Publications

1.  

Rai, A. B., Codi, J. A. K., Bhat, S., Ammankallu, S., Parate, S. S., Upadhyay, S. S., … Prasad, T. S. K. (2026). The network map of nesfatin-1-mediated signaling pathway in physiological regulation and pathological conditions. Expert Review of Proteomics, 23(1–2), 53–62.

2.  

Aravind, A., Kotimoole, C. N., Upadhayay, S. S., Vijayakumar, M., Mathew, R. T., Codi, J. A. K., Shetty, R., Prasad, T. S. K.(2026). Mass Spectrometry-based Multi-Protein Panel Assay for Detecting Immune Checkpoint Proteins in Immune Cells of Oral Cancer Patients. Journal of Proteome Research.

3.  

Paidi M.K., Biradar S., Prasad T.S.K. (2026).  Structure-based screening of marine carotenoids: fucoxanthin and its derivatives as potential inhibitors of the SARS-CoV-2 nucleocapsid phosphoprotein. In Silico Pharmacology. 14:53.

4.  

Amritha Thaikkad, Sonet Daniel Thomas, Leona Dcunha, Levin John, Jishna Vijayan, Naveen Joy, Radul Dev, Rajesh Raju, Abhithaj Jayanandan (2026). Structural-Based and AI-Assisted Identification of AGPS inhibitors for Glioma via Integrated Docking, Molecular Dynamics, and Binding Affinity Screening. ACS Omega

In press

5.  

Levin Thomas, Jaya Shree Dilli Batcha, Shubham Upadhyay, Sakshi Sanjay Parate, TS Keshava Prasad, SV Chidananda Sanju, Kavitha Saravu, Muralidhar Varma, Surulivelrajan Mallayasamy, Mahadev Rao. Population pharmacokinetics of isoniazid in adult Indian tuberculosis patients: Evaluation of NAT2 polymorphisms. Infection, Genetics and Evolution. 2026.

6.  

Dcunha L, Edakkad B, Fathima I, Dagamajalu S, Raju R, Rex D. A. B, and Kanekar S.  (2026). Neuromedin U Signalling Map: Toward Neuropeptide Focused Therapeutic Targets in Cancer and Human Diseases. OMICS: A Journal of Integrative Biology.

7.  

Amrutha S., Prasad T.S.K., Modi P.K. (2026). Glycyrrhizic Acid Attenuates AB42-Induced Neurodegeneration Through Coordinated Regulation of Oxidative Stress, Synaptic Markers, and Key Alzheimer's Signaling Pathways. Cells. 15(5), 436

8.  

Nandakumar R, Mahin R, Gopalakrishnan AP, Subair S, Krishnan D, Rajesh Raju. (2026). Deciphering the Phospho-Signalling Network Associated with the Linker Region of Multidrug Resistance Protein 1. OMICS: A Journal of Integrative Biology. 

9.  

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; 

10.  

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).

11.  

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; 

12.  

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). 

13.  

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.

14.  

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. 

15.  

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;

16.  

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; 

17.  

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;

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). 

19.  

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.

20.  

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). 

21.  

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;

22.  

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. 

23.  

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. 

24.  

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

25.  

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). 

26.  

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. 

27.  

Ramesh P, Akbar KCJ, Prasad TSK. Protein biomarkers for diagnosing gastric cancers. In: Book Chapter; 2025.

In press

28.  

Rex DAB, Prasad TSK. Data analysis pipelines, potential pitfalls, and troubleshooting for MS‐based biomarker discovery and validation. In: Book Chapter; 2025.

In press

29.  

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. 

30.  

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; 

31.  

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). 

32.  

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; 

33.  

Sreelakshmi K, Hemavathi KN, Raju R, Sameer K, Prasad TSK, Sudhakaran PR. 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. 

34.  

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.

35.  

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

36.  

Varughese A, Balnadupete A, Ramesh P, Prasad TSK, Nidha AB, Bhandary Y. Guardians turned culprits: NETosis and its influence on pulmonary fibrosis development. Molecular Biotechnology. 2025;67(5):1752–64.

37.  

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

38.  

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.

39.  

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;
 

40.  

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;

41.  

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; 

42.  

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; 

43.  

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; 

44.  

Daniel EA, Upadhyay S, Selvachithiram M, Pattabiramam S, Bhanu B, Sivaprakasam A, et al. Predictive metabolite signatures for risk of progression to active TB from QuantiFERON supernatants of household contacts of TB patients. Emerging Microbes & Infections. 2024; 

45.  

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;

46.  

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.

47.  

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; 

48.  

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; 

49.  

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; 

50.  

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

51.  

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;

52.  

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;

In press

53.  

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; 

54.  

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;

55.  

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;

56.  

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; 

57.  

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

58.  

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;

59.  

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; 

60.  

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;

61.  

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

62.  

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;  

63.  

Shaikh SB, Rex DAB, Dagamajalu S, Bhandary YP, Unwalla H, Prasad TSK, et al. A signaling pathway map of plasminogen activator inhibitor 1 (PAI 1/SERPINE 1): a review of an innovative frontier in molecular aging and cellular senescence. Cell Communication and Signaling. 2024;

64.  

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; 

65.  

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.

66.  

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.

67.  

Suchitha GP, Dagamajalu S, Prasad TSK, Rex DAB. A comprehensive network map of Interleukin-26 signaling pathway. J Interferon Cytokine Res. 2024; 

68.  

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;

69.  

Suchitha GP, Devasahayam Arokia Balaya R, Prasad TK, Dagamajalu S. A signaling network map of Lipoxin (LXA4): an anti-inflammatory molecule. Inflammation Research. 2024;

70.  

Thomas SD, Vijayakumar K, John L, Krishnan D, Rehman N, Revikumar A. Machine learning strategies in microRNA research. 2024;

71.  

Usha T, Hemavathi KN, Goyal AK, Abhinand CS, Dhivya S, Cholarajan A, Joshi N, Babu D, Middha SK. Investigating emodin derivatives against SARS-CoV-2 found in medicinal herbs. Kuwait Journal of Science. 2024;

72.  

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; 

73.  

Vasishta S, Ammankallu S, Umakanth S, Prasad TSK, Joshi MB. DNA methyltransferase isoforms regulate endothelial cell exosome proteome composition. 2024.

74.  

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; 

75.  

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;

76.  

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;

77.  

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;

78.  

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;

79.  

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;

80.  

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;

81.  

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;

82.  

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;

83.  

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;

84.  

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;

85.  

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.

86.  

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;

87.  

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;

88.  

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;

89.  

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;

90.  

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;

91.  

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;

92.  

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;

93.  

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;

94.  

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;

95.  

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;

96.  

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;

97.  

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;

98.  

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;

99.  

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;

100.  

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;

101.  

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

102.  

Ugur MR, Guerreiro DD, Moura AA, Memili E. Identification of biomarkers for bull fertility using functional genomics. Animal Reproduction. 2022 May 2;19(1):e20220004.

103.  

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 Mar;16(1):137-43.

104.  

Xie F, Xu L, Zhu H, Chen Y, Li Y, Nong L, Zeng Y, Cen S. The potential antipyretic mechanism of ellagic acid with brain metabolomics using rats with yeast-induced fever. Molecules. 2022 Apr 11;27(8):2465.

105.  

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 Mar;16(1):129-35.

106.  

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 Mar;16(1):145-54.

107.  

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;

108.  

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;

109.  

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;

110.  

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

111.  

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

112.  

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;

113.  

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.

114.  

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;

115.  

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;

116.  

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;

117.  

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;

118.  

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;

119.  

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;

120.  

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

121.  

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;

122.  

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;

123.  

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;

124.  

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;

125.  

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;

126.  

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;

127.  

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;

128.  

Yelamanchi SD, Arun Kumar ST, Mishra A, Keshava Prasad TS, Surolia A. Metabolite dysregulation by pranlukast in Mycobacterium tuberculosis. Molecules. 2022;

129.  

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;

130.  

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;

131.  

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;

132.  

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

133.  

Venugopal G, Gangaraj KP, Muralikrishna KS, Prasad TK, Rajesh MK. Transcriptome assembly of coconut endosperm callus (Laccadive Micro Tall cv.) and its functional annotation.

134.  

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;

135.  

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;

136.  

Antil N, Arefian M, Kandiyil MK, Awasthi K, Prasad TS, Raju R. The core human microRNAs regulated by Toxoplasma gondii. MicroRNA. 2022;

137.  

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;

138.  

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;

139.  

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

140.  

Yelamanchi SD, Mishra A, Behra SK, Karthikkeyan G, Keshava Prasad TS, Surolia A. Rifampicin-mediated metabolic changes in Mycobacterium tuberculosis. Metabolites. 2022;

141.  

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;

142.  

Shah SR, Mohanty V, Chaudhury D, Prasad TK, Shenoy MM. Evaluation of serum proteome from Indian psoriasis patients. Bioinformation. 2022;

143.  

Kasaragod S, Kotimoole CN, Gurtoo S, Prasad TS, Gowda H, Modi PK. A computational workflow for predicting cancer neo-antigens. Bioinformation. 2022;

144.  

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.

145.  

Rex DA, Keshava Prasad TS, Kandasamy RK. Revisiting regulated cell death responses in viral infections. International journal of molecular sciences. 2022;

146.  

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;

147.  

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.

148.  

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;

149.  

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;

150.  

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.

151.  

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;

152.  

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;

153.  

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;

154.  

Arefian M, Prasad TS. Susceptibility of rice crop to salt threat: proteomic, metabolomic, and physiological inspections. Journal of Proteome Research. 2022;

155.  

Dagamajalu S, Rex DA, Gopalakrishnan L, Karthikkeyan G, Gurtoo S, Modi PK, Mohanty V, Mujeeburahiman M, Soman S, Raju R, Tiwari V. A network map of endothelin mediated signaling pathway. Journal of Cell Communication and Signaling. 2021 Jun;15(2):277-82.

156.  

Dagamajalu S, Rex DA, Palollathil A, Shetty R, Bhat G, Cheung LW, Prasad TK. A pathway map of AXL receptor-mediated signaling network. Journal of Cell Communication and Signaling. 2021 Mar;15(1):143-8.

157.  

Najar MA, Rex DA, Modi PK, Agarwal N, Dagamajalu S, Karthikkeyan G, Vijayakumar M, Chatterjee A, Sankar U, Prasad TK. A complete map of the Calcium/calmodulin-dependent protein kinase kinase 2 (CAMKK2) signaling pathway. Journal of cell communication and signaling. 2021 Jun;15(2):283-90.

158.  

Gopalakrishnan L, Chatterjee O, Raj C, Pullimamidi D, Advani J, Mahadevan A, Keshava Prasad TS. An assembly of galanin–galanin receptor signaling network. Journal of cell communication and signaling. 2021 Jun;15(2):269-75.

159.  

Subbannayya Y, Pinto SM. Molecular alterations in oral cancer using high-throughput proteomic analysis of formalin-fixed paraffin-embedded tissue.

160.  

Subbannayya Y, Haug M, Pinto SM, Mohanty V, Meås HZ, Flo TH, Prasad TK, Kandasamy RK. The proteomic landscape of resting and activated CD4+ T cells reveal insights into cell differentiation and function. International journal of molecular sciences. 2020 Dec 29;22(1):275.

161.  

Jain A, Kotimoole CN, Ghoshal S, Bakshi J, Chatterjee A, Prasad TS, Pal A. Identification of potential salivary biomarker panels for oral squamous cell carcinoma. Scientific Reports. 2021 Feb 9;11(1):3365.

162.  

Bansal P, Antil N, Kumar M, Yamaryo-Botté Y, Rawat RS, Pinto S, Datta KK, Katris NJ, Botté CY, Prasad TK, Sharma P. Protein kinase TgCDPK7 regulates vesicular trafficking and phospholipid synthesis in Toxoplasma gondii. PLoS pathogens. 2021 Feb 26;17(2):e1009325.

163.  

Ashokan M, Ramesha KP, Hallur S, Karthikkeyan G, Rana E, Azharuddin N, Raj SR, Jeyakumar S, Kumaresan A, Kataktalware MA, Das DN. Differences in milk metabolites in Malnad Gidda (Bos indicus) cows reared under pasture-based feeding system. Scientific Reports. 2021 Feb 2;11(1):2831.

164.  

Mohanty V, Subbannayya Y, Patil S, Puttamallesh VN, Najar MA, Datta KK, Pinto SM, Begum S, Mohanty N, Routray S, Abdulla R. Molecular alterations in oral cancer using high-throughput proteomic analysis of formalin-fixed paraffin-embedded tissue. Journal of cell communication and signaling. 2021 Sep;15(3):447-59.

165.  

DasGupta M, Kumaresan A, Saraf KK, Karthikkeyan G, Prasad TK, Modi PK, Ramesha K, Jeyakumar S, Manimaran A. Preliminary comparative deep metabolomic analysis of spermatozoa from zebu and crossbred cattle suggests associations between metabolites, sperm quality and fertility. Reproduction, Fertility and Development. 2021 Apr 1;33(6):427-36.

166.  

Santhoshkumar R, Preethish-Kumar V, Mangalaparthi KK, Unni S, Padmanabhan B, TS KP, Nongthomba U, Atchayaram N, Narayanappa G. A dominant C150Y mutation in FHL1 induces structural alterations in LIM2 domain causing protein aggregation in human and Drosophila indirect flight muscles. Journal of Molecular Neuroscience. 2021 Nov;71(11):2324-35.

167.  

Sivagurunathan S, Selvan LD, Khan AA, Parameswaran S, Bhattacharjee H, Gogoi K, Gowda H, Prasad TK, Pandey A, Kumar SA, Rishi P. Proteomics-based approach for differentiation of age-related macular degeneration sub-types. Indian Journal of Ophthalmology. 2021 Mar 1;69(3):647-54.

168.  

Shaikh SB, Najar MA, Prabhu A, Rex DA, Chanderasekaran J, Behera SK, Modi PK, Prasad TS, Bhandary YP. The unique molecular targets associated antioxidant and antifibrotic activity of curcumin in in vitro model of acute lung injury: A proteomic approach. BioFactors. 2021 Jul;47(4):627-44.

169.  

Karthikkeyan G, Pervaje R, Pervaje SK, Prasad TS, Modi PK. 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. 2021 Jun 28;274:114025.

170.  

Shaikh SB, Najar MA, Prabhu A, Rex DA, Chanderasekaran J, Behera SK, Modi PK, Prasad TS, Bhandary YP. The unique molecular targets associated antioxidant and antifibrotic activity of curcumin in in vitro model of acute lung injury: A proteomic approach. BioFactors. 2021 Jul;47(4):627-44.

171.  

Najar MA, Modi PK, Ramesh P, Sidransky D, Gowda H, Prasad TK, Chatterjee A. Molecular profiling associated with calcium/calmodulin-dependent protein kinase kinase 2 (CAMKK2)-mediated carcinogenesis in gastric cancer. Journal of proteome research. 2021 Apr 12;20(5):2687-703.

172.  

Shaikh SB, Najar MA, Prasad TS, Bhandary YP. Comparative protein profiling reveals the inhibitory role of curcumin on IL-17A mediated minichromosome maintenance (MCM) proteins as novel putative markers for acute lung injury in vivo. Biomedicine & Pharmacotherapy. 2021 Sep 1;141:111715.

173.  

Mohanty V, Subbannayya Y, Patil S, Abdulla R, Ganesh MS, Pal A, Ray JG, Sidransky D, Gowda H, Prasad TK, Chatterjee A. Molecular alterations in oral cancer between tobacco chewers and smokers using serum proteomics. Cancer Biomarkers. 2021 Nov;31(4):361-73.

174.  

Arefian M, Bhagya N, Prasad TK. Phosphorylation‐mediated signalling in flowering: prospects and retrospects of phosphoproteomics in crops. Biological Reviews. 2021 Oct;96(5):2164-91.

175.  

Palollathil A, Aravind A, Vijayakumar M, Kotimoole CN, Mohanty V, Behera SK, Kashyap V, Kiran Kumar KM, Shetty R, Codi JA, Raju R. Omics data mining for multiPTMs in oral cancer: cellular proteome and secretome of chronic tobacco-treated oral keratinocytes. OMICS: A Journal of Integrative Biology. 2021 Jul 1;25(7):450-62.

176.  

Dagamajalu S, Rex DA, Palollathil A, Shetty R, Bhat G, Cheung LW, Prasad TK. A pathway map of AXL receptor-mediated signaling network. Journal of Cell Communication and Signaling. 2021 Mar;15(1):143-8.

177.  

Dagamajalu S, Rex DA, Gopalakrishnan L, Karthikkeyan G, Gurtoo S, Modi PK, Mohanty V, Mujeeburahiman M, Soman S, Raju R, Tiwari V. A network map of endothelin mediated signaling pathway. Journal of Cell Communication and Signaling. 2021 Jun;15(2):277-82.

178.  

Najar MA, Rex DA, Modi PK, Agarwal N, Dagamajalu S, Karthikkeyan G, Vijayakumar M, Chatterjee A, Sankar U, Prasad TK. A complete map of the Calcium/calmodulin-dependent protein kinase kinase 2 (CAMKK2) signaling pathway. Journal of cell communication and signaling. 2021 Jun;15(2):283-90.

179.  

Gopalakrishnan L, Chatterjee O, Raj C, Pullimamidi D, Advani J, Mahadevan A, Keshava Prasad TS. An assembly of galanin–galanin receptor signaling network. Journal of cell communication and signaling. 2021 Jun;15(2):269-75.

180.  

Rex DA, Arun Kumar ST, Rai AB, Kotimoole CN, Modi PK, Prasad TS. Novel post-translational modifications and molecular substrates in glioma identified by bioinformatics. OMICS: A Journal of Integrative Biology. 2021 Jul 1;25(7):463-73.

181.  

Rex DA, Arun Kumar ST, Modi PK, Keshava Prasad TS. Broadening COVID-19 Interventions to Drug innovation: neprilysin pathway as a friend, foe, or promising molecular target?. OMICS: A Journal of Integrative Biology. 2021 Jul 1;25(7):408-16.

182.  

Rex DA, Dagamajalu S, Kandasamy RK, Raju R, Prasad TK. SARS-CoV-2 signaling pathway map: A functional landscape of molecular mechanisms in COVID-19. Journal of Cell Communication and Signaling. 2021 Dec;15(4):601-8.

183.  

Sarma A, Gunasekaran D, Rex DA, Sikha T, Phukan H, Kiran KM, Pinto SM, Prasad TS, Madanan MG. Extracellular proteome analysis shows the abundance of histidine kinase sensor protein, DNA helicase, putative lipoprotein containing peptidase M75 domain and peptidase C39 domain protein in Leptospira interrogans grown in EMJH medium. Pathogens. 2021 Jul 6;10(7):852.

184.  

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 Mar;16(1):145-54.

185.  

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;

186.  

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;

187.  

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;

188.  

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;

189.  

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;

190.  

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;

191.  

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;

192.  

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;

193.  

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;

194.  

 Saraf, K. K., Kumaresan, A., Gupta, M. D., Karthikkeyan, G., Prasad, T. S. K., Modi, P. K., Ramesha, K., Jeyakumar, S. and Manimaran, A. (2020). Metabolomics Fingerprinting of Bull Spermatozoa for Identification of Fertility Signature Metabolites. Molecular Reproduction and Development.

195.  

Sharma T, Datta KK, Kumar M, Dey G, Khan AA, Mangalaparthi KK, Saharan P, Chinnapparaj S, Aggarwal A, Singla N, Ghosh S. Intracranial aneurysm biomarker candidates identified by a proteome-wide study. OMICS: A Journal of Integrative Biology. 2020 Aug 1;24(8):483-92.

196.  

Kasaragod S, Mohanty V, Tyagi A, Behera SK, Patil AH, Pinto SM, Prasad TK, Modi PK, Gowda H. CusVarDB: A tool for building customized sample-specific variant protein database from next-generation sequencing datasets. F1000Research. 2020 Nov 16;9:344.

197.  

Gouda MM, Rex DA, Es SP, Modi PK, Chanderasekaran J, Bhandary YP. Proteomics analysis revealed the importance of inflammation-mediated downstream pathways and the protective role of curcumin in bleomycin-induced pulmonary fibrosis in C57BL/6 mice. Journal of Proteome Research. 2020 Jul 3;19(8):2950-63.

198.  

Mangalaparthi KK, Patel K, Khan AA, Manoharan M, Karunakaran C, Murugan S, Gupta R, Gupta R, Khanna-Gupta A, Chaudhuri A, Kumar P. Mutational landscape of esophageal squamous cell carcinoma in an Indian cohort. Frontiers in oncology. 2020 Aug 20;10:1457.

199.  

Thoduvayil S, Dhandapani G, Brahma R, Devasahayam Arokia Balaya R, Mangalaparthi KK, Patel K, Kumar M, Tennyson J, Satheeshkumar PK, Kulkarni MJ, Pinto SM. Triton X‐114 fractionated subcellular proteome of Leptospira interrogans shows selective enrichment of pathogenic and outer membrane proteins in the detergent fraction. Proteomics. 2020 Oct;20(19-20):2000170.

200.  

Yadav R, Parihar RD, Dhiman U, Dhamija P, Upadhyay SK, Imran M, Behera SK, Prasad TK. Docking of fda approved drugs targeting nsp-16, n-protein and main protease of sars-cov-2 as dual inhibitors. Biointerface Res. Appl. Chem. 2020;11(3):9848-61.

201.  

Karthikkeyan G, Najar MA, Pervaje R, Pervaje SK, Modi PK, Prasad TS. Identification of molecular network associated with neuroprotective effects of Yashtimadhu (Glycyrrhiza glabra L.) by quantitative proteomics of rotenone-induced Parkinson’s disease model. Acs Omega. 2020 Oct 6;5(41):26611-25.

202.  

Karthikkeyan G, Pervaje R, Subbannayya Y, Patil AH, Modi PK, Prasad TS. Plant omics: metabolomics and network pharmacology of liquorice, Indian Ayurvedic Medicine Yashtimadhu. OMICS: A Journal of Integrative Biology. 2020 Dec 1;24(12):743-55.

203.  

Muliyar RK, Chowdappa P, Behera SK, Kasaragod S, Gangaraj KP, Kotimoole CN, Nekrakalaya B, Mohanty V, Sampgod RB, Banerjee G, Das AJ. Assembly and annotation of the nuclear and organellar genomes of a dwarf coconut (Chowghat Green Dwarf) possessing enhanced disease resistance. OMICS: A Journal of Integrative Biology. 2020 Dec 1;24(12):726-42.

204.  

Dagamajalu, S., Vijayakumar, M., Shetty, R., Rex, D. A. B., Narayana Kotimoole, C. and Prasad, T. S. K. (2020). Proteogenomic examination of esophageal squamous cell carcinoma (ESCC)

205.  

Rajesh MK, Gangaraj KP, Prabhudas SK, Prasad TK. The complete chloroplast genome data of Areca catechu (Arecaceae). Data in Brief. 2020 Dec 1;33:106444.

206.  

Inala MS, Karthikkeyan G, Pinto SM, Pamidimukkala K. Biological activity of ‘3, 3′, 4′, 5, 7-pentahydroxyflavone isolated from green leafy vegetables of karnataka on three bacterial strains. Biomedical and Pharmacology Journal. 2020 Jun 25;13(2):849-63.

207.  

Pinto SM, Kim H, Subbannayya Y, Giambelluca M, Bösl K, Kandasamy RK. Dose-dependent phorbol 12-myristate-13-acetate-mediated monocyte-to-macrophage differentiation induces unique proteomic signatures in THP-1 cells. BioRxiv. 2020 Feb 28:2020-02.

208.  

Babu N, Pinto SM, Biswas M, Subbannayya T, Rajappa M, Mohan SV, Advani J, Rajagopalan P, Sathe G, Syed N, Radhakrishna VD. Phosphoproteomic analysis identifies CLK1 as a novel therapeutic target in gastric cancer. Gastric Cancer. 2020 Sep;23(5):796-810.

209.  

Pinto SM, Kim H, Subbannayya Y, Giambelluca M, B K, Kandasamy RK. Dose-dependent phorbol 12-myristate-13-acetate-mediated monocyte-to-macrophage differentiation induces unique proteomic signatures in THP-1 cells. BioRxiv. 2020 Feb 28:2020-02.

210.  

Shaikh S, Bhandary YP, Najar MA, Prabhu A, Prasad TK, Gouda MM, Irfan K, Modi PK. In depth mass spectrometry based proteomic approach to explore the effect of curcumin in IL17A mediated alveolar barrier injury.

211.  

Subbannayya Y, Haug M, Pinto SM, Mohanty V, Meås HZ, Flo TH, Prasad TK, Kandasamy RK. The proteomic landscape of resting and activated CD4+ T cells reveal insights into cell differentiation and function. International journal of molecular sciences. 2020 Dec 29;22(1):275.

212.  

Phosphoregulation for Therapeutic Interventions in Cancer? Phosphoregulatory Map of Checkpoint Kinase 1 (CHK1) Uncovers Unexplored Regulatory Layers

1.  

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

2.  

Ramesh P, Akbar KCJ, Prasad TSK. Protein biomarkers for diagnosing gastric cancers. In: Book Chapter; 2025.

In press

3.  

Rex DAB, Prasad TSK. Data analysis pipelines, potential pitfalls, and troubleshooting for MS‐based biomarker discovery and validation. In: Book Chapter; 2025.

In press

4.  

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

5.  

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.

1.  

Nandakumar R, Mahin R, Gopalakrishnan AP, Subair S, Krishnan D, Rajesh Raju. (2026). Deciphering the Phospho-Signalling Network Associated with the Linker Region of Multidrug Resistance Protein 1. OMICS: A Journal of Integrative Biology. 

1.  

Rai, A. B., Codi, J. A. K., Bhat, S., Ammankallu, S., Parate, S. S., Upadhyay, S. S., … Prasad, T. S. K. (2026). The network map of nesfatin-1-mediated signaling pathway in physiological regulation and pathological conditions. Expert Review of Proteomics, 23(1–2), 53–62.

2.  

Aravind, A., Kotimoole, C. N., Upadhayay, S. S., Vijayakumar, M., Mathew, R. T., Codi, J. A. K., Shetty, R., Prasad, T. S. K.(2026). Mass Spectrometry-based Multi-Protein Panel Assay for Detecting Immune Checkpoint Proteins in Immune Cells of Oral Cancer Patients. Journal of Proteome Research.

3.  

Paidi M.K., Biradar S., Prasad T.S.K. (2026).  Structure-based screening of marine carotenoids: fucoxanthin and its derivatives as potential inhibitors of the SARS-CoV-2 nucleocapsid phosphoprotein. In Silico Pharmacology. 14:53.

4.  

Amritha Thaikkad, Sonet Daniel Thomas, Leona Dcunha, Levin John, Jishna Vijayan, Naveen Joy, Radul Dev, Rajesh Raju, Abhithaj Jayanandan (2026). Structural-Based and AI-Assisted Identification of AGPS inhibitors for Glioma via Integrated Docking, Molecular Dynamics, and Binding Affinity Screening. ACS Omega

In press

5.  

Levin Thomas, Jaya Shree Dilli Batcha, Shubham Upadhyay, Sakshi Sanjay Parate, TS Keshava Prasad, SV Chidananda Sanju, Kavitha Saravu, Muralidhar Varma, Surulivelrajan Mallayasamy, Mahadev Rao. Population pharmacokinetics of isoniazid in adult Indian tuberculosis patients: Evaluation of NAT2 polymorphisms. Infection, Genetics and Evolution. 2026.

6.  

Dcunha L, Edakkad B, Fathima I, Dagamajalu S, Raju R, Rex D. A. B, and Kanekar S.  (2026). Neuromedin U Signalling Map: Toward Neuropeptide Focused Therapeutic Targets in Cancer and Human Diseases. OMICS: A Journal of Integrative Biology.

7.  

Amrutha S., Prasad T.S.K., Modi P.K. (2026). Glycyrrhizic Acid Attenuates AB42-Induced Neurodegeneration Through Coordinated Regulation of Oxidative Stress, Synaptic Markers, and Key Alzheimer's Signaling Pathways. Cells. 15(5), 436

8.  

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; 

9.  

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).

10.  

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; 

11.  

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). 

12.  

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.

13.  

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. 

14.  

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;

15.  

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; 

16.  

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;

17.  

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). 

18.  

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.

19.  

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). 

20.  

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;

21.  

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. 

22.  

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. 

23.  

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). 

24.  

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. 

25.  

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. 

26.  

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; 

27.  

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). 

28.  

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; 

29.  

Sreelakshmi K, Hemavathi KN, Raju R, Sameer K, Prasad TSK, Sudhakaran PR. 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. 

30.  

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.

31.  

Varughese A, Balnadupete A, Ramesh P, Prasad TSK, Nidha AB, Bhandary Y. Guardians turned culprits: NETosis and its influence on pulmonary fibrosis development. Molecular Biotechnology. 2025;67(5):1752–64.

32.  

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

33.  

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.

34.  

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;
 

35.  

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;

36.  

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; 

37.  

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; 

38.  

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; 

39.  

Daniel EA, Upadhyay S, Selvachithiram M, Pattabiramam S, Bhanu B, Sivaprakasam A, et al. Predictive metabolite signatures for risk of progression to active TB from QuantiFERON supernatants of household contacts of TB patients. Emerging Microbes & Infections. 2024; 

40.  

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;

41.  

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.

42.  

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; 

43.  

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; 

44.  

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; 

45.  

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

46.  

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;

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;

In press

48.  

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; 

49.  

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;

50.  

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;

51.  

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; 

52.  

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

53.  

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;

54.  

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; 

55.  

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;

56.  

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

57.  

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;  

58.  

Shaikh SB, Rex DAB, Dagamajalu S, Bhandary YP, Unwalla H, Prasad TSK, et al. A signaling pathway map of plasminogen activator inhibitor 1 (PAI 1/SERPINE 1): a review of an innovative frontier in molecular aging and cellular senescence. Cell Communication and Signaling. 2024;

59.  

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; 

60.  

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.

61.  

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.

62.  

Suchitha GP, Dagamajalu S, Prasad TSK, Rex DAB. A comprehensive network map of Interleukin-26 signaling pathway. J Interferon Cytokine Res. 2024; 

63.  

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;

64.  

Suchitha GP, Devasahayam Arokia Balaya R, Prasad TK, Dagamajalu S. A signaling network map of Lipoxin (LXA4): an anti-inflammatory molecule. Inflammation Research. 2024;

65.  

Thomas SD, Vijayakumar K, John L, Krishnan D, Rehman N, Revikumar A. Machine learning strategies in microRNA research. 2024;

66.  

Usha T, Hemavathi KN, Goyal AK, Abhinand CS, Dhivya S, Cholarajan A, Joshi N, Babu D, Middha SK. Investigating emodin derivatives against SARS-CoV-2 found in medicinal herbs. Kuwait Journal of Science. 2024;

67.  

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; 

68.  

Vasishta S, Ammankallu S, Umakanth S, Prasad TSK, Joshi MB. DNA methyltransferase isoforms regulate endothelial cell exosome proteome composition. 2024.

69.  

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; 

70.  

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;

71.  

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;

72.  

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;

73.  

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;

74.  

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;

75.  

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;

76.  

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;

77.  

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;

78.  

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;

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;

80.  

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.

81.  

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;

82.  

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;

83.  

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;

84.  

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;

85.  

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;

86.  

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;

87.  

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;

88.  

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;

89.  

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;

90.  

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;

91.  

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;

92.  

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;

93.  

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;

94.  

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;

95.  

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;

96.  

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

97.  

Ugur MR, Guerreiro DD, Moura AA, Memili E. Identification of biomarkers for bull fertility using functional genomics. Animal Reproduction. 2022 May 2;19(1):e20220004.

98.  

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 Mar;16(1):137-43.

99.  

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 Mar;16(1):145-54.

100.  

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;

101.  

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;

102.  

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;

103.  

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

104.  

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

105.  

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;

106.  

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.

107.  

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;

108.  

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;

109.  

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;

110.  

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;

111.  

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;

112.  

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;

113.  

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

114.  

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;

115.  

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;

116.  

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;

117.  

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;

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;

119.  

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;

120.  

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;

121.  

Yelamanchi SD, Arun Kumar ST, Mishra A, Keshava Prasad TS, Surolia A. Metabolite dysregulation by pranlukast in Mycobacterium tuberculosis. Molecules. 2022;

122.  

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;

123.  

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;

124.  

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;

125.  

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

126.  

Venugopal G, Gangaraj KP, Muralikrishna KS, Prasad TK, Rajesh MK. Transcriptome assembly of coconut endosperm callus (Laccadive Micro Tall cv.) and its functional annotation.

127.  

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;

128.  

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;

129.  

Antil N, Arefian M, Kandiyil MK, Awasthi K, Prasad TS, Raju R. The core human microRNAs regulated by Toxoplasma gondii. MicroRNA. 2022;

130.  

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;

131.  

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;

132.  

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

133.  

Yelamanchi SD, Mishra A, Behra SK, Karthikkeyan G, Keshava Prasad TS, Surolia A. Rifampicin-mediated metabolic changes in Mycobacterium tuberculosis. Metabolites. 2022;

134.  

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;

135.  

Shah SR, Mohanty V, Chaudhury D, Prasad TK, Shenoy MM. Evaluation of serum proteome from Indian psoriasis patients. Bioinformation. 2022;

136.  

Kasaragod S, Kotimoole CN, Gurtoo S, Prasad TS, Gowda H, Modi PK. A computational workflow for predicting cancer neo-antigens. Bioinformation. 2022;

137.  

Rex DA, Keshava Prasad TS, Kandasamy RK. Revisiting regulated cell death responses in viral infections. International journal of molecular sciences. 2022;

138.  

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;

139.  

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.

140.  

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;

141.  

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;

142.  

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.

143.  

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;

144.  

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;

145.  

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;

146.  

Arefian M, Prasad TS. Susceptibility of rice crop to salt threat: proteomic, metabolomic, and physiological inspections. Journal of Proteome Research. 2022;

147.  

Dagamajalu S, Rex DA, Gopalakrishnan L, Karthikkeyan G, Gurtoo S, Modi PK, Mohanty V, Mujeeburahiman M, Soman S, Raju R, Tiwari V. A network map of endothelin mediated signaling pathway. Journal of Cell Communication and Signaling. 2021 Jun;15(2):277-82.

148.  

Dagamajalu S, Rex DA, Palollathil A, Shetty R, Bhat G, Cheung LW, Prasad TK. A pathway map of AXL receptor-mediated signaling network. Journal of Cell Communication and Signaling. 2021 Mar;15(1):143-8.

149.  

Najar MA, Rex DA, Modi PK, Agarwal N, Dagamajalu S, Karthikkeyan G, Vijayakumar M, Chatterjee A, Sankar U, Prasad TK. A complete map of the Calcium/calmodulin-dependent protein kinase kinase 2 (CAMKK2) signaling pathway. Journal of cell communication and signaling. 2021 Jun;15(2):283-90.

150.  

Gopalakrishnan L, Chatterjee O, Raj C, Pullimamidi D, Advani J, Mahadevan A, Keshava Prasad TS. An assembly of galanin–galanin receptor signaling network. Journal of cell communication and signaling. 2021 Jun;15(2):269-75.

151.  

Subbannayya Y, Pinto SM. Molecular alterations in oral cancer using high-throughput proteomic analysis of formalin-fixed paraffin-embedded tissue.

152.  

Subbannayya Y, Haug M, Pinto SM, Mohanty V, Meås HZ, Flo TH, Prasad TK, Kandasamy RK. The proteomic landscape of resting and activated CD4+ T cells reveal insights into cell differentiation and function. International journal of molecular sciences. 2020 Dec 29;22(1):275.

153.  

Bansal P, Antil N, Kumar M, Yamaryo-Botté Y, Rawat RS, Pinto S, Datta KK, Katris NJ, Botté CY, Prasad TK, Sharma P. Protein kinase TgCDPK7 regulates vesicular trafficking and phospholipid synthesis in Toxoplasma gondii. PLoS pathogens. 2021 Feb 26;17(2):e1009325.

154.  

Ashokan M, Ramesha KP, Hallur S, Karthikkeyan G, Rana E, Azharuddin N, Raj SR, Jeyakumar S, Kumaresan A, Kataktalware MA, Das DN. Differences in milk metabolites in Malnad Gidda (Bos indicus) cows reared under pasture-based feeding system. Scientific Reports. 2021 Feb 2;11(1):2831.

155.  

Mohanty V, Subbannayya Y, Patil S, Puttamallesh VN, Najar MA, Datta KK, Pinto SM, Begum S, Mohanty N, Routray S, Abdulla R. Molecular alterations in oral cancer using high-throughput proteomic analysis of formalin-fixed paraffin-embedded tissue. Journal of cell communication and signaling. 2021 Sep;15(3):447-59.

156.  

DasGupta M, Kumaresan A, Saraf KK, Karthikkeyan G, Prasad TK, Modi PK, Ramesha K, Jeyakumar S, Manimaran A. Preliminary comparative deep metabolomic analysis of spermatozoa from zebu and crossbred cattle suggests associations between metabolites, sperm quality and fertility. Reproduction, Fertility and Development. 2021 Apr 1;33(6):427-36.

157.  

Santhoshkumar R, Preethish-Kumar V, Mangalaparthi KK, Unni S, Padmanabhan B, TS KP, Nongthomba U, Atchayaram N, Narayanappa G. A dominant C150Y mutation in FHL1 induces structural alterations in LIM2 domain causing protein aggregation in human and Drosophila indirect flight muscles. Journal of Molecular Neuroscience. 2021 Nov;71(11):2324-35.

158.  

Sivagurunathan S, Selvan LD, Khan AA, Parameswaran S, Bhattacharjee H, Gogoi K, Gowda H, Prasad TK, Pandey A, Kumar SA, Rishi P. Proteomics-based approach for differentiation of age-related macular degeneration sub-types. Indian Journal of Ophthalmology. 2021 Mar 1;69(3):647-54.

159.  

Shaikh SB, Najar MA, Prabhu A, Rex DA, Chanderasekaran J, Behera SK, Modi PK, Prasad TS, Bhandary YP. The unique molecular targets associated antioxidant and antifibrotic activity of curcumin in in vitro model of acute lung injury: A proteomic approach. BioFactors. 2021 Jul;47(4):627-44.

160.  

Karthikkeyan G, Pervaje R, Pervaje SK, Prasad TS, Modi PK. 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. 2021 Jun 28;274:114025.

161.  

Shaikh SB, Najar MA, Prabhu A, Rex DA, Chanderasekaran J, Behera SK, Modi PK, Prasad TS, Bhandary YP. The unique molecular targets associated antioxidant and antifibrotic activity of curcumin in in vitro model of acute lung injury: A proteomic approach. BioFactors. 2021 Jul;47(4):627-44.

162.  

Najar MA, Modi PK, Ramesh P, Sidransky D, Gowda H, Prasad TK, Chatterjee A. Molecular profiling associated with calcium/calmodulin-dependent protein kinase kinase 2 (CAMKK2)-mediated carcinogenesis in gastric cancer. Journal of proteome research. 2021 Apr 12;20(5):2687-703.

163.  

Shaikh SB, Najar MA, Prasad TS, Bhandary YP. Comparative protein profiling reveals the inhibitory role of curcumin on IL-17A mediated minichromosome maintenance (MCM) proteins as novel putative markers for acute lung injury in vivo. Biomedicine & Pharmacotherapy. 2021 Sep 1;141:111715.

164.  

Mohanty V, Subbannayya Y, Patil S, Abdulla R, Ganesh MS, Pal A, Ray JG, Sidransky D, Gowda H, Prasad TK, Chatterjee A. Molecular alterations in oral cancer between tobacco chewers and smokers using serum proteomics. Cancer Biomarkers. 2021 Nov;31(4):361-73.

165.  

Arefian M, Bhagya N, Prasad TK. Phosphorylation‐mediated signalling in flowering: prospects and retrospects of phosphoproteomics in crops. Biological Reviews. 2021 Oct;96(5):2164-91.

166.  

Palollathil A, Aravind A, Vijayakumar M, Kotimoole CN, Mohanty V, Behera SK, Kashyap V, Kiran Kumar KM, Shetty R, Codi JA, Raju R. Omics data mining for multiPTMs in oral cancer: cellular proteome and secretome of chronic tobacco-treated oral keratinocytes. OMICS: A Journal of Integrative Biology. 2021 Jul 1;25(7):450-62.

167.  

Dagamajalu S, Rex DA, Palollathil A, Shetty R, Bhat G, Cheung LW, Prasad TK. A pathway map of AXL receptor-mediated signaling network. Journal of Cell Communication and Signaling. 2021 Mar;15(1):143-8.

168.  

Dagamajalu S, Rex DA, Gopalakrishnan L, Karthikkeyan G, Gurtoo S, Modi PK, Mohanty V, Mujeeburahiman M, Soman S, Raju R, Tiwari V. A network map of endothelin mediated signaling pathway. Journal of Cell Communication and Signaling. 2021 Jun;15(2):277-82.

169.  

Najar MA, Rex DA, Modi PK, Agarwal N, Dagamajalu S, Karthikkeyan G, Vijayakumar M, Chatterjee A, Sankar U, Prasad TK. A complete map of the Calcium/calmodulin-dependent protein kinase kinase 2 (CAMKK2) signaling pathway. Journal of cell communication and signaling. 2021 Jun;15(2):283-90.

170.  

Gopalakrishnan L, Chatterjee O, Raj C, Pullimamidi D, Advani J, Mahadevan A, Keshava Prasad TS. An assembly of galanin–galanin receptor signaling network. Journal of cell communication and signaling. 2021 Jun;15(2):269-75.

171.  

Rex DA, Arun Kumar ST, Rai AB, Kotimoole CN, Modi PK, Prasad TS. Novel post-translational modifications and molecular substrates in glioma identified by bioinformatics. OMICS: A Journal of Integrative Biology. 2021 Jul 1;25(7):463-73.

172.  

Rex DA, Arun Kumar ST, Modi PK, Keshava Prasad TS. Broadening COVID-19 Interventions to Drug innovation: neprilysin pathway as a friend, foe, or promising molecular target?. OMICS: A Journal of Integrative Biology. 2021 Jul 1;25(7):408-16.

173.  

Rex DA, Dagamajalu S, Kandasamy RK, Raju R, Prasad TK. SARS-CoV-2 signaling pathway map: A functional landscape of molecular mechanisms in COVID-19. Journal of Cell Communication and Signaling. 2021 Dec;15(4):601-8.

174.  

Sarma A, Gunasekaran D, Rex DA, Sikha T, Phukan H, Kiran KM, Pinto SM, Prasad TS, Madanan MG. Extracellular proteome analysis shows the abundance of histidine kinase sensor protein, DNA helicase, putative lipoprotein containing peptidase M75 domain and peptidase C39 domain protein in Leptospira interrogans grown in EMJH medium. Pathogens. 2021 Jul 6;10(7):852.

175.  

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 Mar;16(1):145-54.

176.  

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;

177.  

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;

178.  

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;

179.  

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;

180.  

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;

181.  

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;

182.  

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;

183.  

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;

184.  

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;

185.  

 Saraf, K. K., Kumaresan, A., Gupta, M. D., Karthikkeyan, G., Prasad, T. S. K., Modi, P. K., Ramesha, K., Jeyakumar, S. and Manimaran, A. (2020). Metabolomics Fingerprinting of Bull Spermatozoa for Identification of Fertility Signature Metabolites. Molecular Reproduction and Development.

186.  

Sharma T, Datta KK, Kumar M, Dey G, Khan AA, Mangalaparthi KK, Saharan P, Chinnapparaj S, Aggarwal A, Singla N, Ghosh S. Intracranial aneurysm biomarker candidates identified by a proteome-wide study. OMICS: A Journal of Integrative Biology. 2020 Aug 1;24(8):483-92.

187.  

Kasaragod S, Mohanty V, Tyagi A, Behera SK, Patil AH, Pinto SM, Prasad TK, Modi PK, Gowda H. CusVarDB: A tool for building customized sample-specific variant protein database from next-generation sequencing datasets. F1000Research. 2020 Nov 16;9:344.

188.  

Gouda MM, Rex DA, Es SP, Modi PK, Chanderasekaran J, Bhandary YP. Proteomics analysis revealed the importance of inflammation-mediated downstream pathways and the protective role of curcumin in bleomycin-induced pulmonary fibrosis in C57BL/6 mice. Journal of Proteome Research. 2020 Jul 3;19(8):2950-63.

189.  

Mangalaparthi KK, Patel K, Khan AA, Manoharan M, Karunakaran C, Murugan S, Gupta R, Gupta R, Khanna-Gupta A, Chaudhuri A, Kumar P. Mutational landscape of esophageal squamous cell carcinoma in an Indian cohort. Frontiers in oncology. 2020 Aug 20;10:1457.

190.  

Thoduvayil S, Dhandapani G, Brahma R, Devasahayam Arokia Balaya R, Mangalaparthi KK, Patel K, Kumar M, Tennyson J, Satheeshkumar PK, Kulkarni MJ, Pinto SM. Triton X‐114 fractionated subcellular proteome of Leptospira interrogans shows selective enrichment of pathogenic and outer membrane proteins in the detergent fraction. Proteomics. 2020 Oct;20(19-20):2000170.

191.  

Yadav R, Parihar RD, Dhiman U, Dhamija P, Upadhyay SK, Imran M, Behera SK, Prasad TK. Docking of fda approved drugs targeting nsp-16, n-protein and main protease of sars-cov-2 as dual inhibitors. Biointerface Res. Appl. Chem. 2020;11(3):9848-61.

192.  

Karthikkeyan G, Najar MA, Pervaje R, Pervaje SK, Modi PK, Prasad TS. Identification of molecular network associated with neuroprotective effects of Yashtimadhu (Glycyrrhiza glabra L.) by quantitative proteomics of rotenone-induced Parkinson’s disease model. Acs Omega. 2020 Oct 6;5(41):26611-25.

193.  

Karthikkeyan G, Pervaje R, Subbannayya Y, Patil AH, Modi PK, Prasad TS. Plant omics: metabolomics and network pharmacology of liquorice, Indian Ayurvedic Medicine Yashtimadhu. OMICS: A Journal of Integrative Biology. 2020 Dec 1;24(12):743-55.

194.  

Muliyar RK, Chowdappa P, Behera SK, Kasaragod S, Gangaraj KP, Kotimoole CN, Nekrakalaya B, Mohanty V, Sampgod RB, Banerjee G, Das AJ. Assembly and annotation of the nuclear and organellar genomes of a dwarf coconut (Chowghat Green Dwarf) possessing enhanced disease resistance. OMICS: A Journal of Integrative Biology. 2020 Dec 1;24(12):726-42.

195.  

Dagamajalu, S., Vijayakumar, M., Shetty, R., Rex, D. A. B., Narayana Kotimoole, C. and Prasad, T. S. K. (2020). Proteogenomic examination of esophageal squamous cell carcinoma (ESCC)

196.  

Rajesh MK, Gangaraj KP, Prabhudas SK, Prasad TK. The complete chloroplast genome data of Areca catechu (Arecaceae). Data in Brief. 2020 Dec 1;33:106444.

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