Department Details

Bioinformatics Centre

1)    Lokhande, K.B., Pawar, S.V., Madkaiker, S., Shrivastava, A., Venkateswara, S.K., Nawani, N., Wani, M., Ghosh, P.D., Singh, A. (2024). Screening of potential phytomolecules against MurG as drug target in nosocomial pathogen Pseudomonas aeruginosa: perceptions from computational campaign. Journal of Biomolecular Structure and Dynamics, 42 (1), 1-14. ISSN(print/online): 0739-1102/1538-0254, URL/DOI:
2)    Nikte, S.V., Joshi, M., Sengupta, D. (2024). State-dependent dynamics of extramembrane domains in the β2-adrenergic receptor. Proteins: Structure, Function and Bioinformatics, 92 (3), 1-12. ISSN(print/online): 0887-3585/1097-0134, URL/DOI:
3)    Bose, G.S., Kalakoti, G., Kulkarni, A.P., Mittal, S. (2024). AP-1/C-FOS and AP-1/FRA2 differentially regulate early and late adipogenic differentiation of mesenchymal stem cells. Journal of Cellular Biochemistry, ISSN(print/online): 0730-2312/1097-4644, URL/DOI:
4)    Limaye, S., Shelke, A., Kale, M.M., Kulkarni-Kale, U., Kuchipudi, S.V. (2024). IDV Typer: An Automated Tool for Lineage Typing of Influenza D Viruses Based on Return Time Distribution. Viruses, 16 (3), 373. ISSN(print/online): 1999-4915, URL/DOI:
5)    Jani, V., Sonavane, U., Sawant, S. (2024). Structural insights into the activation mechanism of phosphoinositide 3-kinase alpha. Computational Biology and Chemistry, 108, 1-16. ISSN(print/online): 1476-9271/1476-928X, URL/DOI:
6)    Saxena, A., Saxena, S. (2023). Pancreatic Cancer Data Classification with Quantum Machine Learning. Journal of Quantum Computing, 5 (1), 1-13. ISSN(print/online): 2579-0137/2579-0145, URL/DOI:
7)    Singh, S., Ghosh, P., Sharma, S., Bhargava, S., Kumar, A.R. (2023). Tetrahydropalmatine from medicinal plants activates human glucokinase to regulate glucose homeostasis. Biotechnology and Applied Biochemistry, ISSN(print/online): 0885-4513/1470-8744, URL/DOI:
8)    Lokhande, K.B., Pawar, S.V., Madkaiker, S., Nawani, N., Venkateswara, S.K., Ghosh, P. (2023). High throughput virtual screening and molecular dynamics simulation analysis of phytomolecules against BfmR of Acinetobacter baumannii: anti-virulent drug development campaign. Journal of Biomolecular Structure and Dynamics, 41 (7), 2698-2712. WoS Citations: 5, ISSN(print/online): 0739-1102/1538-0254, URL/DOI:
9)    Chand, K., Barman, M.K., Ghosh, P., Mitra, D. (2023). DNAJB8 facilitates autophagic-lysosomal degradation of viral Vif protein and restricts HIV-1 virion infectivity by rescuing APOBEC3G expression in host cells. FASEB Journal, 37 (3), 1-23. ISSN(print/online): 0892-6638/1530-6860, URL/DOI:
10)    Doiphode, S., Lokhande, K.B., Ghosh, P., Swamy, K.V., Nagar, S. (2023). Dual inhibition of cyclooxygenase-2 (COX-2) and 5-lipoxygenase (5-LOX) by resveratrol derivatives in cancer therapy: in silico approach. Journal of Biomolecular Structure and Dynamics, 41 (17), 8571-8586. Google Scholar Citations: 1, ISSN(print/online): 0739-1102/1538-0254, URL/DOI:
11)    Ballav, S., Lokhande, K.B., Yadav, R.S., Ghosh, P.D., Swamy, K.V., Basu, S. (2023). Exploring binding mode assessment of novel kaempferol, resveratrol, and quercetin derivatives with PPAR-α as potent drug candidates against canc. Molecular Diversity, 27 (6), 2867 - 2885. ISSN(print/online): 1381-1991/1573-501X, URL/DOI:
12)    Joshi, M.S., Lin, S.J., Vona, B., Lau, T., Huang, K., Zaki, M.S., Aldeen, H.S., Karimiani, E.G., Rocca, C., Noureldeen, M.M., Saad, A.K., Petree, C....ed. (2023). Evaluating the association of biallelic OGDHL variants with significant phenotypic heterogeneity. . Genome Medicine, 15 (1), 102. ISSN(print/online): 1756-994X, URL/DOI:
13)    Gedam, P.A., Khandagale, K., Shirsat, D., Thangasamy, A., Kulkarni, O., Kulkarni, A., Barvkar, V., Mahajan, V., Gupta, A.J., Bhagat, K.P., Khade, Y.P. (2023). Elucidating the molecular responses to waterlogging stress in onion (Allium cepa L.) leaf by comparative transcriptome profiling. Frontiers in Plant Science, 14, 1150909. ISSN(print/online): 1664-462X, URL/DOI:
14)    Sawant, P., Kulkarni, A.P., Lavania, M. (2023). Metatranscriptomic assessment of diarrhoeic faeces reveals diverse RNA viruses in rotavirus group A infected piglets and calves from India. Frontiers in Cellular and Infection Microbiology, 13, 1258660. ISSN(print/online): 2235-2988, URL/DOI:
15)    Yadav, S., Raazi, Z., Shivaraj, S.M., Somani, D., Prashant, R., Kulkarni, A., Kumar, R., Biradar, S., Desai, S., Kadoo, N. (2023). Whole Genome Sequencing and Comparative Genomics of Indian Isolates of Wheat Spot Blotch Pathogen Bipolaris sorokiniana Reveals Expansion of Pathogenicity Gene Clusters . Pathogens, 12 (1), 1-20. ISSN(print/online): 2076-0817, URL/DOI:
16)    Vaidya, S.R., Kumbhar, N.S., Andhare, G.K., Pawar, N., Walimbe, A.M., Kinikar, M., Kasibhatla, S.M., Kulkarni-Kale, U. (2023). Neutralizing Antibody Response to Genotypically Diverse Measles Viruses in Clinically Suspected Measles Cases . Viruses, 15 (11), 2243. ISSN(print/online): 1999-4915, URL/DOI:
17)    Patil, A.M., Lagad, P.M., Soge, B., Meshram, R., Lokhande, M.N., Lokhande, P.D. (2023). Ammonium chloride mediated synthesis of 2-aryl-phthalazinone from O-formyl benzoic acid and in silico applications. ARKIVOC, 2023 (7), 1-11. ISSN(print/online): 1551-7004/1551-7012, URL/DOI:
18)    Lodha, K., Wavhal, D., Bhujbal, N., Mazire, P., Bhujbal, S., Korde, A., Bagul, K., Roy, A., Meshram, R., Shinde, V. (2023). Synthesis and biological evaluation of 9-aryl-1,8-dioxo-octahydroxanthene derivatives as antileishmanial agents. Results in Chemistry, 5, 100943. ISSN(print/online): 2211-7156, URL/DOI:
19)    Lokhande, K.B., Banerjee, T., Swamy, K.V., Ghosh, P., Deshpande, M. (2022). An in silico scientific basis for LL-37 as a therapeutic for Covid-19. Proteins: Structure, Function and Bioinformatics, 90 (5), 1029-1043. Google Scholar Citations: 1, WoS Citations: 6, ISSN(print/online): 0887-3585/1097-0134, URL/DOI:
20)    Joshi, S., Ghosh, P., Barage, S., Basu, B., Deobagkar, D.D. (2022). Genome-wide lone strand adenine methylation in Deinococcus radiodurans R1: Regulation of gene expression through DR0643-dependent adenine methylation. Microbiological Research, 257, 126964. ISSN(print/online): 0944-5013/1618-0623, URL/DOI:
21)    Kamble, R.P., Ghosh, P., Kulkarni, A.A. (2022). Identification of α-amylase inhibitory compounds from leaves of Careya arborea Roxb. and in silico docking studies. South African Journal of Botany, 151, 493-503. ISSN(print/online): 0254-6299/1727-9321, URL/DOI:
22)    Lokhande, K.B., Ghosh, P., Nagar, S., Venkateswara Swamy, K. (2022). Novel B, C-ring truncated deguelin derivatives reveals as potential inhibitors of cyclin D1 and cyclin E using molecular docking and molecular dynamic simulation. Molecular Diversity, 26 (4), 2295–2309. WoS Citations: 3, ISSN(print/online): 1381-1991/1573-501X, URL/DOI:
23)    Paithankar, H., Tarang, G.S., Parvez, F., Marathe, A., Joshi, M., Chugh, J. (2022). Inherent conformational plasticity in dsRBDs enables interaction with topologically distinct RNAs. Biophysical Journal, 121 (6), 1038-1055. WoS Citations: 1, ISSN(print/online): 0006-3495/1542-0086, URL/DOI:
24)    Khandagale, K., Roylawar, P., Kulkarni, O., Khambalkar, P., Ade, A., Kulkarni, A., Singh, M., Gawande, S. (2022). Comparative Transcriptome Analysis of Onion in Response to Infection by Alternaria porri (Ellis) Cifferi. Frontiers in Plant Science, 13, 857306-857306. ISSN(print/online): 1664-462X, URL/DOI:
25)    Mane, A., Kasibhatla, S.M., Vidhate, P., Saxena, V., Patil, S., Rao, A., Nirmalkar, A., Kulkarni-Kale, U., Panda, S (2022). Phylogenetic Analysis of Spread of Hepatitis C Virus Identified during HIV Outbreak Investigation, Unnao, India. Emerging infectious diseases, 28 (4), 725–733. Google Scholar Citations: 1, ISSN(print/online): 1080-6040/1080-6059, URL/DOI:
26)    Mane, A., Limaye, S., Patil, L., Kulkarni-Kale, U. (2022). Genetic variability in minor capsid protein (L2 gene) of human papillomavirus type 16 among Indian women. Medical Microbiology and Immunology, 211, 153-160. ISSN(print/online): 0300-8584/1432-1831, URL/DOI:
27)    Mane, A., Limaye, S., Patil, L., Kulkarni-Kale, U. (2022). Genetic variations in the long control region of human papillomavirus type 16 isolates from India: implications for cervical carcinogenesis. Journal of Medical Microbiology, 71 (1), 001475. WoS Citations: 2, ISSN(print/online): 0022-2615/1473-5644, URL/DOI:
28)    Hufsky, F., Abecasis, A., Agudelo R. P., Bletsa, M., Brown, K., Claus, C., Deinhardt E. S., Deng, L., Friedel, C.C., Gismondi, M.I., Kostaki, E.G., Kühnert, D., Kulkarni-Kale, U., Metzner, K.J., Meyer, I.M., Miozzi, L., Nishimura, L., Paraskevopoulou, S., Pérez C. A., Rahlff, J., Thomson, E., Tumescheit, C., van der Hoek, L., Van Espen, L., Vandamme, A. M., Zaheri, M., Zuckerman, N., Marz, M. (2022). Women in the European Virus Bioinformatics Center. Viruses, 14 (7), 1522. ISSN(print/online): 1999-4915, URL/DOI:
29)    Meshram, R.J., Kathwate, G.H., Gacche, R.N. (2022). Progress, evolving therapeutic/diagnostic approaches, and challenges in the management of hepatitis C virus infections. Archives of Virology, 167, 717-736. WoS Citations: 1, ISSN(print/online): 0304-8608/1432-8798, URL/DOI:
30)    Lodha, K.K., Wavhal, D.S., Bhalekar, S.B., Meshram, R.J., Shinde, V.S. (2022). Exploring New Tetrahydrothienopyridine Derivatives as Platelet Agglutination Inhibitors: Synthesis, Biological Evaluation and In Silico Study. ChemistrySelect, 7 (2), 202103428. ISSN(print/online): 2365-6549, URL/DOI:
31)    More, N.A., Jadhao, N.L., Meshram, R.J., Tambe, P., Salve, R.A., Sabane, J.K., Sawant, S.N., Gajbhiye, V., Gajbhiye, J.M. (2022). Novel 3-fluoro-4-morpholinoaniline derivatives: Synthesis and assessment of anti-cancer activity in breast cancer cells. Journal of Molecular Structure, 1253, 132127. ISSN(print/online): 0022-2860/1872-8014, URL/DOI:
32)    Joshi, S., Ujaoney, A.K., Ghosh, P., Deobagkar, D.D., Basu, B. (2021). N6-methyladenine and epigenetic immunity of Deinococcus radiodurans. Research in Microbiology, 172 (1), 103789. WoS Citations: 3, ISSN(print/online): 0923-2508/1769-7123, URL/DOI:
33)    Ghosh, P., Hajra, A. (2021). Fluorination of 2 H-Indazoles Using N-Fluorobenzenesulfonimide. The Journal of Organic Chemistry, 86 (15), 10883–10888. Google Scholar Citations: 6, ISSN(print/online): 0022-3263/1520-6904, URL/DOI:
34)    Roy, A., Behera, S., Kumari, B., Mazire, P.H., Mandal, A., Purkait, B., Ghosh, P., Das, P., Das, P. (2021). The HIV − 1 protease inhibitor Amprenavir targets Leishmania donovani topoisomerase I and induces oxidative stress-mediated programmed cell death. Parasitology International, 82, 102287. WoS Citations: 2, ISSN(print/online): 1383-5769/1873-0329, URL/DOI:
35)    Bhattacharjee, S., Laru, S., Ghosh, P., Hajra, A. (2021). Potassium Persulfate Mediated Chemodivergent C-3 Functionalization of 2H-Indazoles with DMSO as C1 Source. The Journal of Organic Chemistry, 86 (15), 10866−10873. Google Scholar Citations: 9, ISSN(print/online): 0022-3263/1520-6904, URL/DOI:
36)    Kulkarni, A.S., Ramesh, R., Walia, S., Sayyad, S.I., Gathalkar, G.B., Balamkundu, S., Joshi, M., Sen, A., Reddy, D.S. (2021). Identification of a Novel Series of Potent Organosilicon Mosquito Repellents. ACS Omega, 6 (46), 31236-31243. ISSN(print/online): 2470-1343, URL/DOI:
37)    Gujar, N., Nikte, S.V., Joshi, R.S., Joshi, M. (2021). Molecular Characterization of the β2-like Octopamine Receptor of Helicoverpa armigera. Journal of Membrane Biology, 254, 311-319. WoS Citations: 2, ISSN(print/online): 0022-2631/1432-1424, URL/DOI:
38)    Alai, S., Gujar, N., Joshi, M., Gautam, M., Gairola, S. (2021). Pan-India novel coronavirus SARS-CoV-2 genomics and global diversity analysis in spike protein. Heliyon, 7 (3), e06564. WoS Citations: 11, ISSN(print/online): 2405-8440, URL/DOI:
39)    Nikte, S.V., Sonar, K., Tandale, A., Joshi, M., Sengupta, D. (2021). Loss of a water-mediated network results in reduced agonist affinity in a β2-adrenergic receptor clinical variant. Biochimica et Biophysica Acta- Proteins and Proteomics, 1869 (4), 140605. WoS Citations: 3, ISSN(print/online): 1570-9639/1878-1454, URL/DOI:
40)    Kharche, S., Joshi, M., Chattopadhyay, A., Sengupta, D. (2021). Conformational plasticity and dynamic interactions of the N-terminal domain of the chemokine receptor CXCR1. PLoS Computational Biology, 17 (5), e1008593. Google Scholar Citations: 2, WoS Citations: 6, ISSN(print/online): 1553-7358/1553-734X, URL/DOI:
41)    Borse, S., Joshi, M., Saggam, A., Bhat, V., Walia, S., Marathe, A., Sagar, S., Chavan-Gautam, P., Girme, A., Hingorani, L., Tillu, G. (2021). Ayurveda botanicals in COVID-19 management: An in silico multi-target approach. PloS One, 16 (6), e0248479. Google Scholar Citations: 9, WoS Citations: 21, ISSN(print/online): 1932-6203, URL/DOI:
42)    Joshi, M., Lin, S.J., Vona, B., Barbalho, P.G., Kaiyrzhanov, R., Maroofian, R., Petree, C., Severino, M., Stanley, V., Varshney, P., Bahena, P., Alzahrani, F. (2021). Biallelic variants in KARS1 are associated with neurodevelopmental disorders and hearing loss recapitulated by the knockout zebrafish. Genetics in Medicine, 23 (10), 1933-1943. WoS Citations: 4, ISSN(print/online): 1098-3600/1530-0366, URL/DOI:
43)    Dar, M.S., Dholakia, B.B., Kulkarni, A.P., Oak, P.S., Shanmugam, D., Gupta, V.S., Giri, A.P. (2021). Influence of domestication on specialized metabolic pathways in fruit crops. Planta, 253 (2), 1-15. WoS Citations: 2, ISSN(print/online): 0032-0935/1432-2048, URL/DOI:
44)    Kolhe, N., Kulkarni, A., Zinjarde, S., Acharya, C. (2021). Transcriptome Response of the Tropical Marine Yeast Yarrowia lipolytica on Exposure to Uranium. Current Microbiology, 78, 2033-2043. WoS Citations: 4, ISSN(print/online): 0343-8651/1432-0991, URL/DOI:
45)    Vaidya, S.R., Kasibhatla, S.M., Kamble, M.B., Munivenkatappa, A., Kumbhar, N.S., Jayaswamy, M.M., Ramtirthkar, M.R., Kale, M.M., Kulkarni-Kale, U. (2021). Genetic and antigenic characterization of wild type rubella viruses isolated from India. Vaccine, 39 (6), ISSN(print/online): 0264-410X/1873-2518, URL/DOI:
46)    Gokavi, J., Sadawarte, S., Shelke, A., Kulkarni-Kale, U., Thakar, M., Saxena, V. (2021). Inhibition of miR-155 Promotes TGF-β Mediated Suppression of HIV Release in the Cervical Epithelial Cells . Viruses, 13 (11), 2266. WoS Citations: 2, ISSN(print/online): 1999-4915, URL/DOI:
47)    González-Candelas, F., Shaw, M.A., Phan, T., Kulkarni-Kale, U., Paraskevis, D., Luciani, F., Kimura, H., Sironi, M. (2021). One year into the pandemic: Short-term evolution of SARS-CoV-2 and emergence of new lineages. Infection, Genetics and Evolution, 92, 104869. WoS Citations: 28, ISSN(print/online): 1567-1348/1567-7257, URL/DOI:
48)    Limaye, S., Kasibhatla, S.M., Ramtirthkar, M., Kinikar, M., Kale, M.M., Kulkarni-Kale, U. (2021). Circulation and Evolution of SARS-CoV-2 in India: Let the Data Speak. Viruses, 13 (11), 2238. WoS Citations: 5, ISSN(print/online): 1999-4915, URL/DOI:
49)    Kadam, K., Peerzada, N., Karbhal, R., Sawant, S., Valadi, J., Kulkarni-Kale, U. (2021). Antibody Class(es) Predictor for Epitopes (AbCPE): A Multi-Label Classification Algorithm. Frontiers in Bioinformatics, 1, Google Scholar Citations: 2, ISSN(print/online): 2673-7647, URL/DOI:
50)    Meshram, R.J., Bagul, K.T., Aouti, S.U., Shirsath, A.M., Duggal, H., Gacche, R.N. (2021). Modeling and simulation study to identify threonine synthase as possible drug target in Leishmania major. Molecular Diversity, 25, 1679-1700. WoS Citations: 2, ISSN(print/online): 1381-1991/1573-501X, URL/DOI:
51)    Sharbidre, A., Dhage, P., Duggal, H., Meshram, R. (2021). In silico Investigation of Tridax procumbens Phyto-Constituents Against SARS-CoV-2 Infection. Biointerface Research in Applied Chemistry, 11 (4), 12120-12148. ISSN(print/online): 2069-5837, URL/DOI:
52)    Sawant, A.S., Kamble, S.S., Pisal, P.M., Sawant, S.S., Hese, S.V., Bagul, K.T., Pinjari, R.V., Kamble, V.T., Meshram, R.J., Gacche, R.N. (2021). Synthesis and evaluation of N-(4-(substituted)-3-(trifluoromethyl) phenyl) isobutyramides and their N-ethyl analogous as anticancer, anti-angiogenic & antioxidant agents: In vitro and in silico analysis. Computational Biology and Chemistry, 92, 107484. ISSN(print/online): 1476-9271/1476-928X, URL/DOI:
53)    Dandekar, P.D., Kotmale, A.S., Chavan, S.R., Kadlag, P.P., Sawant, S.V., Dhavale, D.D., RaviKumar, A. (2021). Insights into the Inhibition Mechanism of Human Pancreatic α-Amylase, a Type 2 Diabetes Target, by Dehydrodieugenol B Isolated from Ocimum tenuiflorum. ACS Omega, 6 (3), 1780-1786. WoS Citations: 5, ISSN(print/online): 2470-1343, URL/DOI:
54)    Gawade, P., Gunjal, G., Sharma, A., Ghosh, P. (2020). Reconstruction of transcriptional regulatory networks of Fis and H-NS in Escherichia coli from genome-wide data analysis. Genomics, 112 (2), 1264-1272. WoS Citations: 6, ISSN(print/online): 0888-7543/1089-8646, URL/DOI:
55)    Ghosh, A.K., Ghosh, P., Hajra, A. (2020). Rhodium-Catalyzed Directed C(sp2)–H Bond Addition of 2-Arylindazoles to N-Sulfonylformaldimines and Activated Aldehydes. The Journal of Organic Chemistry, 85 (23), 15752–15759. Google Scholar Citations: 13, ISSN(print/online): 0022-3263/1520-6904, URL/DOI:
56)    Joshi, S.R., Jagtap, S., Basu, B., Deobagkar, D.D., Ghosh, P. (2020). Construction, analysis and validation of co-expression network to understand stress adaptation in Deinococcus radiodurans R1. PloS One, 15 (6), e0234721. WoS Citations: 2, ISSN(print/online): 1932-6203, URL/DOI:
57)    Trivedi, J., Ghosh, P., Mitra, D. (2020). N-p-Tosyl-L-phenylalanine chloromethyl ketone (TPCK) inhibits HIV-1 by suppressing the activity of viral protease. Biochemical and Biophysical Research Communications, 527 (1), 167-172. WoS Citations: 1, ISSN(print/online): 0006-291X/1090-2104, URL/DOI:
58)    Datir, S., Ghosh, P. (2020). In silico analysis of the structural diversity and interactions between invertases and invertase inhibitors from potato (Solanum tuberosum L.). 3 Biotech, 10 (4), 1-15. WoS Citations: 2, ISSN(print/online): 2190-572X/2190-5738, URL/DOI:
59)    Jamalpure, S., Panditrao, G., Kulabhusan, P.K., Hameed, A.S., Paknikar, K.M., Joshi, M., Rajwade, J.M. (2020). In silico studies on the interaction of phage displayed biorecognition element (TFQAFDLSPFPS) with the structural protein VP28 of white spot syndrome virus. Journal of Molecular Modeling, 26 (10), 264. ISSN(print/online): 1610-2940/0948-5023, URL/DOI:
60)    Nikte, S., Gahankari, A., Mulla, J., Sengupta, D., Joshi, M., Tamhane, V. (2020). In vitro and in silico studies on membrane interactions of diverse Capsicum annuum flower γ-thionin peptides. Proteins: Structure, Function and Bioinformatics, 88 (1), 227-236. WoS Citations: 4, ISSN(print/online): 0887-3585/1097-0134, URL/DOI:
61)    Kumari, J., Bendre, A.D., Bhosale, S., Vinnakota, R., Burada, A.P., Ravelli, R., Peters, P.J., Joshi, M., Kumar, J. (2020). Structural dynamics of the GluK3-kainate receptor neurotransmitter binding domains revealed by cryo-EM. International Journal of Biological Macromolecules, 149, 1051-1058. WoS Citations: 5, ISSN(print/online): 0141-8130/1879-0003, URL/DOI:
62)    Singh, P., Bharti, N., Singh, A.P., Tripathi, S.K., Pandey, S.P., Chauhan, A.S., Kulkarni, A., Sane, A.P. (2020). Petal abscission in fragrant roses is associated with large scale differential regulation of the abscission zone transcriptome. Scientific Reports, 10 (1), 17196. WoS Citations: 5, ISSN(print/online): 2045-2322, URL/DOI:
63)    Ghodke, P., Khandagale, K., Thangasamy, A., Kulkarni, A., Narwade, N., Shirsat, D., Randive, P., Roylawar, P., Singh, I., Gawande, S.J., Mahajan, V. (2020). Comparative transcriptome analyses in contrasting onion (Allium cepa L.) genotypes for drought stress. PloS One, 15 (8), e0237457. WoS Citations: 14, ISSN(print/online): 1932-6203, URL/DOI:
64)    Sawant, P.M., Atre, N., Kulkarni, A., Gopalkrishna, V. (2020). Detection and molecular characterization of porcine enterovirus G15 and teschovirus from India. Pathogens and Disease, 78 (5), ftaa039. ISSN(print/online): 2049-632X, URL/DOI:
65)    Vaidya, S., Kasibhatla, S., Bhattad, D., Ramtirthkar, M., Kale, M., Raut, C., Kulkarni-Kale, U. (2020). Characterization of diversity of measles viruses in India: Genomic sequencing and comparative genomics studies. Journal of Infection, 80 (3), 301-309. WoS Citations: 6, ISSN(print/online): 0163-4453/1532-2742, URL/DOI:
66)    Mane, A., Patil, L., Limaye, S., Nirmalkar, A., Kulkarni‐Kale, U. (2020). Characterization of major capsid protein (L1) variants of Human papillomavirus type 16 by cervical neoplastic status in Indian women: Phylogenetic and functional analysis. Journal of Medical Virology, 92 (8), 1303-1308. WoS Citations: 6, ISSN(print/online): 0146-6615/1096-9071, URL/DOI:
67)    Kasibhatla, S.M., Kinikar, M., Limaye, S., Kale, M.M., Kulkarni‐Kale, U. (2020). Understanding evolution of SARS‐CoV‐2: a perspective from analysis of genetic diversity of RdRp gene. Journal of Medical Virology, 92 (10), ‏ 1932-1937. WoS Citations: 18, ISSN(print/online): 0146-6615/1096-9071, URL/DOI:
68)    Patil, A., Duggal, H., Bagul, K.T., Kamble, S., Lokhande, P., Gacche, R., Meshram, R. (2020). Synthesis of new 3-arylaminophthalides and 3-indolyl-phthalides using ammonium chloride, evaluation of their anti-mycobacterial potential and docking study. Combinatorial Chemistry and High Throughput Screening, 23 (8), 723-739. Google Scholar Citations: 1, WoS Citations: 1, ISSN(print/online): 1386-2073/1875-5402, URL/DOI:
69)    Sawant, A.S., Kamble, S.S., Pisal, P.M., Meshram, R.J., Sawant, S.S., Kamble, V.A., Kamble, V.T., Gacche, R.N. (2020). Synthesis and evaluation of a novel series of 6-bromo-1-cyclopentyl-1H-indazole-4-carboxylic acid-substituted amide derivatives as anticancer, antiangiogenic, and antioxidant agents. Medicinal Chemistry Research, 29 (1), 17-32. WoS Citations: 2, ISSN(print/online): 1054-2523/1554-8120, URL/DOI:
70)    Meshram, R.J., Bagul, K.T., Pawnikar, S.P., Barage, S.H., Kolte, B.S., Gacche, R.N. (2020). Known compounds and new lessons: structural and electronic basis of flavonoid-based bioactivities. Journal of Biomolecular Structure and Dynamics, 38 (4), 1168-1184. Google Scholar Citations: 12, WoS Citations: 14, ISSN(print/online): 0739-1102/1538-0254, URL/DOI:
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142)    Kolhi, S., Kolaskar, A.S. (2012). Categorization of metabolome in bacterial systems. Bioinformation, 8 (7), 309-315. Google Scholar Citations: 1, ISSN(print/online): 0973-8894/0973-2063, URL/DOI:
143)    Singh, P.P., Banerji, A. (2011). Case for an RNA–prion world: a hypothesis based on conformational diversity. Journal of Biological Physics, 37 (2), 185-188. Google Scholar Citations: 4, WoS Citations: 1, ISSN(print/online): 0092-0606/1573-0689, URL/DOI:
144)    Banerji, A., Ghosh, I. (2011). Fractal symmetry of protein interior: what have we learned?. Cellular and Molecular Life Sciences, 68 (16), 2711-2737. Google Scholar Citations: 40, WoS Citations: 30, ISSN(print/online): 1420-682X/1420-9071, URL/DOI:
145)    Kolekar, P.S., Kale, M.M., Kulkarni-Kale, U. (2011). Genotyping of Mumps Viruses Based on the SH gene: Development of a Server using Alignment-free and alignment based methods. Immunome Research, 7 (3), 1-7. Google Scholar Citations: 11, ISSN(print/online): 1745-7580, URL/DOI:
146)    Banerji, A., Ghosh, I. (2011). Mathematical criteria to observe mesoscopic emergence of protein biochemical properties. Journal of Mathematical Chemistry, 49 (3), 643-665. Google Scholar Citations: 8, WoS Citations: 3, ISSN(print/online): 0259-9791/1572-8897, URL/DOI:
148)    Kolaskar, A.S., Kolhi, S. (2011). Pune University Metabolic Pathway Engineering (PuMPE) Resource. Journal of Emerging Trends in Computing and Information Sciences, 2 (7), 325-331. Google Scholar Citations: 2, ISSN(print/online): 2079-8407/2218-6301, URL/DOI:

Publications Before 2011

149)    Kulkarni, A.P., Mittal, S.P., Devasagayam, T.P.A., Pal, J.K. (2010). Hsp90 mediates activation of the heme regulated eIF-2 kinase during oxidative stress. Indian Journal of Biochemistry and Biophysics, 47 (2), 67-74. Google Scholar Citations: 10, WoS Citations: 8, ISSN(print/online): 0301-1208/0975-0959, URL/DOI:
150)    Dey, S., Jejurikar, S., Bhattacharya, S.K., Banerji, A., Adhi, K.P., Dharmadhikari, C.V. (2010). Electrical characterization of zinc oxide/aluminum nitride thin film precursor field effect transistor structures: A conducting atomic force microscopy and density functional theoretical study. Journal of Applied Physics, 108 (9), 94510-94519. Google Scholar Citations: 1, WoS Citations: 1, ISSN(print/online): 0021-8979/1089-7550, URL/DOI:
151)    Kulkarni-Kale, U., Sawant, S., Chavan, V. (2010). Bioinformatics education in India. Briefings in Bioinformatics, 11 (6), 616-625. Google Scholar Citations: 13, WoS Citations: 12, ISSN(print/online): 1467-5463/1477-4054, URL/DOI:
152)    Joshi, M., Ebalunode, J.O., Briggs, J.M. (2009). Computational insights into the interaction of the anthrax lethal factor with the N-terminal region of its substrates. Proteins: Structure, Function and Bioinformatics, 75 (2), 323-335. Google Scholar Citations: 10, WoS Citations: 9, ISSN(print/online): 0887-3585/1097-0134, URL/DOI:
153)    Kulkarni, A.P., Mittal, S.P., Devasagayam, T.P., Pal, J.K. (2009). Oxidative stress perturbs cell proliferation in human K562 cells by modulating protein synthesis and cell cycle. Free Radical Research, 43 (11), 1090-1100. Google Scholar Citations: 15, WoS Citations: 13, ISSN(print/online): 1071-5762/1029-2470, URL/DOI:
154)    Kulkarni, A.P., Pal, J.K., Devasagayam, T.P.A. (2008). Radiation and free radical exposure and regulation of protein synthesis by the heme-regulated eukaryotic initiation factor 2a kinase. BARC Newsletter, 297, 80-87. Google Scholar Citations: 3, ISSN(print/online): 0976-2108, URL/DOI:
155)    Hosseini, A., Hosseini, A., Ranade, S.H., Ghosh, I., Khandekar, P. (2008). Simple sequence repeats in different genome sequences of Shigella and comparison with high GC and AT-rich genomes: Full Length Research Paper. DNA Sequence, 19 (3), 167-176. Google Scholar Citations: 3, WoS Citations: 3, ISSN(print/online): 1042-5179/1029-2365, URL/DOI:
156)    Lad, R.K., Desai, N.G., Christian, R.A., Deshpande, A.W. (2008). Fuzzy modeling for environmental pollution potential ranking of industries. Environmental Progress, 27 (1), 84-90. Google Scholar Citations: 5, WoS Citations: 8, ISSN(print/online): 0278-4491/1547-5921, URL/DOI:
157)    Wagholikar, K.B., Deshpande, A.W. (2008). Fuzzy relation based modeling for medical diagnostic decision support: Case studies. International Journal of Knowledge- Based and Intelligent Engineering Systems, 12 (5-6), 319-326. Google Scholar Citations: 15, WoS Citations: 13, ISSN(print/online): 1327-2314/1875-8827, URL/DOI:
158)    Kulkarni-Kale, U., Ojha, J., Manjari, G.S., Deobagkar, D.D., Mallya, A.D., Dhere, R.M., Kapre, S.V. (2007). Mapping antigenic diversity and strain specificity of mumps virus: a bioinformatics approach. Virology, 359 (2), 436-446. Google Scholar Citations: 35, WoS Citations: 28, ISSN(print/online): 0042-6822/1096-0341, URL/DOI:
159)    Ghate, A.D., Bhagwat, B.U., Bhosle, S.G., Gadepalli, S.M., Kulkarni-Kale, U. (2007). Characterization of antibody-binding sites on proteins: development of a knowledgebase and its applications in improving epitope prediction. Protein and Peptide Letters, 14 (6), 531-535. Google Scholar Citations: 16, WoS Citations: 12, ISSN(print/online): 0929-8665 /1875-5305 , URL/DOI:
160)    Kumar, A., Ghosh, I. (2007). Mapping Selectivity and Specificity of Active Site of Plasmepsins from Plasmodium falciparum Using Molecular Interaction Field Approach. Protein and Peptide Letters, 14 (6), 569-574. Google Scholar Citations: 6, WoS Citations: 6, ISSN(print/online): 0929-8665 /1875-5305 , URL/DOI:
161)    Gaur, R.K. (2007). Helicase: Mystery of progression. Molecular Biology Reports, 34 (3), 161-164. Google Scholar Citations: 6, ISSN(print/online): 0301-4851/1573-4978, URL/DOI:
162)    Greenbaum, J.A., Andersen, P.H., Blythe, M., Bui, H.H., Cachau, R.E., Crowe, J., Davies, M., Kolaskar, A.S., Lund, O., Morrison, S., Mumey, B. (2007). Towards a consensus on datasets and evaluation metrics for developing B-cell epitope prediction tools. Journal of Molecular Recognition, 20 (2), 75-82. Google Scholar Citations: 205, WoS Citations: 166, ISSN(print/online): 0952-3499/1099-1352, URL/DOI:
163)    Kulkarni-Kale, U., Bhosle, S.G., Manjari, G.S., Joshi, M., Bansode, S., Kolaskar, A.S. (2006). Curation of viral genomes: challenges, applications and the way forward. BMC Bioinformatics, 7 (5), 1-21. Google Scholar Citations: 9, WoS Citations: 7, ISSN(print/online): 1471-2105, URL/DOI:
164)    Baladhye, V.B., Kamble, S.P., Fawade, M.M. (2006). Phenobarbitone Induced Changes in Yeast Mitochondrial Proteome. Journal of Bioinfolet, 3 (2), 123-125.
165)    Salokhe, S., Sarkar, A., Kulkarni, A., Mukherjee, S., Pal, J.K. (2006). Flufenoxuron, an acylurea insect growth regulator, alters development of Tribolium castaneum (Herbst) (Coleoptera: Tenebrionidae) by modulating levels of chitin, soluble protein content, and HSP70 and p34cdc2 in the larval tissues. Pesticide Biochemistry and Physiology, 85 (2), 84-90. Google Scholar Citations: 19, WoS Citations: 12, ISSN(print/online): 0048-3575/1095-9939, URL/DOI:
166)    Singh, V.K., Ghosh, I. (2006). Kinetic modeling of tricarboxylic acid cycle and glyoxylate bypass in Mycobacterium tuberculosis, and its application to assessment of drug targets. Theoretical Biology and Medical Modelling, 3 (1), 27. Google Scholar Citations: 65, WoS Citations: 46, ISSN(print/online): 1742-4682, URL/DOI:
167)    Prakash, O., Ghosh, I. (2006). Developing an antituberculosis compounds database and data mining in the search of a motif responsible for the activity of a diverse class of antituberculosis agents. Journal of Chemical Information and Modeling, 46 (1), 17-23. Google Scholar Citations: 23, WoS Citations: 23, ISSN(print/online): 1549-9596/1549-960X, URL/DOI:
168)    Ghosh, I. (2006). Target based high throughput screening and lead designing in pharmaceutical drug industry. Indian Journal of Chemistry - Section A Inorganic, Physical, Theoretical and Analytical Chemistry, 45 (1), 163-173. Google Scholar Citations: 1, ISSN(print/online): 0376-4710/0975-0975, URL/DOI:
169)    Sarkar, A., Kulkarni, A., Chattopadhyay, S., Mogare, D., Sharma, K.K., Singh, K., Pal, J.K. (2005). Lead-induced upregulation of the heme-regulated eukaryotic initiation factor 2α kinase is compromised by hemin in human K562 cells. Biochimica et Biophysica Acta (BBA)-Gene Structure and Expression, 1732 (1-3), 15-22. Google Scholar Citations: 11, WoS Citations: 8, ISSN(print/online): 0167-4781, URL/DOI:
170)    Kulkarni-Kale, U., Bhosle, S., Kolaskar, A.S. (2005). CEP: a conformational epitope prediction server. Nucleic Acids Research, 33 (2), 168-171. Google Scholar Citations: 265, WoS Citations: 179, ISSN(print/online): 0305-1048/1362-4962, URL/DOI:
171)    Sarkar, D., Ghosh, I., Datta, S. (2004). Biochemical characterization of Plasmodium falciparum hypoxanthine-guanine-xanthine phosphorybosyltransferase: role of histidine residue in substrate selectivity. Molecular and Biochemical Parasitology, 137 (2), 267-276. Google Scholar Citations: 12, WoS Citations: 8, ISSN(print/online): 0166-6851/1872-9428, URL/DOI:
172)    Raychaudhury, C., Ghosh, I. (2004). Information- Theoretical Measure of Similarity and a Topological Shape and Size Descriptor for Molecular Similarity Analysis. Internet Electronic Journal of Molecular Design, 3 (6), 350-360. Google Scholar Citations: 4, ISSN(print/online): 1538-6414, URL/DOI:
173)    Kulkarni‐Kale, U., Bhosle, S., Manjari, G.S., Kolaskar, A.S. (2004). VirGen: a comprehensive viral genome resource. Nucleic Acids Research, 32 (1), D289-D292. Google Scholar Citations: 27, WoS Citations: 16, ISSN(print/online): 0305-1048/1362-4962, URL/DOI:
174)    Awasthi, A., Mathur, R., Khan, A., Joshi, B.N., Jain, N., Sawant, S., Boppana, R., Mitra, D., Saha, B. (2003). CD40 Signaling Is Impaired in L. major–infected Macrophages and Is Rescued by a p38MAPK Activator Establishing a Host-protective Memory T Cell Response. Journal of Experimental Medicine, 197 (8), 1037-1043. Google Scholar Citations: 98, WoS Citations: 78, ISSN(print/online): 0022-1007/1540-9538, URL/DOI:
175)    Sakharkar, M.K., Kangueane, P., Petrov, D.A., Kolaskar, A.S., Subbiah, S.S. (2002). SEGE: A database on 'intron less/single exonic' genes from eukaryotes. Bioinformatics, 18 (9), 1266-1267. Google Scholar Citations: 42, WoS Citations: 31, ISSN(print/online): 1367-4803/1460-2059, URL/DOI:
176)    Kolaskar, A.S., Naik, P.S. (2000). Online identification of viruses. Journal of Microbiology, Immunology and Infection, 32 (2), 69-78. ISSN(print/online): 1684-1182/1995-9133, URL/DOI:
177)    Kolaskar, A.S., Kulkarni-Kale, U. (1999). Prediction of Three-Dimensional Structure and Mapping of Conformational Epitopes of Envelope Glycoprotein of Japanese Encephalitis Virus. Virology, 261 (1), 31-42. Google Scholar Citations: 185, WoS Citations: 86, ISSN(print/online): 0042-6822/1096-0341, URL/DOI:
178)    Kolaskar, A.S., Joshi, R.R. (1998). Molecular Dynamics Simulation of a 13-mer Duplex DNA: A PvuII Substrate. Journal of Biomolecular Structure and Dynamics, 15 (6), 1155-1165. Google Scholar Citations: 2, WoS Citations: 2, ISSN(print/online): 0739-1102/1538-0254, URL/DOI:
179)    Davis, J.A., Peen, E., Williams, R.C., Perkins, S., Malone, C.C., McCormack, W.T., Csernok, E., Gross, W.L., Kolaskar, A.S., Kulkarni-Kale, U. (1998). Determination of Primary Amino Acid Sequence and Unique Three-Dimensional Structure of WGH1, a Monoclonal Human IgM Antibody with Anti-PR3 Specificity. Clinical Immunology and Immunopathology, 89 (1), 35-43. Google Scholar Citations: 11, WoS Citations: 6, ISSN(print/online): 0090-1229, URL/DOI:
180)    Kolaskar, A.S., Naik, P.S. (1998). Computer-aided virus identification on the World Wide Web. Archives of Virology, 143 (8), 1513-1521. ISSN(print/online): 0304-8608/1432-8798, URL/DOI:
181)    Williams, R.C., Malone, C.C., Kolaskar, A.S., Kulkarni-Kale, U. (1997). Antigenic determinants reacting with rheumatoid factor: Epitopes with different primary sequences share similar conformation. Molecular Immunology, 34 (7), 543-556. Google Scholar Citations: 7, WoS Citations: 8, ISSN(print/online): 0161-5890/1872-9142, URL/DOI:
182)    Kolaskar, A.S., Sawant, S. (1996). Prediction of conformational states of amino acids using a Ramachandran plot. International Journal of Peptide and Protein Research, 47 (1-2), 110-116. Google Scholar Citations: 17, WoS Citations: 19, ISSN(print/online): 0367-8377, URL/DOI:
183)    Date, S., Kulkarni, R., Kulkarni, B., Kulkarni-Kale, U., Kolaskar, A.S. (1993). Multiple alignment of sequences on parallel computers. Computer Applications in the Biosciences, 9 (4), 397-402. Google Scholar Citations: 18, WoS Citations: 8, ISSN(print/online): 0266-7061, URL/DOI:
184)    Kulkarni, R., Date, S., Kulkarni, B., Kulkarni, U., Kolaskar, A.S. (1993). Pras: parallel alignment of sequences algorithm. Parallel Processing Letters, 3 (3), 243-252. Google Scholar Citations: 2, ISSN(print/online): 0129-6264/1793-642X, URL/DOI:
185)    Kolaskar, A.S., Kulkarni-Kale, U. (1992). Sequence alignment approach to pick up conformationally similar protein fragments. Journal of Molecular Biology, 223 (4), 1053-1061. Google Scholar Citations: 41, WoS Citations: 30, ISSN(print/online): 0022-2836/1089-8638, URL/DOI:
186)    Kolaskar, A.S., Naik, P.S. (1992). Computerization of Virus Data and Its Usefulness in Virus Classification. Intervirology, 34 (3), 133-141. Google Scholar Citations: 4, WoS Citations: 2, ISSN(print/online): 0300-5526/1423-0100, URL/DOI:
187)    Kolaskar, A.S. (1992). Outline of activities as Distributed Bioinformation Centre, University of Poona. Bioinformatics, 1 (4), 3-5. Google Scholar Citations: 2, ISSN(print/online): 1367-4803/1460-2059, URL/DOI:
188)    Kolaskar, A.S., Samuel, S.L. (1991). Analysis of inverted repeats in primary structure of proteins. Protein Sequences and Data Analysis, 4 (2), 105-110. Google Scholar Citations: 6, ISSN(print/online): 0931-9506, URL/DOI:
189)    Kutubuddin, M., Kolaskar, A.S., Galande, S., Gore, M.M., Ghosh, S.N., Banerjee, K. (1991). Recognition of helper T cell epitopes in envelope (E) glycoprotein of Japanese encephalitis, West Nile and dengue viruses. Molecular Immunology, 28 (1-2), 149-154. Google Scholar Citations: 44, WoS Citations: 32, ISSN(print/online): 0161-5890/1872-9142, URL/DOI:
190)    Kolaskar, A.S., Tongaonkar, P.C. (1990). A semi-empirical method for prediction of antigenic determinants on protein antigens. FEBS Letters, 276 (1-2), 172-174. Google Scholar Citations: 912, WoS Citations: 840, ISSN(print/online): 0014-5793/1873-3468, URL/DOI:
191)    Devi, A.S., Rehana, T., Kolaskar, A.S., Pandit, M.W. (1989). Hydrophilicity and antigenicity of proteins-A case study of myoglobin and hemoglobin. Journal of Biosciences, 14 (2), 133-142. Google Scholar Citations: 2, WoS Citations: 1, ISSN(print/online): 0250-5991/0973-7138, URL/DOI:
192)    Thanaraj, T.A., Kolaskar, A.S., Pandit, M.W. (1988). Prediction of the Recognition Sites on 16S and 23S rRNAs from E.coli for the Formation of 16S-23S rRNA Complex. Journal of Biomolecular Structure and Dynamics, 6 (3), 587-592. Google Scholar Citations: 3, ISSN(print/online): 0739-1102/1538-0254, URL/DOI: