1.
Upadhyay SS, Shetty R, Prasad TSK. Prospects for the discovery of actionable molecular targets for triple negative breast cancer. In: Book Chapter; 2025.
In press
2.
Suchitha GP, Rai AB, Pervaje R, Kotimoole CN, Modi PK, Prasad TSK, et al. Proteomic analysis reveals anticancer mechanisms of Bhallataka Taila in inhibiting lung cancer progression and metastasis. Molecular Omics. 2025;21(2):122–34.
[DOI]3.
Sreelakshmi K, Hemavathi KN, Raju R, Sameer K, Prasad TSK, Sudhakaran PR, et al. Identification and stability analysis of potential ADP‐ribose modification sites on vascular endothelial growth factor (VEGF) through molecular dynamics simulation. Journal of Biomolecular Structure and Dynamics. 2025;43(7):3406–14.
[DOI]4.
Shastry RP, Hameed A, Banerjee S, Prabhu A, Bajire SK, Pavan B SR, et al. Tryptic oncopeptide secreted from the gut bacterium Cronobacter malonaticus PO3 promotes colorectal cancer. Scientific Reports. 2025;
[DOI]5.
Shaji V, Amrutha S, Pervaje R, Abhinand CS, Raju R, Prasad TSK, et al. Exploration of Asparagus racemosus Willd for Alzheimer’s Disease Through Integrated Metabolomics and Network Pharmacology Analyses Targeting BACE1 Protein. Neurochemical Research. 2025;50(3).
[DOI]6.
Sarma A, Phukan H, Rex DAB, Thoduvayil S, Dhandapani G, Christie S, et al. Exoproteome profiling reveals increased secretion of adhesins and proteases by Leptospira interrogans to facilitate host colonization and immune modulation. ACS Omega. 2025;
[DOI]7.
Roy O, Ammankallu S, Narayana VK, Narayana C, Hebbar S, Adiga PK, et al. Mass Spectrometric Analysis of Clomiphene Citrate‐induced Changes in the Secretome Profile of PAX8‐positive Human Fallopian Tube Secretory Epithelial Cells and Identification of Biomarkers Relevant to Reproduction and Pregnancy. Reproductive Sciences. 2025:1–19.
[DOI]8.
Rex DAB, Prasad TSK. Data analysis pipelines, potential pitfalls, and troubleshooting for MS‐based biomarker discovery and validation. In: Book Chapter; 2025.
In press
9.
Ramesh P, Akbar KCJ, Prasad TSK. Protein biomarkers for diagnosing gastric cancers. In: Book Chapter; 2025.
In press
10.
Rai AB, Codi JAK, Suchitha GP, Hemavathi KN, Dagamajalu S, Abhinand CS. Mapping growth differentiation factor‐15 (GDF15)‐mediated signaling pathways in cancer: insights into its role across different cancer types. Discover Oncology. 2025;16(1):1–15.
[DOI]11.
Poojary KK, Kunhiraman JP, Madhvacharya K VV, S K, N SSP, Kalthur G. Bromodomain and extraterminal protein inhibitor JQ1 induces maturation arrest and disrupts the cytoplasmic organization in mouse oocytes under in vitro conditions. Scientific Reports. 2025;15(1).
[DOI]12.
Parate SS, Vijayakumar M, Prasad TSK. Ex vivo drug assay as a potential hospital‐based testing platform for clinical research and personalized treatment for solid tumors. In: Book Chapter; 2025.
In press
13.
Palollathil A, Dagamajalu S, Ahmed M, Vijayakumar M, Prasad TSK, Raju R. The network map of mucin 1 mediated signaling in cancer progression and immune modulation. Discover Oncology. 2025;16(1):1–15.
[DOI]14.
Nisar M, Soman SP, Sreelan S, John L, Pinto SM, Kandasamy RK, et al. ProteoArk: A One‐Pot Proteomics Data Analysis and Visualization Tool for Biologists. Journal of Proteome Research. 2025;24(3):1008–16.
[DOI]15.
Nekrakalaya B, Kotimoole CN, Arefian M, Prasad TSK, Palliyath GK, Hanumanthappa PV, et al. A Gel‐Free Genome Annotation Provides Insights into the Proteome of the Oomycete Phytophthora meadii, a Disease‐Causing Pathogen in Economically Important Crops. OMICS: A Journal of Integrative Biology. 2025;
[DOI]16.
Mallick S, Narayana VK, Rai AB, Upadhyay SS, Prasad TSK, Shenoy S, et al. Hematopoietic stem cell conditioned media induces apoptosis in colorectal cancer stem cells via dysregulation of HSP90 and 26S proteasome system. International Journal of Biochemistry & Cell Biology. 2025;184(106773).
[DOI]17.
Mahin A, Gopalakrishnan AP, Ahmed M, Nisar M, John L, Shivamurthy PB, et al. Orchestrating Intracellular Calcium Signaling Cascades by Phosphosite‐Centric Regulatory Network: A Comprehensive Analysis on Kinases CAMKK1 and CAMKK2. OMICS: A Journal of Integrative Biology. 2024;29(4):139–53.
[DOI]18.
Mahadevaswamy M, Suchitha GP, Pavan V SR, HK N, SD C, S S, et al. Naringin attenuates angiotensin II induced cardiac hypertrophy by inhibiting carbonic anhydrase II. Scientific Reports. 2025;15(1).
[DOI]19.
Krishna RM, Maruthakasi S, Arulappan J, Raghava LK, Abdulla SA, Budhwar R, et al. The Genome Sequence of the Rugose Spiraling Whitefly (Aleurodicus rugioperculatus Martin): Insights on Biology of an Invasive Agricultural Insect Pest and Implications for Pest Control. OMICS: A Journal of Integrative Biology. 2025;
[DOI]20.
Kapoor A, Meitei NS, Bisht VS, Najar MA, Giri K, Prasad TSK, et al. Lactation stage‐specific variations in health and lipid‐associated milk fat globule membrane proteins in Holstein Friesian cow and Murrah buffalo. International Dairy Journal. 2025;
[DOI]21.
Bisht VS, Kumar D, Najar MA, Giri K, Kaur J, Prasad TSK, et al. Drug response‐based precision therapeutic selection for tamoxifen‐resistant triple‐positive breast cancer. Journal of Proteomics. 2025;
[DOI]22.
Bhat S, Narayana VK, Prasad TSK. Metabolomics studies in Cushing’s syndrome: recent developments and perspectives. Expert Review of Proteomics. 2025;22(2):59–69.
[DOI]23.
Banjan B, Raju R, Prasad TSK, Abhinand CS. Computational identification of potential bioactive compounds from Triphala against alcoholic liver injury by targeting alcohol dehydrogenase. Molecular Diversity. 2025;29(1):623–38.
[DOI]24.
Aravind A, Shaji V, Ahmed M, Dagamajalu S, Vijayakumar M, Prasad TSK, et al. An assembled molecular signaling map of interleukin‐24: a resource to decipher its multifunctional immunoregulatory role in pathophysiological conditions. Frontiers in Immunology. 2025;16(1608101).
[DOI]25.
Ananthakrishnan AI, Mahin A, Prasad TSK, Abhinand CS. Transcriptome Profiling and Viral–Human Interactome Insights into HBV‐Driven Oncogenic Alterations in Hepatocellular Carcinoma. Microbiology and Immunology. 2025;
In press
26.
Amrutha S, Abhinand CS, Upadhyay SS, Pervaje R, Prasad TSK, Modi PK. Network pharmacology and metabolomics analysis of Tinospora cordifolia reveals BACE1 and MAOB as potential therapeutic targets for neuroprotection in Alzheimer’s disease. Scientific Reports. 2025;15(8103).
[DOI]27.
Vijayakumar P, Mishra A, Pinto SM, Subbannayya Y, Sood R, Prasad TSK. Proteomics analysis of duck lung tissues in response to highly pathogenic avian influenza virus. Microorganisms. 2024;
[DOI]28.
Vasishta S, Ammankallu S, Umakanth S, Prasad TSK, Joshi MB. DNA methyltransferase isoforms regulate endothelial cell exosome proteome composition. 2024.
[DOI]29.
Vasishta S, Ammankallu S, Poojary G, Gomes SM, Ganesh K, Umakanth S, et al. High glucose induces DNA methyltransferase 1 dependent epigenetic reprogramming of the endothelial exosome proteome in type 2 diabetes. International Journal of Biochemistry & Cell Biology. 2024;
[DOI]30.
Suchitha GP, Devasahayam Arokia Balaya R, Prasad TK, Dagamajalu S. A signaling network map of Lipoxin (LXA4): an anti-inflammatory molecule. Inflammation Research. 2024;
[DOI]31.
Suchitha GP, Jaikanth C, Saptami K, George M, Prasad TSK, Raju R. Cisplatin and Procaterol combination in gastric cancer? Targeting checkpoint kinase 1 (CHK1) for cancer drug discovery and repurposing by an integrated computational and experimental approaches. OMICS. 2024;
[DOI]32.
Suchitha GP, Dagamajalu S, Prasad TSK, Rex DAB. A comprehensive network map of Interleukin-26 signaling pathway. J Interferon Cytokine Res. 2024;
[DOI]33.
Singh I, Hoti SL, Chauhan N, Joshi RK, Prasad TSK, Sarikhani M. Immunomodulation of streptozotocin-induced Type 1 Diabetes Mellitus in mouse model by Macrophage Migration Inhibitory Factor-2 (MIF-2) homologue of human lymphatic filarial parasite, Wuchereria bancrofti. 2024.
[DOI]34.
Singh I, Anagha A, Kotimoole CN, Modi PK, Prasad TSK, Hoti SL. Unpacking immune modulation as a site of therapeutics innovation for nematode parasite Wuchereria bancrofti. 2024.
[DOI]35.
Shaji V, Dagamajalu S, Sanjeev D, George M, Kanekar S, Prasad G. Deciphering the receptor-mediated signaling pathways of Interleukin-19 and Interleukin-20. J Interferon Cytokine Res. 2024;
[DOI]36.
Devasahayam Arokia Balaya R, Palollathil A, Kumar ST, Chandrasekaran J, Upadhyay SS, Parate SS, Sajida M, Karthikkeyan G, Prasad TS. Role of Hemigraphis alternata in wound healing: metabolomic profiling and molecular insights into mechanisms. Scientific Reports. 2024;
[DOI]37.
Rawat A, Antil N, Meenakshi, Deshmukh B, Rai AB, Nagar A, Kumar N, Prasad TK, Karmodiya K, Sharma P. PfPPM2 signalling regulates asexual division and sexual conversion of human malaria parasite Plasmodium falciparum. Nature Communications. 2025;
[DOI]38.
Ramesh P, Nisar M, Ammankallu S, Babu S, Nandakumar R, Abhinand CS, Prasad TS, Codi JA, Raju R. Delineating protein biomarkers for gastric cancers: A catalogue of mass spectrometry-based markers and assessment of their suitability for targeted proteomics applications. Journal of Proteomics. 2024
[DOI]39.
Priyanka P, Gopalakrishnan AP, Nisar M, Shivamurthy PB, George M, John L. A global phosphosite-correlated network map of Thousand And One Kinase 1 (TAOK1. Int J Biochem Cell Biol. 2024;
[DOI]40.
Pooja YT, Nair AS, D’silva S, Aravind A, Mallya S, Soman SP. Neutrophils display distinct post-translational modifications in response to varied pathological stimuli. Int Immunopharmacol. 2024;
[DOI]41.
Parate SS, Upadhyay SS, Amrutha S, Karthikkeyan G, Pervaje R, Abhinand CS. Comparative metabolomics and network pharmacology analysis reveals shared neuroprotective mechanisms of Bacopa monnieri (L.) Wettst and Centella asiatica (L.) Urb. Mol Neurobiol. 2024;
[DOI]42. Palollathil A, Babu S, Abhinand CS, Mathew RT, Vijayakumar M, Prasad TS. Proteomic profiling of oral squamous cell carcinoma tissues altered-related proteins: implications for personalized therapy. Expert review of proteomics. [DOI]
43.
Pai AA, Upadhyay SS, Thattai AKS, Parate SS, Illangeswaran RST, Renji RM. Global plasma metabolomic profiling reveals dysregulated lipid metabolism in patients with hepatic sinusoidal obstruction syndrome - a pilot biomarker study. Transplant Cell Ther. 2024;
[DOI]44.
Munjal A, Rex DA, Prasad TK, Mukherjee S, Pati S, Singh S. Mass spectrometric identification of the secretome of Plasmodium falciparum merozoites to provide novel candidates for vaccine development pipeline. Authorea Preprints. 2024;
[DOI]45.
Munjal A, Rex DAB, Garg B, Prasad TSK, Mishra SK, Malhotra Y. Mass spectrometric and Artificial Intelligence-based identification of the secretome of Plasmodium falciparum merozoites to provide novel candidates for vaccine development pipeline. Proteomics Clin Appl. 2024;
[DOI]46.
Mishra D, Shekhar S, Subba P, Prasad TSK, Chakraborty S, Chakraborty N. Wheat TaNACα18 functions as a positive regulator of high-temperature adaptive responses and improves cell defense machinery. Plant J. 2024;
[DOI]47.
Mahin A, Soman SP, Modi PK, Raju R, Keshava Prasad TS, Abhinand CS. Meta-analysis of the serum/plasma proteome identifies significant associations between COVID-19 with Alzheimer’s/Parkinson’s diseases. Journal of neurovirology. 2024;
[DOI]48.
Mahin A, Chikmagalur Ravindra S, Ramesh P, Naik P, Raju R, Keshava Prasad TS, Abhinand CS. Unveiling Actin Cytoskeleton Role in Mediating Chikungunya-Associated Arthritis: An Integrative Proteome–Metabolome Study. Vector-Borne and Zoonotic Diseases. 2024;
[DOI]49.
Kunnath AN, Parker SK, Crasta DN, Kunhiraman JP, Madhvacharya VV, Kumari S, Nayak G, Lakshmi RV, Modi PK, Prasad TS, Kumar A. Metformin augments major cytoplasmic organization except for spindle organization in oocytes cultured under hyperglycemic and hyperlipidemic conditions: An in vitro study. Toxicology and Applied Pharmacology. 2024
[DOI]50.
Kotimoole CN, Ramya VK, Kaur P, Reiling N, Shandil RK, Narayanan S. Discovery of species-specific proteotypic peptides to establish a spectral library platform for the identification of non-tuberculosis mycobacteria from mass spectrometry-based proteomics. J Proteome Res. 2024;
[DOI]51.
Hemavathi KN, Skariyachan S, Raju R, Prasad TSK, Abhinand CS. Computational screening of potential anti-inflammatory leads from Jeevaneeya Rasayana plants targeting COX-2 and 5-LOX by molecular docking and dynamic simulation approaches. Comput Biol Med. 2024;
[DOI]52.
Hemavathi KN, Middha SK, Raju R, Pilankatta R, Prasad TSK, Abhinand CS. Computational screening of phytocompounds from C. amboinicus identifies potential inhibitors of Influenza A (H3N2) virus by targeting hemagglutinin. J Biomol Struct Dyn. 2024;
In press
53.
Hegde PS, Agni MB, Rai P, Upadhyay SS, Aravind A, Prasad TSK, et al. Supplementation of diet with astaxanthin and DHA prevents gestational and lactational undernourishment induced metabolic derangements in dams. 2024.
[DOI]54.
Gupta P, Goswami SG, Kumari G, Saravanakumar V, Bhargava N, Rai AB. Development of pathophysiologically relevant models of sickle cell disease and β-thalassemia for therapeutic studies. Nat Commun. 2024;
[DOI]55.
D’Cunha R, Aravind A, Bhaskar S, Mutalik SP, Mutalik S, Kalthur SG, et al. Enhanced cell survival in prepubertal testicular tissue cryopreserved with membrane lipids and antioxidants rich cryopreservation medium. Cell and Tissue Research. 2024;
[DOI]56.
Aziz RA, Ramesh P, Suchithra KV, Stothard P, Narayana VK, Raghu SV. Comprehensive insights into the impact of bacterial indole-3-acetic acid on sensory preferences in Drosophila melanogaster. Sci Rep. 2024;
[DOI]57.
Aravind A, Mathew RT, Kuruba L, Vijayakumar M, Prasad TSK, et al. Proteomic analysis of peripheral blood mononuclear cells from OSCC patients reveals potential immune checkpoints to enable personalized treatment. Molecular Omics. 2024;
[DOI]58.
Krishnan D, Babu S, Raju R, Veettil MV, Prasad TS, Abhinand CS. Epstein–Barr Virus: Human Interactome Reveals New Molecular Insights into Viral Pathogenesis for Potential Therapeutics and Antiviral Drug Discovery. OMICS: A Journal of Integrative Biology. 2024;
[DOI]59.
Rawat RS, Gupta A, Antil N, Bhatnagar S, Singh M, Rawat A, Prasad TK, Sharma P. Protein kinase PfPK2 mediated signalling is critical for host erythrocyte invasion by malaria parasite. PLoS Pathogens. 2023
[DOI]60.
Ranade AV, Hegde PS, Bhat MA, Rai P, Vinodini NA, Aravind A, Prasad TS, Damodara Gowda KM. Astaxanthin and DHA supplementation ameliorates the proteomic profile of perinatal undernutrition-induced adipose tissue dysfunction in adult life. Scientific reports. 2023;
[DOI]61.
Phukan H, Sarma A, Rex DA, Christie SA, Sabu SK, Hariharan S, Prasad TS, Madanan MG. Physiological temperature and osmotic changes drive dynamic proteome alterations in the leptospiral outer membrane and enhance protein export systems. Journal of Proteome Research. 2023;
[DOI]62.
Varghese B, Babu S, Jala A, Das P, Raju R, Borkar RM, Adela R. Integrative placental multi-omics analysis reveals perturbed pathways and potential prognostic biomarkers in gestational hypertension. Archives of Medical Research. 2024;
63.
Hegde A, Upadhyay SS, Prasad TS, Modi PK. Mass spectrometry–based approaches for the identification of molecular mechanism of action of ayurvedic medicines in Parkinson disease. InAyurvedic Herbal Preparations in Neurological Disorders 2023;
[DOI]64.
Banjan B, Krishnan D, Koshy AJ, Soman S, Leelamma A, Raju R, Revikumar A. In-silico screening and identification of potential drug-like compounds for dengue-associated thrombocytopenia from Carica papaya leaf extracts. Journal of Biomolecular Structure and Dynamics. 2024 Jul 23;42(11):5963-81.
[DOI]65.
Devadasan MJ, Ramesha KP, Ramesh P, Kootimole CN, Jeyakumar S, Ashwitha A, Ammankallu S, Rai AB, Kumaresan A, Vedamurthy VG, Raju R. Exploring molecular dynamic indicators associated with reproductive performance of Bos indicus cattle in blood plasma samples through data-independent acquisition mass spectrometry. Journal of Proteomics. 2023;
[DOI]66.
Mangalaparthi KK, Patel K, Khan AA, Nair B, Kumar RV, Prasad TS, Sidransky D, Chatterjee A, Pandey A, Gowda H. Molecular characterization of esophageal squamous cell carcinoma using quantitative proteomics. Cancers. 2023;
[DOI]67.
Ramesh P, Behera SK, Kotimoole CN, Mohanty V, Raju R, Prasad TK, Codi JA. Mining proteomics data to extract post-translational modifications associated with gastric cancer. Amino Acids. 2023;
[DOI]68. Shastry RP, Abhinand CS. Targeting the Pseudomonas aeruginosa quorum sensing system to inhibit virulence factors and eradicate biofilm formation using AHL-analogue phytochemicals. Journal of Biomolecular Structure and Dynamics. 2024; [DOI]
69.
Kumar S, Balaya RD, Kanekar S, Raju R, Prasad TS, Kandasamy RK. Computational tools for exploring peptide-membrane interactions in gram-positive bacteria. Computational and Structural Biotechnology Journal. 2023;
[DOI]70.
Suchitha GP, Balaya RD, Raju R, Keshava Prasad TS, Dagamajalu S. A network map of cytoskeleton-associated protein 4 (CKAP4) mediated signaling pathway in cancer. Journal of Cell Communication and Signaling. 2023;
[DOI]71.
Upadhyay SS, Devasahayam Arokia Balaya R, Parate SS, Dagamajalu S, Keshava Prasad TS, Shetty R, Raju R. An assembly of TROP2-mediated signaling events. Journal of Cell Communication and Signaling. 2023;
[DOI]72.
Kotimoole CN, Antil N, Kasaragod S, Behera SK, Aravind A, Reiling N, Flo TH, Prasad TS. Development of a Spectral Library for the Discovery of Altered Genomic Events in Mycobacterium avium Associated With Virulence Using Mass Spectrometry–Based Proteogenomic Analysis. Molecular & Cellular Proteomics. 2023;
[DOI]73.
Sanjeev D, Dagamajalu S, Shaji V, George M, Subbannayya Y, Prasad TK, Raju R, Devasahayam Arokia Balaya R. A network map of macrophage-stimulating protein (MSP) signaling. Journal of Cell Communication and Signaling. 2023;
[DOI]74.
Devasahayam Arokia Balaya R, Chandrasekaran J, Kanekar S, Kumar Modi P, Dagamajalu S, Gopinathan K, Raju R, Prasad TK. Calcium/calmodulin-dependent protein kinase kinase 2 (CAMKK2) inhibitors: a novel approach in small molecule discovery. Journal of Biomolecular Structure and Dynamics. 2023;
In press
75.
Abhinand CS, Galipon J, Mori M, Ramesh P, Prasad TS, Raju R, Sudhakaran PR, Tomita M. Temporal phosphoproteomic analysis of VEGF-A signaling in HUVECs: an insight into early signaling events associated with angiogenesis. Journal of Cell Communication and Signaling. 2023;
In press
76.
Mol P, Balaya RD, Dagamajalu S, Babu S, Chandrasekaran P, Raghavan R, Suresh S, Ravishankara N, Raju AH, Nair B, Modi PK. A network map of GDNF/RET signaling pathway in physiological and pathological conditions. Journal of Cell Communication and Signaling. 2023;
[DOI]77.
Husain AA, Pinto SM, Agarwal N, Behera SK, Khulkhule PR, Bhartiya NM, Subbannayya Y, Prasad TK, Singh LR, Daginawala HF, Kashyap RS. Comprehensive proteomic analysis of Brucella melitensis ATCC23457 strain reveals metabolic adaptations in response to nutrient stress. Current microbiology. 2023;
[DOI]78.
Ramesh P, Babu S, Ammankallu S, Codi JA, Prasad TS, Raju R. Helicobacter pylori regulated microRNA map of human gastric cells. Helicobacter. 2023 Feb;28(1):e12941.
[DOI]79.
Abhinand CS, Prabhakaran AA, Krishnamurthy A, Raju R, Keshava Prasad TS, Nair AS, Rajasekharan KN, Oommen OV, Sudhakaran PR. SARS-CoV-2 variants infectivity prediction and therapeutic peptide design using computational approaches. Journal of Biomolecular Structure and Dynamics. 2023;
[DOI]80.
Dagamajalu S, Rex DA, Suchitha GP, Rai AB, Kumar S, Joshi S, Raju R, Prasad TK. A network map of discoidin domain receptor 1 (DDR1)-mediated signaling in pathological conditions. Journal of Cell Communication and Signaling. 2023;
[DOI]81.
Chatterjee O, Gopalakrishnan L, Pullimamidi D, Raj C, Yelamanchi S, Gangadharappa BS, Nair B, Mahadevan A, Raju R, Keshava Prasad TS. A molecular network map of orexin-orexin receptor signaling system. Journal of cell communication and signaling. 2023;
[DOI]82.
Rex DA, Dagamajalu S, Gouda MM, Suchitha GP, Chanderasekaran J, Raju R, Prasad TK, Bhandary YP. A comprehensive network map of IL-17A signaling pathway. Journal of Cell Communication and Signaling. 2023;
[DOI]83.
Ashwitha A, Ramesha KP, Ramesh P, Kootimole CN, Devadasan MJ, Ammankallu S, Jeyakumar S, Kumaresan A, Veerappa VG, Das DN, Prasad TS. Quantitative proteomics profiling of spermatozoa and seminal plasma reveals proteins associated with semen quality in Bos indicus bulls. Journal of Proteomics. 2023;
[DOI]84.
Husain AA, Pinto SM, Subbannayya Y, Kapoor S, Khulkhule P, Bhartiya N, Prasad TK, Daginawala HF, Singh LR, Kashyap RS. Development of multiple reaction monitoring (MRM) assays to identify Brucella abortus proteins in the serum of humans and livestock. PROTEOMICS–Clinical Applications. 2023;
[DOI]85.
Abhinand CS, Ibrahim J, Keshava Prasad TS, Raju R, Oommen OV, Nair AS. Molecular docking and dynamics studies for the identification of Nipah virus glycoprotein inhibitors from Indian medicinal plants. Journal of Biomolecular Structure and Dynamics. 2023;
[DOI]86.
Arefian M, Prasad TS. Susceptibility of rice crop to salt threat: proteomic, metabolomic, and physiological inspections. Journal of Proteome Research. 2022;
[DOI]87.
Deolankar SC, Najar MA, Ramesh P, Kanichery A, Kudva AK, Raghu SV, Prasad TK. Discovery of molecular networks of neuroprotection conferred by brahmi extract in Aβ42-induced toxicity model of Drosophila melanogaster using a quantitative proteomic approach. Molecular neurobiology. 2023;
[DOI]88.
Ramesh P, Bajire SK, Kanichery A, Najar MA, Shastry RP, Prasad TK. 6-Methylcoumarin rescues bacterial quorum sensing induced ribosome-inactivating stress in Caenorhabditis elegans. Microbial Pathogenesis. 2022;
[DOI]89.
Anusha-Kiran Y, Mol P, Dey G, Bhat FA, Chatterjee O, Deolankar SC, Philip M, Prasad TK, Bharath MS, Mahadevan A. Regional heterogeneity in mitochondrial function underlies region specific vulnerability in human brain ageing: Implications for neurodegeneration. Free Radical Biology and Medicine. 2022;
[DOI]90.
Deolankar SC, Najar MA, Ramesh P, Kanichery A, Kudva AK, Raghu SV, Prasad TK. Discovery of molecular networks of neuroprotection conferred by brahmi extract in Aβ42-induced toxicity model of Drosophila melanogaster using a quantitative proteomic approach. Molecular neurobiology. 2023;
[DOI]91.
Chatterjee O, Gopalakrishnan L, Pullimamidi D, Raj C, Yelamanchi S, Gangadharappa BS, Nair B, Mahadevan A, Raju R, Keshava Prasad TS. A molecular network map of orexin-orexin receptor signaling system. Journal of cell communication and signaling. 2023;
[DOI]92.
Najar MA, Arefian M, Sidransky D, Gowda H, Prasad TK, Modi PK, Chatterjee A. Tyrosine phosphorylation profiling revealed the signaling network characteristics of CAMKK2 in gastric adenocarcinoma. Frontiers in Genetics. 2022;
[DOI]93.
Nizamuddin A, Ramesha KP, Rana E, Kasargod S, Behera SK, Ashokan M, Patil AH, Jeyakumar S, Kumaresan A, Kataktalware MA, Das DN. Transcriptomic analysis of PBMCs reveals COX3, BCL2, ATP2B4, B4GALT1, LACTB, FASN and CSN family genes regulating milk performance in lactating Bos indicus cows of Southern India.
[DOI]94.
Gopalakrishnan L, Chatterjee O, Ravishankar N, Suresh S, Raju R, Mahadevan A, Prasad TK. Opioid receptors signaling network. Journal of Cell Communication and Signaling. 2022;
[DOI]95.
Kumari G, Rex DA, Goswami S, Mukherjee S, Biswas S, Maurya P, Jain R, Garg S, Prasad TS, Pati S, Ramalingam S. Dynamic palmitoylation of red cell membrane proteins governs susceptibility to invasion by the malaria parasite, Plasmodium falciparum. ACS Infectious Diseases. 2022;
[DOI]96.
Mol P, Gopalakrishnan L, Chatterjee O, Mangalaparthi KK, Kumar M, Durgad SS, Nair B, Shankar SK, Mahadevan A, Prasad TS. Proteomic analysis of adult human hippocampal Subfields demonstrates Regional Heterogeneity in the protein expression. Journal of Proteome Research. 2022 Aug 30;21(10):2293-310.
[DOI]97.
Anam Z, Kumari G, Mukherjee S, Rex DA, Biswas S, Maurya P, Ravikumar S, Gupta N, Kushawaha AK, Sah RK, Chaurasiya A. Complementary crosstalk between palmitoylation and phosphorylation events in MTIP regulates its role during Plasmodium falciparum invasion. Frontiers in Cellular and Infection Microbiology. 2022;
[DOI]98.
Rex DA, Keshava Prasad TS, Kandasamy RK. Revisiting regulated cell death responses in viral infections. International journal of molecular sciences. 2022;
[DOI]99.
Subba P, Prasad TS. Scope of Proteogenomic Analysis for Indian Sandalwood (Santalum Album). InThe Sandalwood Genome 2022 Mar 1 (pp. 89-97). Cham: Springer International Publishing.
[DOI]100.
Kasaragod S, Kotimoole CN, Gurtoo S, Prasad TS, Gowda H, Modi PK. A computational workflow for predicting cancer neo-antigens. Bioinformation. 2022;
[DOI]101.
Shah SR, Mohanty V, Chaudhury D, Prasad TK, Shenoy MM. Evaluation of serum proteome from Indian psoriasis patients. Bioinformation. 2022;
[DOI]102.
Mol P, Chatterjee O, Gopalakrishnan L, Mangalaparthi KK, Bhat F, Kumar M, Nair B, Shankar SK, Mahadevan A, Prasad TS. Age-associated molecular changes in human Hippocampus subfields as determined by quantitative proteomics. OMICS: A Journal of Integrative Biology. 2022;
[DOI]103.
Yelamanchi SD, Mishra A, Behra SK, Karthikkeyan G, Keshava Prasad TS, Surolia A. Rifampicin-mediated metabolic changes in Mycobacterium tuberculosis. Metabolites. 2022;
[DOI]104. Arefian M, Antil N, Najar MA, Subba P, Prasad TK. Phosphoproteome profiling of rice tissues provides new insights into responsive mechanisms and kinase activity upon salt stress. Environmental and Experimental Botany. 2022; [DOI]
105.
Phukan H, Sarma A, Rex DA, Rai AB, Prasad TS, Madanan MG. Unique posttranslational modification sites of acetylation, citrullination, glutarylation, and phosphorylation are found to be specific to the proteins partitioned in the Triton X-114 fractions of Leptospira. ACS omega. 2022;
[DOI]106.
Thimmappa PY, Nair AS, Najar MA, Mohanty V, Shastry S, Prasad TS, Joshi MB. Quantitative phosphoproteomics reveals diverse stimuli activate distinct signaling pathways during neutrophil activation. Cell and tissue research. 2022;
[DOI]107.
Antil N, Arefian M, Kandiyil MK, Awasthi K, Prasad TS, Raju R. The core human microRNAs regulated by Toxoplasma gondii. MicroRNA. 2022;
[DOI]108.
Saptami K, Arokia Balaya Rex D, Chandrasekaran J, Rekha PD. Competitive interaction of thymol with cviR inhibits quorum sensing and associated biofilm formation in Chromobacterium violaceum. International Microbiology. 2022;
[DOI]109.
Rex DA, Vaid N, Deepak K, Dagamajalu S, Prasad TK. A comprehensive review on current understanding of bradykinin in COVID-19 and inflammatory diseases. Molecular biology reports. 2022;
[DOI]110.
Venugopal G, Gangaraj KP, Muralikrishna KS, Prasad TK, Rajesh MK. Transcriptome assembly of coconut endosperm callus (Laccadive Micro Tall cv.) and its functional annotation.
[DOI]111. Subba P, Saha P, Karthikkeyan G, Biswas M, Prasad TS, Roy‐Barman S. Metabolite profiling reveals overexpression of the global regulator, MoLAEA leads to increased synthesis of metabolites in Magnaporthe oryzae. Journal of Applied Microbiology. 2022; [DOI]
112.
Nekrakalaya B, Arefian M, Kotimoole CN, Krishna RM, Palliyath GK, Najar MA, Behera SK, Kasaragod S, Santhappan P, Hegde V, Prasad TS. Towards phytopathogen diagnostics? Coconut bud rot pathogen Phytophthora palmivora mycelial proteome analysis informs genome annotation. OMICS: A Journal of Integrative Biology. 2022;
[DOI]113.
Rex DA, Patil AH, Modi PK, Kandiyil MK, Kasaragod S, Pinto SM, Tanneru N, Sijwali PS, Prasad TS. Dissecting Plasmodium yoelii pathobiology: proteomic approaches for decoding novel translational and post-translational modifications. ACS omega. 2022;
[DOI]114.
Rex DA, Suchitha GP, Palollathil A, Kanichery A, Prasad TK, Dagamajalu S. The network map of urotensin-II mediated signaling pathway in physiological and pathological conditions. Journal of Cell Communication and Signaling. 2022;
[DOI]115.
Yelamanchi SD, Arun Kumar ST, Mishra A, Keshava Prasad TS, Surolia A. Metabolite dysregulation by pranlukast in Mycobacterium tuberculosis. Molecules. 2022;
[DOI]116.
Dagamajalu S, Rex DA, Suchitha GP, Rai AB, Rainey JK, Prasad TK. The network map of Elabela signaling pathway in physiological and pathological conditions. Journal of Cell Communication and Signaling. 2022;
[DOI]117.
Revikumar A, Kashyap V, Palollathil A, Aravind A, Raguraman R, Kumar KM, Vijayakumar M, Prasad TS, Raju R. Multiple G-quadruplex binding ligand induced transcriptomic map of cancer cell lines. Journal of Cell Communication and Signaling. 2022;
[DOI]118.
Dagamajalu S, Rex DA, Philem PD, Rainey JK, Keshava Prasad TS. A network map of apelin-mediated signaling. Journal of Cell Communication and Signaling. 2022;
[DOI]119.
Maurya R, Tripathi A, Kumar M, Antil N, Yamaryo‐Botté Y, Kumar P, Bansal P, Doerig C, Botté CY, Prasad TK, Sharma P. PI4‐kinase and PfCDPK7 signaling regulate phospholipid biosynthesis in Plasmodium falciparum. EMBO reports. 2022;
[DOI]120.
DasGupta M, Kumaresan A, Saraf KK, Paul N, Sajeevkumar T, Karthikkeyan G, Prasad TK, Modi PK, Ramesha K, Manimaran A, Jeyakumar S. Deciphering metabolomic alterations in seminal plasma of crossbred (Bos taurus X Bos indicus) bulls through comparative deep metabolomic analysis. Andrologia. 2022;
[DOI]121.
Awasthi K, Kootimole CN, Aravind A, Prasad TS. Data-independent acquisition approach to proteome: A case study and a spectral library for mass spectrometry-based investigation of mycobacterium tuberculosis. OMICS: A Journal of Integrative Biology. 2022;
[DOI]122.
Arefian M, Antil N, Najar MA, Behera SK, Subba P, Prasad TS. Identifying novel genes and proteins involved in salt stress perception and signaling of rice seedlings. OMICS: A Journal of Integrative Biology. 2022;
[DOI]123. Rex DA, Subbannayya Y, Modi PK, Palollathil A, Gopalakrishnan L, Bhandary YP, Prasad TS, Pinto SM. Temporal quantitative phosphoproteomics profiling of interleukin-33 signaling network reveals unique modulators of monocyte activation. Cells. 2022; [DOI]
124.
Rex DA, Deepak K, Vaid N, Dagamajalu S, Kandasamy RK, Flo TH, Keshava Prasad TS. A modular map of Bradykinin-mediated inflammatory signaling network. Journal of cell communication and signaling. 2022;
[DOI]125.
Aravind A, Palollathil A, Rex DA, Kumar KM, Vijayakumar M, Shetty R, Codi JA, Prasad TS, Raju R. A multi-cellular molecular signaling and functional network map of C–C motif chemokine ligand 18 (CCL18): a chemokine with immunosuppressive and pro-tumor functions. Journal of cell communication and signaling. 2022;
[DOI]126.
Dasgupta M, Kumaresan A, Saraf KK, Nag P, Sinha MK, Aslam MK M, Karthikkeyan G, Prasad TK, Modi PK, Datta TK, Ramesha K. 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. 2022;
[DOI]127.
Rex DA, Subbannayya Y, Modi PK, Palollathil A, Gopalakrishnan L, Bhandary YP, Prasad TS, Pinto SM. Temporal quantitative phosphoproteomics profiling of interleukin-33 signaling network reveals unique modulators of monocyte activation. Cells. 2022;
[DOI]128.
Arefian M, Antil N, Najar MA, Behera SK, Subba P, Prasad TS. Identifying novel genes and proteins involved in salt stress perception and signaling of rice seedlings. OMICS: A Journal of Integrative Biology. 2022;
[DOI]129.
Awasthi K, Kootimole CN, Aravind A, Prasad TS. Data-independent acquisition approach to proteome: A case study and a spectral library for mass spectrometry-based investigation of mycobacterium tuberculosis. OMICS: A Journal of Integrative Biology. 2022;
[DOI]130.
Subba P, Prasad TS. Scope of Proteogenomic Analysis for Indian Sandalwood (Santalum Album). InThe Sandalwood Genome 2022 Mar 1 (pp. 89-97). Cham: Springer International Publishing.
[DOI]131.
Kalal BS, Modi PK, Najar MA, Behera SK, Upadhya D, Prasad TS, Pai VR. 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. 2021;
[PubMed]132.
Dasgupta M, Kumaresan A, Saraf KK, Nag P, Sinha MK, Aslam MK M, Karthikkeyan G, Prasad TK, Modi PK, Datta TK, Ramesha K. 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. 2022;
[DOI]133. Maurya R, Tripathi A, Kumar M, Antil N, Yamaryo‐Botté Y, Kumar P, Bansal P, Doerig C, Botté CY, Prasad TK, Sharma P. PI4‐kinase and PfCDPK7 signaling regulate phospholipid biosynthesis in Plasmodium falciparum. EMBO reports. 2022; [DOI]
134.
Subba P, Prasad TS. Plant phosphoproteomics: known knowns, known unknowns, and unknown unknowns of an emerging systems science frontier. OMICS: A Journal of Integrative Biology. 2021;
[DOI]135.
Behera SK, Modi PK, Karthikkeyan G, Pervaje SK, Pervaje R, Raju R, Prasad TS, Subbannayya Y. From LC-MS/MS metabolomics profiling of Kanchanara Guggulu to molecular docking and dynamics simulation of quercetin pentaacetate with aldose reductase. Bioinformation. 2021;
[DOI]136. Gopalakrishnan L, Chatterjee O, Ravishankar N, Suresh S, Raju R, Mahadevan A, Prasad TK. Opioid receptors signaling network. Journal of Cell Communication and Signaling. 2022; [DOI]
137.
Rex DA, Deepak K, Vaid N, Dagamajalu S, Kandasamy RK, Flo TH, Keshava Prasad TS. A modular map of Bradykinin-mediated inflammatory signaling network. Journal of cell communication and signaling. 2022;
[DOI]138.
Rajesh MK, Gangurde SS, Pandey MK, Niral V, Sudha R, Jerard BA, Kadke GN, Sabana AA, Muralikrishna KS, Samsudeen K, Karun A. Insights on genetic diversity, population structure, and linkage disequilibrium in globally diverse coconut accessions using genotyping-by-sequencing. Omics: A Journal of Integrative Biology. 2021;
[DOI]139.
Chatterjee O, Gopalakrishnan L, Mol P, Advani J, Nair B, Shankar SK, Mahadevan A, Prasad TS. The normal human adult hypothalamus proteomic landscape: rise of neuroproteomics in biological psychiatry and systems biology. OMICS: A Journal of Integrative Biology. 2021;
[DOI]140.
Subba P, Prasad TS. Protein crotonylation expert review: a new lens to take post-translational modifications and cell biology to new heights. OMICS: A Journal of Integrative Biology. 2021;
[DOI]141.
DasGupta M, Kumaresan A, Saraf KK, Paul N, Sajeevkumar T, Karthikkeyan G, Prasad TK, Modi PK, Ramesha K, Manimaran A, Jeyakumar S. Deciphering metabolomic alterations in seminal plasma of crossbred (Bos taurus X Bos indicus) bulls through comparative deep metabolomic analysis. Andrologia. 2022;
[DOI]142.
Najar MA, Aravind A, Dagamajalu S, Sidransky D, Ashktorab H, Smoot DT, Gowda H, Prasad TK, Modi PK, Chatterjee A. Hyperactivation of MEK/ERK pathway by Ca2+/calmodulin‐dependent protein kinase kinase 2 promotes cellular proliferation by activating cyclin‐dependent kinases and minichromosome maintenance protein in gastric cancer cells. Molecular Carcinogenesis. 2021;
[DOI]143.
Kalal BS, Modi PK, Upadhya D, Saha P, Prasad TS, Pai VR. Inhibition of bone morphogenetic proteins signaling suppresses metastasis melanoma: a proteomics approach. American journal of translational research. 2021;
[PubMed]144.
Antil N, Kumar M, Behera SK, Arefian M, Kotimoole CN, Rex DA, Prasad TS. Unraveling Toxoplasma gondii GT1 strain virulence and new protein-coding genes with proteogenomic analyses. OMICS: A Journal of Integrative Biology. 2021;
[DOI]145.
Dagamajalu S, Rex DA, Suchitha GP, Rai AB, Rainey JK, Prasad TK. The network map of Elabela signaling pathway in physiological and pathological conditions. Journal of Cell Communication and Signaling. 2022;
[DOI]