Center for Systems Biology and Molecular Medicine

Center for Systems Biology and Molecular Medicine

CSBMM
Prashant Kumar Modi, Ph.D.

Associate Professor


Biography

Dr. Prashant Kumar Modi obtained his Ph.D. from Banaras Hindu University. During this period he studied the effects of aging on glial cells with special emphasis on the astrocytes of the mice brain. During his post-doctoral training at Dr. Pushkar Sharma's laboratory, National Institute of Immunology, New Delhi, he worked on delineating the molecular mechanisms involved in cell cycle related neuronal apoptosis in Alzheimer’s disease. He has been a recipient of DBT Research Associateship during 2011-2015 from Department of Biotechnology, Govt. of India. Currently, he is involved in the identification of biomarkers and novel therapeutic targets in neurodegenerative diseases such as Parkinson’s disease and Alzheimer’s disease using cutting-edge technologies in genomics, proteomics and metabolomics.

Scientific discipline
  • Genomics, proteomics and bioinformatics
  • Neurodegenerative diseases
    • Education
  • Ph.D. in Biochemistry, Banaras Hindu University, India, 2009
  • M.Sc. in Biochemistry, Devi Ahilya University, India, 2002
    • Positions held
    • Faculty Scientist, YU-IOB Center for Systems Biology and Molecular Medicine, Mangalore, India
    • DBT Research Associate, National Institute of Immunology New Delhi, India, 2011-2015
    • Project Associate, National Institute of Immunology New Delhi, India, 2010-2011
    Honors and Awards
    • Awarded SNCI-AIIMS 2013 award for the best oral presentation in 27th Annual Meeting of Society for Neurochemistry, India (SNCI) &International Conference on recent advances in molecular mechanisms in neurological disorders, AIIMS New Delhi
    • DBT Research Associateship( 2011-2012), Dept. of Biotechnology, India, 2011-2012
    • Senior Research Fellowship(2007-2009), Indian Council of Medical Research, India, 2007-2009
    • Qualified CSIR-UGC NET(LS) December, 2002
    Publications

    Research papers:34; Review articles: 0; Book Chapters: 1

    • Hegde, A., Upadhyay, S.S., Prasad, T. S. K., Modi, P. K. (2023). Chapter Sixteen - Mass spectrometry-based approaches for the identification of molecular mechanism of action of ayurvedic medicines in Parkinson disease Ayurvedic Herbal Preparations in Neurological Disorders. 425-459

    • Rex, D. A .B., Jaikanth, C., Saptami, K., Modi, P. K., Shobha, D., Raju, R., and Prasad, T. S. K. (2023). Computational design of novel Calcium/Calmodulin-Dependent protein kinase kinase 2 (CAMKK2) inhibitors. Journal of Biomolecular Structure and Dynamics. In press.

    • Mol, P., Rex, D. A. B., Dagamajalu, S., Babu, S., Chandrasekaran, P., Raghavan, R., Suresh, S., Ravishankara, N., Raju, A. H., Nair, B., Modi, P. K., Mahadevan, A., Prasad, T. S. K. and Raju, R. (2023). A network map of GDNF/RET signaling pathway in physiological and pathological conditions. Journal of Cell Communication and Signaling. [PubMed]

    • Kasaragod, S., Kotimoole, C. N., Gurtoo, S., Prasad, T. S. K., Gowda, H. and Modi, P. K. (2022). A computational workflow for predicting cancer neo-antigens. Bioinformation. 18, 214-218.

    • Deolankar, S. C., Koyangana, S. G., Patil, A. H., Subbannayya, Y., Modi, P. K. and Prasad, T. S. K. (2022). Data on multiple post-translational modifications in Alzheimer’s disease. Neuroscience Research Notes. In press.

    • Karthikkeyan, G., Behera, S. K., Upadhyay, S. S., Pervaje, R., Prasad, T. S. K. * and Modi, P. K. * (2022). Metabolomics analysis highlights Yashtimadhu (Glycyrrhiza glabra L.) mediated neuroprotection in a rotenone-induced cellular model of Parkinson’s disease by restoring the mTORC1-AMPK1 axis in autophagic regulation. Phytotherapy Research. In Press. (* Corresponding authors)

    • Rex, D. A. B., Patil, A. H., Modi, P. K., Kandiyil, M. K., Tanneru, N., Pinto, S. M., Tanneru, N., Kasaragod, S., Sijwali, P. S. and Prasad, T. S. K. (2022). Dissecting Plasmodium yoelii pathobiology: proteomics approaches for decoding novel translational and post-translational modifications. ACS Omega. In Press.

    • Rex, D. A. B., Subbannayya, Y., Modi, P. K., Palollathil, A., Gopalakrishnan, L., Bhandary, Y. P., Prasad, T. S. K.* and Pinto, S. M.* (2021). Temporal quantitative phosphoproteomics profiling of Interleukin-33 signaling network reveals unique modulators of monocyte activation. Cells. In Press.

    • Kalal, B. S., Modi, P. K., Najar, M. A., Behera, S. K., Upadhya, D., Prasad, T. S. K. and Pai, V. R. (2021). Hyperphosphorylation of HDAC2 promotes drug resistance in a novel dual drug resistant mouse melanoma cell line model: an in vitro study. American Journal of Cancer Research. In Press.

    • Dasgupta, M., Kumaresan, A., Saraf, K. K., Nag, P., Sinha, M. K., Aslam, M. K. M., Karthikkeyan, G., Prasad, T. S. K., Modi, P. K., Datta, T. K., Ramesha, K. P., Manimaran, A. and Jeyakumar, S. (2021). Deep metabolomic profiling reveals alterations in fatty acid synthesis and ketone body degradations in spermatozoa and seminal plasma of astheno-oligozoospermic bulls. Frontiers in Veterinary Science. In Press.

    • Behera, S. K., Modi, P. K., Karthikkeyan, G., Pervaje, S. K., Pervaje, R., Raju, R., Prasad, T. S. K. and Subbannayya, Y. (2021). From LC-MS/MS metabolomics profiling of Kanchanara Guggulu to molecular docking and dynamics simulation of quercetin pentaacetate with aldose reductase. Bioinformation 17(11): 911-915.

    • Gayathree, K., Prabhu, A., Pervaje, R., Pervaje S. K., Modi, P.K.* and Prasad, T. S. K.* (2021). Data on dose-dependent cytotoxicity of rotenone and neuroprotection conferred by Yashtimadhu (Glycyrrhiza glabra L.) in an in vitro Parkinson’s disease model. Data in Brief. In press.

    • Gupta, M. D., Kumaresan, A., Saraf, K., Paul, N., Kumar, S., Karthikkeyan, G., Prasad, T. S. K., Modi, P. K., Ramesha, K. P., Manimaran, A. and Jeyakumar, S. (2021). Deciphering metabolomic alterations in seminal plasma of crossbred (Bos taurus X Bos indicus) bulls through comparative deep metabolomic analysis. Andrologia. In press.

    • Najar, M. A., Aravind, A., Dagamajalu, S., Sidransky, D., Ashktorab, H., Smoot, D. T., Gowda, H., Prasad, T. S. K., Modi, P. K. and Chatterjee, A. (2021). Hyperactivation of MEK/ERK pathway by Ca 2+ /calmodulin-dependent protein kinase kinase 2 promotes cellular proliferation by activating cyclin-dependent kinases and minichromosome maintenance protein in gastric cancer cells. Molecular Carcinogenesis. [PubMed]

    • Kalal, B. S.,Modi, P. K., Upadhya, D., Saha, P., Prasad, T. S. K. and Pai, V. R. (2021). Inhibition of Bone morphogenetic proteins signaling suppresses metastasis melanoma: A proteomics approach. American Journal of Translational Research. In press.

    • Rex, D. A. B., Kumar, S. T. A., Modi, P. K. and Prasad, T. S. K. (2021). Broadening COVID-19 Interventions to Drug Innovation: Neprilysin Pathway as a Friend, Foe or Promising Molecular Target? OMICS: A Journal of Integrative Biology. In press

    • Rex, D. A. B., Kumar, S. T. A., Rai, B. A., Kotimoole, C. N., Modi, P. K. and Prasad, T. S. K. (2021). Novel Post-translational Modifications and Molecular Substrates in Glioma Identified by Bioinformatics. OMICS: A Journal of Integrative Biology. In press.

    • Najar, M. A., Rex, D. A. B., Modi, P. K. , Agarwal, N., Dagamajalu, S., Karthikkeyan, G., Vijayakumar, M., Chatterjee, A., Sankar, A. and Prasad, T. S. K. (2021). A complete map of the Calcium/calmodulin-dependent protein kinase kinase 2 (CAMKK2) signaling pathway. Journal of Cell Communication and Signaling.15, 283–290. [PubMed]

    • Najar. M. A., Modi. P. K., Ramesh. P., Sidransky. D., Gowda. H., Prasad T.S.K., and Chatterjee. (2021). "Molecular profiling associated with Calcium/calmodulin-dependent protein kinase kinase 2 (CAMKK2) mediated carcinogenesis in gastric cancer". Journal of Proteome Research. In press.

    • Shaikh, S., Najar, M. A., Prabhu, A., Rex, D. A. B., Chanderasekaran, J., Behera, S., Modi, P., Prasad, T. S. K. and Bhandary, Y. (2021). The unique molecular targets associated anti-oxidant and anti-fibrotic activity of curcumin in in vitro model of acute lung injury: A proteomic approach. BioFactors. In press.
    • Karthikkeyan, G., Pervaje, R., Pervaje, S. K., Prasad, T.S.K., and Modi, P.K. (2021). Prevention of MEK-ERK-1/2 hyper-activation underlines the neuroprotective effect of Glycyrrhiza glabra L. (Yashtimadhu) against rotenone-induced cellular and molecular aberrations. Journal of Ethnopharmacology. In Press
    • DasGupta, M., Kumaresan, A., Saraf, K. K., Karthikkeyan, G., Prasad, T. S. K., Modi, P. K., Ramesha, K., Jeyakumar, S. and Manimaran, A. (2021). Preliminary comparative deep-metabolomic analysis of spermatozoa from zebu and crossbred cattle suggests associations between metabolites, sperm quality and fertility. Reproduction, Fertility and Development. In Press.
    • Karthikkeyan, G., Pervaje, R., Subbannayya, Y., Patil, A. H., Modi, P. K*. and Prasad, T. S. K. (2020). Plant Omics: Metabolomics andNetwork Pharmacology of Liquorice, Indian Ayurvedic medicine Yashtimadhu. OMICS: A Journal of Integrative Biology. In Press. (* Corresponding author)
    • Karthikkeyan, G., Najar, M. A., Pervaje, R., Pervaje, S. K., Modi, P. K*. and Prasad, T. S. K. (2020). Identification of Molecular Network Associated with Neuro protective Effects of Yashtimadhu (Glycyrrhiza glabra L.) by Quantitative Proteomics of Rotenone-Induced Parkinson’s Disease Model. ACS Omega. [PubMed] (* Corresponding author)
    • Dagamajalu, S., Rex, D. A. B., Gopalakrishnan, L., Karthikkeyan, G., Gurtoo. S., Modi, P. K., Mohanty, V., Rahiman, M., Soman, S., Raju, R., Tiwari, V. and Prasad, T. S. K. (2020). A network map of endothelin mediated signaling pathway. Journal of Cell Communication and Signaling. In press.
    • Gouda, M., Rex D. A. B., Sindu, P. E. S., Modi, P. K., Chanderasekaran, J., Bhandary, Y. P. (2020). Proteomics analysis revealed the importance of inflammation-mediated downstream pathways and the protective role of curcumin during bleomycin-induced pulmonary fibrosis in C57BL/6 mice. Journal of Proteome Research. [PubMed]
    • Chauhan, M., Modi, P. K. and Sharma, P. (2020). Aberrant activation of neuronal cell cycle caused by dysregulation of ubiquitin ligase Itch results in neurodegeneration.Cell Death Disease. [PubMed]
    • Sandeep, K., Varshasnata, M., Tyagi, A., Behera, S. K., Patil, A. H., Sneha M Pinto, S. M., Prasad, T. S. K., Modi, P. K*., and Gowda, H*. (2020). CusVarDB: A tool for building customized sample-specific variant protein database from next-generation sequencing datasets. F1000Research. (* corresponding author)
    • Keekan, K. K., Hallur, S., Modi, P. K., Shastry, R. P. (2020). Antioxidant Activity and Role of Culture Condition in the Optimization of Red Pigment Production by Talaromyces purpureogenus KKP Through Response Surface Methodology. Current Microbiology. [PubMed]
    • Saraf, K. K., Kumaresan, A. , Dasgupta, M., Karthikkeyan, G., Prasad, T. S. K., Modi, P. K., Ramesha, K., Jeyakumar, S., Manimaran, A. (2020). Metabolomic fingerprinting of bull spermatozoa for identification of fertility signature metabolites. Molecular Reproduction and Development. [PubMed]
    • Deolankar, S.C*., Modi, P. K*., Subbannayya, Y., Pervaje, R., Prasad, T. S. K. (2020). Molecular Targets from Traditional Medicines for Neuroprotection in Human Neuro degenerative Diseases. OMICS: A Journal of Integrative Biology. [PubMed] (* Equal first author)
    • Modi, P. K*., Prabhu, A*., Bhandary, Y. P*., Shenoy, P. S.*, Hegde, A., Es, S. P., Johnson, R. P., Das, S. P., Vazirally, S., Rekha, P. D. (2019). Effect of calcium glucoheptonate on proliferation and osteogenesis of osteoblast-like cells in vitro. PLos One. 14, e0222240. [PubMed] (* Equal first author)
    • Deolankar, S. C., Patil, A. H., Koyangana, S. G., Subbannayya, Y., Prasad, T. S. K. and Modi, P. K*. (2019). Dissecting Alzheimer’s disease molecular substrates by proteomics and discovery of novel post-translational modifications (PTMs). OMICS: A Journal of Integrative Biology. [PubMed] (* corresponding author)
    • Sahu, A., Gopalakrishnan, L., Gaur, N., Chatterjee, O., Mol, P., Modi, P. K., Dagamajalu, S., Advani, J., Jain, S. and Prasad, T. S. K. (2018). The 5-Hydroxytryptamine signaling map: an overview of the serotonin-serotonin receptor-mediated signaling network. Journal of Cell Communication and Signaling. 12, 731-735. [PubMed]
    • Modi, P. K., Jaiswal, S. and Sharma P. (2016). Regulation of Neuronal Cell Cycle and Apoptosis by MicroRNA 34a. Molecular and Cellular Biology. 36:84-94. [PubMed]
    • Modi, P. K.*, Komaravelli, N.*, Singh, N. and Sharma P. (2012). Interplay between MEK-ERK signaling, cyclin D1 and cyclin dependent kinase 5 regulates cell cycle reentry and apoptosis of neurons. Molecular Biology of the Cell. 18:3722-30. (Recommended by the faculty of 1000), (*Equal contribution). [PubMed]
    • Modi, P. K. and Kanungo, M. S. (2010). Age-dependent expression of S100beta in the brain of mice. Cellular and Molecular Neurobiology. 5:709-16. [PubMed]

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