1. Abraham P, Cherian S, Potdar V. Genetic characterization of SARS-CoV-2 & implications for epidemiology, diagnostics & vaccines in India. Indian J Med Res. 2020 Aug;152(1 & 2):12–5.
2. Arankalle VA, Shrivastava S, Cherian S, Gunjikar RS, Walimbe AM, Jadhav SM, et al. Genetic divergence of Chikungunya viruses in India (1963-2006) with special reference to the 2005-2006 explosive epidemic. J Gen Virol. 2007 Jul;88(Pt 7):1967–76.
3. Behera AK, Basu S, Cherian SS. Molecular mechanism of the enhanced viral fitness contributed by secondary mutations in the hemagglutinin protein of oseltamivir resistant H1N1 influenza viruses: modeling studies of antibody and receptor binding. Gene. 2015 Feb 15;557(1):19–27.
4. Behera AK, Chandra I, Cherian SS. Molecular dynamics simulation of the effects of single (S221P) and double (S221P and K216E) mutations in the hemagglutinin protein of influenza A H5N1 virus: a study on host receptor specificity. J Biomol Struct Dyn. 2016 Sep;34(9):2054–67.
5. Bhoye D, Behera AK, Cherian SS. A molecular modelling approach to understand the effect of co-evolutionary mutations (V344M, I354L) identified in the PB2 subunit of influenza A 2009 pandemic H1N1 virus on m7GTP ligand binding. J Gen Virol. 2016 Aug;97(8):1785–96.
6. Bhoye D, Cherian SS. Computational analysis of the effect of polymerase acidic (PA) gene mutation F35L in the 2009 pandemic influenza A (H1N1) virus on binding aspects of mononucleotides in the endonuclease domain. Arch Virol. 2018 Apr;163(4):1031–6.
7. Buragohain M, Cherian SS, Prabhakar G, Chitambar SD. VP6 capsid protein of chicken rotavirus strain CH2: sequence, phylogeny and in silico antigenic analyses. Virus Res. 2008 Nov;137(2):173–8.
8. Chakrabarti AK, Pawar SD, Cherian SS, Koratkar SS, Jadhav SM, Pal B, et al. Characterization of the influenza A H5N1 viruses of the 2008-09 outbreaks in India reveals a third introduction and possible endemicity. PLoS One. 2009 Nov 16;4(11):e7846.
9. Cherian S, Potdar V, Jadhav S, Yadav P, Gupta N, Das M, et al. SARS-CoV-2 Spike Mutations, L452R, T478K, E484Q and P681R, in the Second Wave of COVID-19 in Maharashtra, India. Microorganisms. 2021 Jul 20;9(7):1542.
10. Cherian SS, Agrawal M, Basu A, Abraham P, Gangakhedkar RR, Bhargava B. Perspectives for repurposing drugs for the coronavirus disease 2019. Indian J Med Res. 2020 Mar;151(2 & 3):160–71.
11. Cherian SS, Gunjikar RS, Banerjee A, Kumar S, Arankalle VA. Whole genomes of Chandipura virus isolates and comparative analysis with other rhabdoviruses. PLoS One. 2012;7(1):e30315.
12. Cherian SS, Walimbe AM. Phylogeographic analysis of Japanese encephalitis virus in India (1956-2012). Arch Virol. 2015 Dec;160(12):3097–104.
13. Cherian SS, Walimbe AM, Moolpani K, Shirode A, Vaidya SR. Global spatiotemporal transmission dynamics of measles virus clade D genotypes in the context of the measles elimination goal 2020 in India. Infect Genet Evol. 2018 Dec;66:37–42.
14. Cherian SS, Walimbe AM, Jadhav SM, Gandhe SS, Hundekar SL, Mishra AC, et al. Evolutionary rates and timescale comparison of Chikungunya viruses inferred from the whole genome/E1 gene with special reference to the 2005-07 outbreak in the Indian subcontinent. Infect Genet Evol. 2009 Jan;9(1):16–23.
15. Cherian S, Shil P, Mishra AC. Antigen-Antibody docking reveals the molecular basis for cross-reactivity of the 1918 and 2009 Influenza A/H1N1 pandemic viruses. Bioinformation. 2011 Mar 2;6(1):35–8.
16. Choudhary ML, Vipat V, Jadhav S, Basu A, Cherian S, Abraham P, et al. Development of in vitro transcribed RNA as positive control for laboratory diagnosis of SARS-CoV-2 in India. Indian J Med Res. 2020 Mar;151(2 & 3):251–4.
17. Dhakane SF, Gaikwad J, Kalimullah M, ThomasB S, Vidyasagar PB. Investigations related to the effects of gibberellic acid in the presence of an insecticide and fungicide on the photosynthetic electron transport chain in grape leaves (Vitis vinifera L.). Recent Trends in Biotechnology. 2004;142.
18. Gaikwad J, Thomas S, Kamble S, Vidyasagar PB. The effect of 7 Li irradiation on the photosynthetic apparatus studied by thermoluminescence technique. In: National symposium on radiation and molecular biophysics: abstracts. 1998.
19. Gaikwad J, Thomas S, Kamble S, Vidyasagar PB, Sarma A. Effect of 7Li (45 MeV) ions on spinach leaves studied by thermoluminescence technique. Nuclear Instruments and Methods in Physics Research Section B: Beam Interactions with Materials and Atoms. 1999;156(1–4):231–5.
20. Gaikwad J, Thomas S, Aghav SD, Vidyasagar PB. A comparative study of the thermoluminescence glow curves recorded from varieties of Vitis vinifera, V. labrusca and V. champini. Vitis. 1998;37(1):11–4.
21. Gaikwad J, Thomas S, Aghav SD, Vidyasagar PB. A comparative study of the thermoluminescence glow curves recorded from varieties of Vitis vinifera, V. labrusca and V. champini. Vitis. 1998;37(1):11–4.
22. Gaikwad JU, Thomas S, Aghav SD, Vidyasagar PB. Damage Caused to the Photosynthetic Apparatus due to Uncontrolled Application of the Pesticide, Endosulfan: Thermoluminescence and Fluorescence Studies. In: Photosynthesis: Mechanisms and Effects. Springer; 1998. p. 3913–6.
23. Gaikwad JU, Thomas S, Aghav SD, Vidyasagar PB. Damage Caused to the Photosynthetic Apparatus due to Uncontrolled Application of the Pesticide, Endosulfan: Thermoluminescence and Fluorescence Studies. In: Photosynthesis: Mechanisms and Effects. Springer; 1998. p. 3913–6.
24. Gangwar RS, Shil P, Cherian SS, Gore MM. Delineation of an epitope on domain I of Japanese encephalitis virus Envelope glycoprotein using monoclonal antibodies. Virus Res. 2011 Jun;158(1–2):179–87.
25. Joshi MS, Cherian SS, Bhalla S, Chitambar SD. Longer duration of viremia and unique amino acid substitutions in a hepatitis A virus strain [corrected] associated with Guillain-Barré syndrome (GBS). J Med Virol. 2010 May;82(6):913–9.
26. Joshi MS, Walimbe AM, Dilpak SP, Cherian SS, Gopalkrishna V. Whole-genome-based characterization of three human Rotavirus C strains isolated from gastroenteritis outbreaks in Western India and a provisional intra-genotypic lineage classification system. J Gen Virol. 2019 Jul;100(7):1055–72.
27. Kalimullah M, Gaikwad JU, Thomas S, Sarma A, Vidyasagar PB. Assessment of 1H heavy ion irradiation induced effects in the development of rice (Oryza sativa L.) seedlings. Plant Science. 2003;165(3):447–54.
28. Kode SS, Pawar SD, Cherian SS, Tare DS, Bhoye D, Keng SS, et al. Selection of avian influenza A (H9N2) virus with reduced susceptibility to neuraminidase inhibitors oseltamivir and zanamivir. Virus Res. 2019 May;265:122–6.
29. Kulkarni R, Patel A, Bhalla S, Chhabra P, Cherian S, Chitambar SD. Characterization of GII.4 noroviruses circulating among children with acute gastroenteritis in Pune, India: 2005-2013. Infect Genet Evol. 2016 Jan;37:163–73.
30. Kumar SRP, Patil JA, Cecilia D, Cherian SS, Barde PV, Walimbe AM, et al. Evolution, dispersal and replacement of American genotype dengue type 2 viruses in India (1956-2005): selection pressure and molecular clock analyses. J Gen Virol. 2010 Mar;91(Pt 3):707–20.
31. Laxmivandana R, Cherian SS, Yergolkar P, Chitambar SD. Genomic characterization of coxsackievirus type B3 strains associated with acute flaccid paralysis in south-western India. J Gen Virol. 2016 Mar;97(3):694–705.
32. Mishra AC, Cherian SS, Chakrabarti AK, Pawar SD, Jadhav SM, Pal B, et al. A unique influenza A (H5N1) virus causing a focal poultry outbreak in 2007 in Manipur, India. Virol J. 2009 Feb 24;6:26.
33. Mullick J, Cherian SS, Potdar VA, Chadha MS, Mishra AC. Evolutionary dynamics of the influenza A pandemic (H1N1) 2009 virus with emphasis on Indian isolates: evidence for adaptive evolution in the HA gene. Infect Genet Evol. 2011 Jul;11(5):997–1005.
34. Newase P, More A, Patil J, Patil P, Jadhav S, Alagarasu K, et al. Chikungunya phylogeography reveals persistent global transmissions of the Indian Ocean Lineage from India in association with mutational fitness. Infect Genet Evol. 2020 Aug;82:104289.
35. Nyayanit DA, Yadav PD, Kharde R, Cherian S. Natural Selection Plays an Important Role in Shaping the Codon Usage of Structural Genes of the Viruses Belonging to the Coronaviridae Family. Viruses. 2020 Dec 22;13(1):E3.
36. Panda K, Alagarasu K, Cherian SS, Parashar D. Prediction of potential small interfering RNA molecules for silencing of the spike gene of SARS-CoV-2. Indian J Med Res. 2020 Dec 4;
37. Panda K, Alagarasu K, Cherian SS, Parashar D. Prediction of potential small interfering RNA molecules for silencing of the spike gene of SARS-CoV-2. Indian J Med Res. 2021 Feb;153(1 & 2):182–9.
38. Panda K, Alagarasu K, Patil P, Agrawal M, More A, Kumar NV, et al. In Vitro Antiviral Activity of α-Mangostin against Dengue Virus Serotype-2 (DENV-2). Molecules. 2021 May 19;26(10):3016.
39. Pandey SS, Cherian S, Thakar M, Paranjape RS. Short Communication: Phylogenetic and Molecular Characterization of Six Full-Length HIV-1 Genomes from India Reveals a Monophyletic Lineage of Indian Sub-Subtype A1. AIDS Res Hum Retroviruses. 2016 May;32(5):489–502.
40. Parashar D, Cherian S. Antiviral perspectives for chikungunya virus. Biomed Res Int. 2014;2014:631642.
41. Patil J, More A, Patil P, Jadhav S, Newase P, Agarwal M, et al. Genetic characterization of chikungunya viruses isolated during the 2015-2017 outbreaks in different states of India, based on their E1 and E2 genes. Arch Virol. 2018 Nov;163(11):3135–40.
42. Patil P, Agrawal M, Almelkar S, Jeengar MK, More A, Alagarasu K, et al. In vitro and in vivo studies reveal α-Mangostin, a xanthonoid from Garcinia mangostana, as a promising natural antiviral compound against chikungunya virus. Virol J. 2021 Feb 28;18(1):47.
43. Pawar S, Chakrabarti A, Cherian S, Pande S, Nanaware M, Raut S, et al. An avian influenza A(H11N1) virus from a wild aquatic bird revealing a unique Eurasian-American genetic reassortment. Virus Genes. 2010 Aug;41(1):14–22.
44. Potdar VA, Chadha MS, Jadhav SM, Mullick J, Cherian SS, Mishra AC. Genetic characterization of the influenza A pandemic (H1N1) 2009 virus isolates from India. PLoS One. 2010 Mar 15;5(3):e9693.
45. Potdar V, Cherian SS, Deshpande GR, Ullas PT, Yadav PD, Choudhary ML, et al. Genomic analysis of SARS-CoV-2 strains among Indians returning from Italy, Iran & China, & Italian tourists in India. Indian J Med Res. 2020 Mar;151(2 & 3):255–60.
46. Potdar V, Choudhary ML, Bhardwaj S, Ghuge R, Sugunan AP, Gurav Y, et al. Respiratory virus detection among the overseas returnees during the early phase of COVID-19 pandemic in India. Indian J Med Res. 2020 May;151(5):486–9.
47. Potdar V, Vipat V, Ramdasi A, Jadhav S, Pawar-Patil J, Walimbe A, et al. Phylogenetic classification of the whole-genome sequences of SARS-CoV-2 from India & evolutionary trends. Indian J Med Res. 2021 Feb;153(1 & 2):166–74.
48. Prasad S, Meena VK, Yadav PD, Sarkale P, Baradkar S, Cherian S, et al. Electron microscopy imaging of SARS-CoV-2 at different temperatures. Indian J Med Res. 2021 Jun 19;
49. Prasad S, Potdar V, Cherian S, Abraham P, Basu A, ICMR-NIV NIC Team. Transmission electron microscopy imaging of SARS-CoV-2. Indian J Med Res. 2020 Mar;151(2 & 3):241–3.
50. Ranshing SS, Cherian SS, Agarwal MS, Jagtap AS, Patil CM, Gopalkrishna V. Full genome based sequence and structural characterization of an unusual group A rotavirus G12P[11] isolated from neonates in Pune, western India. Vaccine. 2020 Feb 28;38(10):2275–91.
51. Ray K, Potdar VA, Cherian SS, Pawar SD, Jadhav SM, Waregaonkar SR, et al. Characterization of the complete genome of influenza A (H5N1) virus isolated during the 2006 outbreak in poultry in India. Virus Genes. 2008 Apr;36(2):345–53.
52. Sajjadi S, Shirode A, Vaidya SR, Cherian SS. Molecular mechanism by which residues at position 481 and 546 of measles virus hemagglutinin protein define CD46 receptor binding using a molecular docking approach. Comput Biol Chem. 2019 Jun;80:384–9.
53. Sarkale P, Patil S, Yadav PD, Nyayanit DA, Sapkal G, Baradkar S, et al. First isolation of SARS-CoV-2 from clinical samples in India. Indian J Med Res. 2020 Mar;151(2 & 3):244–50.
54. Shil P, Chavan S, Cherian S. Molecular basis of antigenic drift in Influenza A/H3N2 strains (1968-2007) in the light of antigenantibody interactions. Bioinformation. 2011;6(7):266–70.
55. Shil P, Chavan SS, Cherian SS. Antigenic variability in Neuraminidase protein of Influenza A/H3N2 vaccine strains (1968 - 2009). Bioinformation. 2011;7(2):76–81.
56. Singh VK, Suri A, Thomas-Cherian S. Cod-ConfDB: a codon-conformation database. In: Proceedings of 2005 International Conference on Intelligent Sensing and Information Processing, 2005. IEEE; 2005. p. 355–8.
57. Thite A, Agrawal M, Pavitrakar D, Cherian S, Damle R. Delineation of an epitope recognized by a chikungunya virus anti-capsid monoclonal antibody on the protease domain using an immuno-informatics approach. J Biomol Struct Dyn. 2021 Jan 22;1–11.
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60. Thomas S, Banerjee M, Vidyasagar PB, Hegde U, Shaligram AD. Analysis of thermoluminescence glow curves obtained from diethylpyrocarbonate-treated spinach thylakoid preparations using the general order kinetics model. Journal of Photochemistry and Photobiology B: Biology. 1996;33(1):69–72.
61. Thomas S, Banerjee M, Vidyasagar PB, Shaligram AD. Instability in the photosynthetic system and its relevance to biodevices. Materials Science and Engineering: C. 1995;3(3–4):223–6.
62. Thomas S, Gaikwad JU, Vidyasagar PB. Thermoluminescence (TL) from photosynthetic materials. 1999;
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64. Vidyasagar PB, Shil P, Thomas S. Conserved Oligopeptides in the Rubisco Large Chains. In: Life in the Universe. Springer; 2004. p. 133–4.
65. Vidyasagar PB, Thomas S, Acharya GM, Chaugule BB. Lead induced inhibition in the development of rice (Oryza sativa L.) seedlings as studied by using the thermoluminescence technique and other related parameters. PROCEEDINGS-NATIONAL ACADEMY OF SCIENCES INDIA SECTION B. 1996;66:77–88.
66. Vidyasagar PB, Thomas S, Banerjee M, Hegde U, Shaligram AD. Determination of peak parameters for thermoluminescence glow curves obtained from spinach thylakoid preparations, using mathematical models based on general order kinetics. Journal of Photochemistry and Photobiology B: Biology. 1993;19(2):125–8.
67. Walimbe AM, Lotankar M, Cecilia D, Cherian SS. Global phylogeography of Dengue type 1 and 2 viruses reveals the role of India. Infect Genet Evol. 2014 Mar;22:30–9.
68. Yadav PD, Cherian SS, Zawar D, Kokate P, Gunjikar R, Jadhav S, et al. Genetic characterization and molecular clock analyses of the Crimean-Congo hemorrhagic fever virus from human and ticks in India, 2010-2011. Infect Genet Evol. 2013 Mar;14:223–31.
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72. Yergolkar PN, Cherian SS, Jadhav S, Raut CG, Mourya DT. Genetic characterization of dengue virus types 1 and 2 in India, with emphasis on the viruses circulating in Karnataka. Indian J Med Res. 2017 Nov;146(5):662–5.
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