2.5]
  5. Danishuddin M, Khan A, Faheem M, Kalaiarasan P, Hassan Baig M, Subbarao N, Khan AU: Structure- based screening of inhibitors against KPC-2: designing potential drug candidates against multidrug- resistant bacteria. J Biomol Struct Dyn 32(5):741-750. [Impact Factor: 4.9]
  6. Baig MH, Sudhakar DR, Kalaiarasan P, Subbarao N, Wadhawa G, Lohani M, Khan MK, Khan AU: Insight into the effect of inhibitor resistant S130G mutant on physico-chemical properties of SHV type beta- lactamase: a molecular dynamics study. PLoS One 9(12): e112456. [Impact Factor: 3.8]

 2013

  1. Chopra R, Ali S, Srivastava AK, Aggarwal S, Kumar B, Manvati S, Kalaiarasan P, Jena M, Garg VK, Bhattacharya SN et al.: Mapping of PARK2 and PACRG over lapping regulatory region reveals LD structure and functional variants in association with leprosy in unrelated Indian population groups. PLoS Genet 9(7): e1003578. [Impact Factor: 7.2]

2012

  1. Ali S, Chopra R, Aggarwal S, Srivastava AK, Kalaiarasan P, Malhotra D, Gochhait S, Garg VK, Bhattacharya SN, Bamezai RN: Association of variants in BAT1-LTA-TNF-BTNL2 genes within 6p21.3 region show graded risk to leprosy in unrelated cohorts of Indian population. Hum Genet 131(5):703-716. [Impact Factor: 5.7]
  2. Srivastava N, Manvati S, Srivastava A, Pal R, Kalaiarasan P, Chattopadhyay S, Gochhait S, Dua R, Bamezai RN: miR-24-2 controls H2AFX expression regardless of gene copy number alteration and induces apoptosis by targeting antiapoptotic gene BCL-2: a potential for therapeutic intervention. Breast Cancer Res 13(2): R39. [Impact Factor: 6.0]
  3. Aggarwal S, Ali S, Chopra R, Srivastava A, Kalaiarasan P, Malhotra D, Gochhait S, Garg VK, Bhattacharya SN, Bamezai RN: Genetic variations and interactions in anti-inflammatory cytokine pathway genes in the outcome of leprosy: a study conducted on a MassARRAY platform. J Infect Dis 204(8):1264-1273. [Impact Factor: 5.1]
  4. Gupta V, Kalaiarasan P, Faheem M, Singh N, Iqbal MA, Bamezai RN: Dominant negative mutations affect oligomerization of human pyruvate kinase M2 isozyme and promote cellular growth and polyploidy. J Bio Chem 2010, 285 (22): 16864-16873. [Impact Factor: 4.2]

 eLetters

  1. S Sharma, I Singh, S Haider, MZ Malik, Kalaiarasan P, E Rai. RE: ACE2 Homodimerization Affects Binding of SARS-CoV-2 Spike Protein. Science (2021).
  2. Srivastava N, Gochhait S, Kalaiarasan P, Bamezai RNK: H2AFX (H2A histone family, member X). Atlas of Genetics and Cytogenetics 14(2). (2010).
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Citations: 3721 h-index: 25 i10-index: 48

Peer-reviewed articles in international journals

Articles in top journals including Science, Nature, Briefings in Bioinformatics, Nucleic Acids Research, PLoS Genetics, Journal of Infectious Diseases, Journal of Biological Chemistry, Human Genetics, mSystems, and Cancer Letters, among others.

Systems Biology, Networks & Comparative Genomics

  • Kumar R, Mahmoud MM, Tashkandi HM, Haque S, Harakeh S, Kalaiarasan P*, Haider S. Combinatorial Network of Transcriptional and miRNA Regulation in Colorectal Cancer. International Journal of Molecular Sciences, 2023; 24. (Corresponding author) [IF-6.2]
  • Nagar S, Talwar C, Haider S, Puri A, Kalaiarasan P, Gupta M, Sood U, Bajaj A, Lal R, Kumar R. Phylogenetic Relationships and Potential Functional Attributes of the Genus Parapedobacter: A Member of Family Sphingobacteriaceae. Frontiers in Microbiology, 2020; 11:1725. [IF-4.2]
  • Haider S, Kalaiarasan P*, Singh RKB, Chakraborti A, Bamezai RNK. Hamiltonian Energy as an Efficient Approach to Identify the Significant Key Regulators in Biological Networks. PLoS One, 2019; 14:e0221463. (First author) [IF-3.8]
  • Saini SK, Kalaiarasan P*, Singh RK, Manvati S, Bamezai RNK. MicroRNA (hsa-miR-19b2-5p) Targets Key Mitochondrial Biogenesis Genes - A Bioinformatics Analysis. Mitochondrion, 2018; 43:30-36. (First author) [IF-3.9]
  • Biswas A, Dhar PK, Kaushal G, Kumari U, Kalaiarasan P*. The Stochastic Human Red Blood Cell Model and Its Applications. Research Reports, 2018; 2. (Corresponding author)
  • Kumar R, Verma H, Haider S, Bajaj A, Sood U, Kalaiarasan P, Nagar S, Shakarad MN, Negi RK, Singh Y, et al. Comparative Genomic Analysis Reveals Habitat-Specific Genes and Regulatory Hubs within the Genus Novosphingobium. mSystems, 2017; 2(3). [IF-6.3]
  • Nafis S, Kalaiarasan P*, Husain M, Singh RK, Bamezai RN. Identification of Key Regulators and Their Controlling Mechanism in a Combinatorial Apoptosis Network: A Systems Biology Approach. Molecular BioSystems, 2016; 12(11):3357-3369. (First author) [IF-3.2]
  • Nafis S, Kalaiarasan P*, Brojen Singh RK, Husain M, Bamezai RN. Apoptosis Regulatory Protein-Protein Interaction Demonstrates Hierarchical Scale-Free Fractal Network. Briefings in Bioinformatics, 2015; 16(4):675-699. (First author) [IF-8.9]

Computational Drug Discovery, SNP Analysis & Molecular Simulation

  • Sathish S, Ponnusamy K, Madhavan T. Computational Identification of Potential JAK1 Inhibitors Targeting Breast Cancer: Leveraging the SANC Database for Drug Discovery. Journal of Pharmaceutical Innovation, 2026; 21(4):404.
  • Kumar R, Haque S, Ponnusamy K, Haider S. Characterization of nsSNPs in CDC5L and Their Potential Inhibitor: An In Silico Approach. ChemistrySelect, 2026; 11(23):e07277.
  • Ramanathan G, Dhanasekaran S, Ponnusamy K. Exploring Brassica oleracea var. Botrytis Leaf Compounds for Diabetes Treatment: A Docking and Molecular Dynamics Study. ChemistrySelect, 2026; 11(5):e05743.
  • Kumar R, Madhavan T, Kalaiarasan P, Sohn H, Haider S. Computational Study of the Motor Neuron Protein KIF5A to Identify nsSNPs, Bioactive Compounds, and Its Key Regulators. Frontiers in Genetics, 2023; 14:1282234. [IF-3.7]
  • Kashyap J, Kumari N, Kalaiarasan P, Tyagi RK. Hereditary Vitamin D-Resistant Rickets (HVDRR) Associated SNP Variants of Vitamin D Receptor Exhibit Malfunctioning at Multiple Levels. Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms, 2023; 1866(1):194891. [IF-6.3]
  • Kumar R, Malik Z, Singh M, Rachna, Mani S, Kalaiarasan P*,  Haider S. Amyotrophic Lateral Sclerosis Risk Genes and Suppressor. Current Gene Therapy, 2023; 23:1-1. (Corresponding author) [IF-4.7]
  • Jha P, Singh P, Arora S, Sultan A, Nayek A, Kalaiarasan P, Syed MA, Dohare R, Chopra M. Integrative Multiomics and In Silico Analysis Revealed the Role of ARHGEF1 and Its Screened Antagonist in Mild and Severe COVID-19 Patients. Journal of Cellular Biochemistry, 2022. [IF-4.5]
  • Singh SK, Yende AS, Kalaiarasan P, Tyagi RK. A Comprehensive Evaluation of Anti-Diabetic Drugs on Nuclear Receptor PXR Platform. Toxicology In Vitro, 2019; 60:347-358. [IF-3.6]
  • Rana M, Dash AK, Kalaiarasan P, Tyagi RK. Nuclear Localization Signal Region in Nuclear Receptor PXR Governs the Receptor Association with Mitotic Chromatin. Chromosome Research, 2018; 26(4):255-276. [IF-3.4]
  • Kashif M, Tabrez S, Husein A, Arish M, Kalaiarasan P, Manna PP, Subbarao N, Akhter Y, Rub A. Identification of Novel Inhibitors against UDP-Galactopyranose Mutase to Combat Leishmaniasis. Journal of Cellular Biochemistry, 2018; 119(3):2653-2665. [IF-4.2]
  • Abdelhameed AS, Ajmal MR, Kalaiarasan P, Subbarao N, Khan RH. Interaction of the Recently Approved Anticancer Drug Nintedanib with Human Acute Phase Reactant α1-Acid Glycoprotein. Journal of Molecular Structure, 2016; 1115:171-179. [IF-2.0]
  • Sudhakar DR, Kalaiarasan P, Subbarao N. Docking and Molecular Dynamics Simulation Study of EGFR1 with EGF-Like Peptides to Understand Molecular Interactions. Molecular BioSystems, 2016. [IF-3.2]
  • Vijayan R, Elavarasi P, Kalaiarasan P, Subbarao N, Manoharan N. Pharmacophore Based Virtual Screening for Identification of Marine Bioactive Compounds as Inhibitors against Macrophage Infectivity Potentiator (Mip) Protein of Chlamydia trachomatis. RSC Advances, 2016; 6:18946-18957. [IF-3.0]
  • Kalaiarasan P*, Kumar B, Chopra R, Gupta V, Subbarao N, Bamezai RN. In Silico Screening, Genotyping, Molecular Dynamics Simulation and Activity Studies of SNPs in Pyruvate Kinase M2. PLoS One, 2015; 10(3):e0120469. (First author) [IF-3.8]
  • Chaturvedi SK, Alam P, Khan JM, Siddiqui MK, Kalaiarasan P, Subbarao N, Ahmad Z, Khan RH. Biophysical Insight into the Anti-Amyloidogenic Behavior of Taurine. International Journal of Biological Macromolecules, 2015; 80:375-384. [IF-5.1]
  • Kalaiarasan P*, Subbarao N, Bamezai RN. Molecular Simulation of Tyr105 Phosphorylated Pyruvate Kinase M2 to Understand Its Structure and Dynamics. Journal of Molecular Modeling, 2014; 20(9):2447. (First author) [IF-1.3]
  • Danishuddin M, Khan A, Faheem M, Kalaiarasan P, Hassan Baig M, Subbarao N, Khan AU. Structure-Based Screening of Inhibitors against KPC-2: Designing Potential Drug Candidates against Multidrug-Resistant Bacteria. Journal of Biomolecular Structure and Dynamics, 2014; 32(5):741-750. [IF-4.9]
  • Baig MH, Sudhakar DR, Kalaiarasan P, Subbarao N, Wadhawa G, Lohani M, Khan MK, Khan AU. Insight into the Effect of Inhibitor Resistant S130G Mutant on Physico-Chemical Properties of SHV Type Beta-Lactamase: A Molecular Dynamics Study. PLoS One, 2014; 9(12):e112456. [IF-3.8]
  • Gupta V, Kalaiarasan P, Faheem M, Singh N, Iqbal MA, Bamezai RN. Dominant Negative Mutations Affect Oligomerization of Human Pyruvate Kinase M2 Isozyme and Promote Cellular Growth and Polyploidy. Journal of Biological Chemistry, 2010; 285(22):16864-16873. [IF-4.2]

SARS-CoV-2, Infectious Disease & Microbial Genomics

  • Yadav A, Shinde PB, Dhar MS, Kalaiarasan P, Marwal R, Vs R, Kedia S, Ahuja V, Sharma KK. Draft Genome Sequences of Multi-Drug-Resistant Escherichia coli Strains Isolated from Ulcerative Colitis Patients. Microbiology Resource Announcements, 2024; e0071924.
  • Yadav A, Shinde PB, Mohan H, Dhar MS, Kalaiarasan P, Marwal R, Radhakrishnan VS, Goyal S, Kedia S, Ahuja V, et al. Gut Colonization with Antibiotic-Resistant Escherichia coli Pathobionts Leads to Disease Severity in Ulcerative Colitis. International Journal of Antimicrobial Agents, 2024; 64(4):107289. [IF-4.9]
  • Ghosh A, Kanta P, Ramola M, Mohindra R, Goyal K, Kishore R, Suri V, Lakshmi PVM, Chauhan C, Sharma M, Rakshit P, Kalaiarasan P, Dikid T, Singh MP. Rapid Decline of SARS-CoV-2 Viral Load in Single vs. Double-Dose (Short-Interval <6 Weeks) ChAdOx nCoV-19 Vaccinated Health-Care Workers. Current Microbiology, 2024; 81(4):95. [IF-2.6]
  • Yadav A, Shinde PB, Dhar MS, Kalaiarasan P, Marwal R, Radhakrishnan VS, Sharma KK. Draft Genome Sequence of Kluyvera ascorbata HAK22 Isolated from Human Feces. Microbiology Resource Announcements, 2024; 13(1):e0089023.
  • Shikha S, Jogi MK, Jha R, Kumar RA, Sah T, Singh P, Sagar R, Kumar A, Marwal R, Kalaiarasan P, et al. Genome Sequencing of SARS-CoV-2 Omicron Variants in Delhi Reveals Alterations in Immunogenic Regions in Spike Glycoprotein. Frontiers in Immunology, 2023; 14:1209513. [IF-7.3]
  • Khan MJ, Singh P, Jha P, Nayek A, Malik MZ, Bagler G, Kumar B, Kalaiarasan P, Ali S, Chopra M, et al. Investigating the Link between miR-34a-5p and TLR6 Signaling in Sepsis-Induced ARDS. 3 Biotech, 2023; 13(8):282. [IF-2.8]
  • Kumar R, Nagar S, Haider S, Sood U, Kalaiarasan P, Dhingra GG, Anand S, Dua A, Singh M, Kumar R, et al. Monkeypox Virus: Phylogenomics, Host-Pathogen Interactome and Mutational Cascade. Microbial Genomics, 2023; 9(4). [IF-5.2]
  • Pathak AK, Mishra GP, Uppili B, Walia S, Fatihi S, Abbas T, Banu S, Ghosh A, Kanampalliwar A, Jha A, Fatma S, Aggarwal S, Dhar MS, Marwal R, Radhakrishnan VS, Kalaiarasan P, Kabra S, Rakshit P, Bhoyar RC, Jain A, Divakar MK, Imran M, Faruq M, Sowpati DT, Thukral L, Raghav SK, Mukerji M. Spatio-Temporal Dynamics of Intra-Host Variability in SARS-CoV-2 Genomes. Nucleic Acids Research, 2022; gkab1297. [IF-19.2]
  • Kemp SA, Cheng MTK, Hamilton WL, Kamelian K, Indian SARS-CoV-2 Genomics Consortium (Kalaiarasan P), Singh S, Rakshit P, Agrawal A, Illingworth CJR, Gupta RK. Transmission of B.1.617.2 Delta Variant between Vaccinated Healthcare Workers. Scientific Reports, 2022; 12(1):10492. [IF-4.6]
  • M.S. Dhar, R. Marwal, V.S. Radhakrishnan, Kalaiarasan P*, B. Jolly, R.C. Bhoyar, V. Sardana, S. Naushin, M. Rophina, T.A. Mellan, S. Mishra, C. Whittaker, S. Fatihi, M. Datta, P. Singh, U. Sharma, R. Ujjainiya, N. Bhateja, M.K. Divakar, M.K. Singh, M. Imran, V. Senthivel, R. Maurya, N. Jha, P. Mehta, A. Vivekanand, P. Sharma, V.R. Arvinden, U. Chaudhary, L. Thukral, S. Flaxman, S. Bhatt, R. Pandey, D. Dash, M. Faruq, H. Lall, H. Gogia, P. Madan, S. Kulkarni, H. Chauhan, S. Sengupta, S. Kabra, S.-C.-G.C. The Indian, R.K. Gupta, S.K. Singh, A. Agrawal, P. Rakshit. Genomic Characterization and Epidemiology of an Emerging SARS-CoV-2 Variant in Delhi, India. Science, 2021; 374(6570):995-999. (First author) [IF-63.7]
  • Mlcochova P, Kemp SA, Dhar MS, Papa G, Meng B, Ferreira IATM, Datir R, Collier DA, Albecka A, Singh S, Pandey R, Brown J, Zhou J, Goonawardane N, Mishra S, Whittaker C, Mellan T, Marwal R, Datta M, Sengupta S, Kalaiarasan P, Radhakrishnan VS, Abdullahi A, Charles O, Chattopadhyay P, Devi P, Caputo D, Peacock T, Wattal C, Goel N, Satwik A, Vaishya R, Agarwal M, Indian SARS-CoV-2 Genomics Consortium, Genotype to Phenotype Japan Consortium, CITIID-NIHR BioResource COVID-19 Collaboration, Mavousian A, Lee JH, Bassi J, Silacci-Fegni C, Saliba C, Pinto D, Irie T, Yoshida I, Hamilton WL, Sato K, Bhatt S, Flaxman S, James LC, Corti D, Piccoli L, Barclay WS, Rakshit P, Agrawal A, Gupta RK. SARS-CoV-2 B.1.617.2 Delta Variant Replication and Immune Evasion. Nature, 2021; 599(7883):114-119. [IF-69.5]
  • Gupta V, Haider S, Verma M, Sinhvi N, Kalaiarasan P, Malik Md, Verma H, Kumar R, Sood U, Hira P, Satija S, Singh Y, Lal R. Comparative Genomics and Integrated Network Approach Unveiled Undirected Phylogeny Patterns, Co-mutational Hotspots, Functional Crosstalk and Regulatory Interactions in SARS-CoV-2. mSystems, 2021; 6(1). [IF-6.3]

Cancer Biology, Epigenetics & Therapeutics

  • Kulkarni MP, Singh M, Haider S, Ponnusamy K, De Rubis G, Panth N, et al. Quercetin Nanoemulsion Ameliorates Key Hallmarks of Lung Cancer. Journal of Drug Delivery Science and Technology, 2026; 108182.
  • Bhat ZI, Naseem A, Kumar B, Kalaiarasan P, Tiwari RR, Sharma GD, Rizvi MMA. Association of PARK2 Non-Synonymous Polymorphisms and Their In Silico Validation among North Indian Colorectal Cancer Patients. Journal of Gastrointestinal Cancer, 2022; 53(3):674-682. [IF-1.6]
  • Naseem A, Bhat ZI, Kalaiarasan P, Kumar B, Bin Hafeez Z, Tiwari RR, et al. Assessment of Epigenetic Alterations and In Silico Analysis of Mutation Affecting PTEN Expression among Indian Cervical Cancer Patients. Journal of Cellular Biochemistry, 2019; 120:15851-15866. [IF-4.1]
  • Manvati S, Mangalhara KC, Kalaiarasan P, Chopra R, Agarwal G, Kumar R, et al. miR-145 Supports Cancer Cell Survival and Shows Association with DDR Genes, Methylation Pattern, and Epithelial to Mesenchymal Transition. Cancer Cell International, 2019; 19:230. [IF-4.1]
  • Chandra Mangalhara K, Manvati S, Saini SK, Kalaiarasan P, Agarwal G, Abraham SK, Bamezai RN. ERK2-ZEB1-miR-101-1 Axis Contributes to Epithelial-Mesenchymal Transition and Cell Migration in Cancer. Cancer Letters, 2017; 391:59-73. [IF-7.4]
  • Singh RK, Saini S, Verma D, Kalaiarasan P, Bamezai RNK. Mitochondrial ND5 Mutation Mediated Elevated ROS Regulates Apoptotic Pathway Epigenetically in a P53 Dependent Manner for Generating Pro-Cancerous Phenotypes. Mitochondrion, 2017; 35:35-43. [IF-3.9]
  • Naseem A, Bhat ZI, Kalaiarasan P, Kumar B, Gandhi G, Rizvi MMA. Genetic and Epigenetic Alterations Affecting PARK-2 Expression in Cervical Neoplasm among North Indian Patients. Tumour Biology, 2017; 39(6):1010428317703635. [IF-3.6]
  • Manvati S, Mangalhara KC, Kalaiarasan P, Srivastava N, Bamezai RN. miR-24-2 Regulates Genes in Survival Pathway and Demonstrates Potential in Reducing Cellular Viability in Combination with Docetaxel. Gene, 2015; 567(2):217-224. [IF-2.9]
  • Singh RK, Srivastava A, Kalaiarasan P, Manvati S, Chopra R, Bamezai RN. mtDNA Germ Line Variation Mediated ROS Generates Retrograde Signaling and Induces Pro-Cancerous Metabolic Features. Scientific Reports, 2014; 4:6571. [IF-4.7]
  • Manvati S, Mangalhara KC, Kalaiarasan P, Srivastava N, Kumar B, Bamezai RN. MiR-101 Induces Senescence and Prevents Apoptosis in the Background of DNA Damage in MCF7 Cells. PLoS One, 2014; 9(10):e111177. [IF-3.8]
  • Srivastava N, Manvati S, Srivastava A, Pal R, Kalaiarasan P, Chattopadhyay S, Gochhait S, Dua R, Bamezai RN. miR-24-2 Controls H2AFX Expression Regardless of Gene Copy Number Alteration and Induces Apoptosis by Targeting Antiapoptotic Gene BCL-2: A Potential for Therapeutic Intervention. Breast Cancer Research, 2011; 13(2):R39. [IF-6.0]

Human Genetics, Plant Virology & Other Biomedical Studies

  • Ojha AK, Ponnusamy K. The Intersection of Traditional Medicine and Wetland Conservation: An Ethnobotanical Study of Surha Tal (Uttar Pradesh, India). 2025.
  • Gnanasekaran P, Gupta N, Kalaiarasan P, Devendran R, George B, Chakraborty S. Betasatellite-Encoded betaC1 Protein Regulates Helper Virus Accumulation by Interfering with the ATP Hydrolysis Activity of Geminivirus-Encoded Replication Initiator Protein. Journal of General Virology, 2023; 104(6). [IF-5.1]
  • Chakrabarti A, Kaushik M, Khan J, Soota D, Kalaiarasan P, Saini S, Manvati S, Singhal J, Ranganathan A, Pati S, et al. tREPs─A New Class of Functional tRNA-Encoded Peptides. ACS Omega, 2022; 7(22):18361-18373. [IF-4.1]
  • Gnanasekaran P, Gupta N, Kalaiarasan P, Chakraborty S. Geminivirus Betasatellite-Encoded βC1 Protein Exhibits Novel ATP Hydrolysis Activity That Influences Its DNA-Binding Activity and Viral Pathogenesis. Journal of Virology, 2021; 95(17):e0047521. [IF-4.5]
  • Kumar Sah R, Garg S, Dangi P, Kalaiarasan P, Singh S. Phosphatidic Acid Homeostasis Regulated by a Type-2 Phosphatidic Acid Phosphatase Represents a Novel Druggable Target in Malaria Intervention. Cell Death Discovery, 2019; 5:107. [IF-4.1]
  • Gnanasekaran P, Kalaiarasan P, Chakraborty S. A Geminivirus Betasatellite Encoded betaC1 Protein Interacts with PsbP and Subverts PsbP-Mediated Antiviral Defence in Plants. Molecular Plant Pathology, 2019; 20:943-960. [IF-4.3]
  • Aggarwal S, Nayek A, Pradhan D, Verma R, Yadav M, Kalaiarasan P, Jain AK. dbGAPs: A Comprehensive Database of Genes and Genetic Markers Associated with Psoriasis and Its Subtypes. Genomics, 2017; 110(4):240-247. [IF-6.2]
  • Ali S, Nafis S, Kalaiarasan P, Rai E, Sharma S, Bamezai R. Understanding Genetic Heterogeneity in Type 2 Diabetes by Delineating Physiological Phenotypes: SIRT1 and Its Gene Network in Impaired Insulin Secretion. The Review of Diabetic Studies, 2016; 13(1):17. [IF-3.8]
  • Chopra R, Kalaiarasan P, Ali S, Srivastava AK, Aggarwal S, Garg VK, Bhattacharya SN, Bamezai RN. PARK2 and Proinflammatory/Anti-Inflammatory Cytokine Gene Interactions Contribute to the Susceptibility to Leprosy: A Case-Control Study of North Indian Population. BMJ Open, 2014; 4(2):e004239. [IF-2.5]
  • Chopra R, Ali S, Srivastava AK, Aggarwal S, Kumar B, Manvati S, Kalaiarasan P, Jena M, Garg VK, Bhattacharya SN, et al. Mapping of PARK2 and PACRG Overlapping Regulatory Region Reveals LD Structure and Functional Variants in Association with Leprosy in Unrelated Indian Population Groups. PLoS Genetics, 2013; 9(7):e1003578. [IF-7.2]
  • Ali S, Chopra R, Aggarwal S, Srivastava AK, Kalaiarasan P, Malhotra D, Gochhait S, Garg VK, Bhattacharya SN, Bamezai RN. Association of Variants in BAT1-LTA-TNF-BTNL2 Genes within 6p21.3 Region Show Graded Risk to Leprosy in Unrelated Cohorts of Indian Population. Human Genetics, 2012; 131(5):703-716. [IF-5.7]
  • Aggarwal S, Ali S, Chopra R, Srivastava A, Kalaiarasan P, Malhotra D, Gochhait S, Garg VK, Bhattacharya SN, Bamezai RN. Genetic Variations and Interactions in Anti-Inflammatory Cytokine Pathway Genes in the Outcome of Leprosy: A Study Conducted on a MassARRAY Platform. Journal of Infectious Diseases, 2011; 204(8):1264-1273. [IF-5.1]

eLetters

  • S Sharma, I Singh, S Haider, MZ Malik, Kalaiarasan P, E Rai. RE: ACE2 Homodimerization Affects Binding of SARS-CoV-2 Spike Protein. Science eLetters, 2021.
  • Srivastava N, Gochhait S, Kalaiarasan P, Bamezai RNK. H2AFX (H2A Histone Family, Member X). Atlas of Genetics and Cytogenetics, 2010; 14(2).

Books

  • Shazia Haider, Kalaiarasan Ponnusamy. Computational Systems Biology – A Beginner's Guide. Eliva Press, 2024. ISBN: 99931578X, 9789999315784.
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  • Ranked among the World's Top 5% Scientists by SciRank Global (Global Rank: 746,940), 2026
  • Invited Speaker and Resource Person for National Workshops and Training Programs (GIMS Noida, KIIT-TBI, ICMR-NICPR), 2026
  • Expert Nominee for Whole Genome Sequencing Data Analysis, NCDC, Ministry of Health & Family Welfare, Government of India, 2025-Present
  • National Advisory Committee Member, Association of Microbiologists of India (AMI), 2025
  • Led the sequencing and analysis of over 40,000 SARS-CoV-2 genomes under INSACOG, representing the largest individual contribution to SARS-CoV-2 genomic surveillance in India, 2021–2024
  • Author of the textbook Computational Systems Biology – A Beginner's Guide, 2024
  • Supported the National Program for Surveillance of Viral Hepatitis, Government of India, 2023
  • Played a key role in the identification, genomic characterization, and tracking of the Delta and Omicron SARS-CoV-2 variants in India, 2021–2023
  • Outstanding COVID-19 Pandemic Service Award, NCDC, Ministry of Health & Family Welfare, Government of India, 2021
  • Best Young Scientist Award, INSCR, 2017
  • International Cytoscape Competition Winner, University of California, San Diego, USA, 2015
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  • Award for Outstanding Work in COVID-19 Response (2021) – Received recognition from the Director, National Centre for Disease Control (NCDC), Ministry of Health & Family Welfare, Government of India, for outstanding contribution to COVID-19-related work.
  • Best Young Scientist Award (2017) – Received the Best Young Scientist Award at the INSCR International Conference, New Delhi.
  • Best Example of Using Cytoscape for Biology Award (2015) – Received a prize in the Cytoscape competition organized by the University of California, San Diego (UCSD).
  • SARS-CoV-2 Genomic Surveillance – Contributed to the analysis of more than 35,000 Indian SARS-CoV-2 genomes as part of the Indian SARS-CoV-2 Genomics Consortium (INSACOG).
  • Contribution to SARS-CoV-2 Variant Identification – Contributed to the identification and genomic characterization of major SARS-CoV-2 variants in India, including the Delta and Omicron variants.
  • Research Publications – Contributed to research published in leading international journals including Science, Nature, Nucleic Acids Research, Briefings in Bioinformatics, and PLOS Genetics.
  • Genome Designer Platform – Contributed to the development of Genome Designer, described in the CV as the first-generation BioCAD platform for synthetic biology.
  • National Viral Hepatitis Programme – Contributed as a key contributor to the National Program for Surveillance of Viral Hepatitis Report 2023.
  • Research in Cancer and Molecular Biology – Contributed to studies involving PKM2 mutations, microRNA regulation, apoptosis, cancer biology, genetic variation, and biological network modelling.
  • Student Mentoring and Training – Guided/co-supervised Master’s and Bachelor’s students and delivered invited lectures and training programmes in bioinformatics, NGS, computational biology, and related areas.

PhD Scholars

  • Name: Aswini S S
    Email:as0292@srmist.edu.in
    Education:M.Sc. Bioinformatics
    Area of interest: Structural Bioinformatics, Systems and Synthetic Biology
  • Name: Jayasree K
    Email: jk8751@srmist.edu.in
    Education: M.Sc. Bioinformatics
    Area of interest: Structural Bioinformatics, Systems and Synthetic Biology
  • Name: Karan K
    Email:kk9149@srmist.edu.in
    Education: M.Sc. Biotechnology
    Area of interest: Molecular and Cancer biology

Availability: Available

Research Area: Bioinformatics, synthetic biology & infectious disease

Number of Positions: 1

Eligibility / Preferred Background: M.Sc. Bioinformatics / Life Sciences

Mode of Registration: Full-time