Center for Systems Biology and Molecular Medicine

An ICMR collaborating centre of excellence (ICMR-CCoE)

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Publications



1.  

Rawat RS, Gupta A, Antil N, Bhatnagar S, Singh M, Rawat A, Prasad TK, Sharma P. Protein kinase PfPK2 mediated signalling is critical for host erythrocyte invasion by malaria parasite. PLoS Pathogens. 2023

DOI


2.  

Ranade AV, Hegde PS, Bhat MA, Rai P, Vinodini NA, Aravind A, Prasad TS, Damodara Gowda KM. Astaxanthin and DHA supplementation ameliorates the proteomic profile of perinatal undernutrition-induced adipose tissue dysfunction in adult life. Scientific reports. 2023;

DOI


3.  

Phukan H, Sarma A, Rex DA, Christie SA, Sabu SK, Hariharan S, Prasad TS, Madanan MG. Physiological temperature and osmotic changes drive dynamic proteome alterations in the leptospiral outer membrane and enhance protein export systems. Journal of Proteome Research. 2023;

DOI


4.  

Hegde A, Upadhyay SS, Prasad TS, Modi PK. Mass spectrometry–based approaches for the identification of molecular mechanism of action of ayurvedic medicines in Parkinson disease. InAyurvedic Herbal Preparations in Neurological Disorders 2023;

DOI


5.  

Devadasan MJ, Ramesha KP, Ramesh P, Kootimole CN, Jeyakumar S, Ashwitha A, Ammankallu S, Rai AB, Kumaresan A, Vedamurthy VG, Raju R. Exploring molecular dynamic indicators associated with reproductive performance of Bos indicus cattle in blood plasma samples through data-independent acquisition mass spectrometry. Journal of Proteomics. 2023;

DOI


6.  

Mangalaparthi KK, Patel K, Khan AA, Nair B, Kumar RV, Prasad TS, Sidransky D, Chatterjee A, Pandey A, Gowda H. Molecular characterization of esophageal squamous cell carcinoma using quantitative proteomics. Cancers. 2023;

DOI


7.  

Ramesh P, Behera SK, Kotimoole CN, Mohanty V, Raju R, Prasad TK, Codi JA. Mining proteomics data to extract post-translational modifications associated with gastric cancer. Amino Acids. 2023;

DOI


8.  

Kumar S, Balaya RD, Kanekar S, Raju R, Prasad TS, Kandasamy RK. Computational tools for exploring peptide-membrane interactions in gram-positive bacteria. Computational and Structural Biotechnology Journal. 2023;

DOI


9.  

Suchitha GP, Balaya RD, Raju R, Keshava Prasad TS, Dagamajalu S. A network map of cytoskeleton-associated protein 4 (CKAP4) mediated signaling pathway in cancer. Journal of Cell Communication and Signaling. 2023;

DOI


10.  

Upadhyay SS, Devasahayam Arokia Balaya R, Parate SS, Dagamajalu S, Keshava Prasad TS, Shetty R, Raju R. An assembly of TROP2-mediated signaling events. Journal of Cell Communication and Signaling. 2023;

DOI


11.  

Kotimoole CN, Antil N, Kasaragod S, Behera SK, Aravind A, Reiling N, Flo TH, Prasad TS. Development of a Spectral Library for the Discovery of Altered Genomic Events in Mycobacterium avium Associated With Virulence Using Mass Spectrometry–Based Proteogenomic Analysis. Molecular & Cellular Proteomics. 2023;

DOI


12.  

Sanjeev D, Dagamajalu S, Shaji V, George M, Subbannayya Y, Prasad TK, Raju R, Devasahayam Arokia Balaya R. A network map of macrophage-stimulating protein (MSP) signaling. Journal of Cell Communication and Signaling. 2023;

DOI


13.  

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;


14.  

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;


15.  

Mol P, Balaya RD, Dagamajalu S, Babu S, Chandrasekaran P, Raghavan R, Suresh S, Ravishankara N, Raju AH, Nair B, Modi PK. A network map of GDNF/RET signaling pathway in physiological and pathological conditions. Journal of Cell Communication and Signaling. 2023;

DOI


16.  

Husain AA, Pinto SM, Agarwal N, Behera SK, Khulkhule PR, Bhartiya NM, Subbannayya Y, Prasad TK, Singh LR, Daginawala HF, Kashyap RS. Comprehensive proteomic analysis of Brucella melitensis ATCC23457 strain reveals metabolic adaptations in response to nutrient stress. Current microbiology. 2023;

DOI


17.  

Ramesh P, Babu S, Ammankallu S, Codi JA, Prasad TS, Raju R. Helicobacter pylori regulated microRNA map of human gastric cells. Helicobacter. 2023 Feb;28(1):e12941.

DOI


18.  

Abhinand CS, Prabhakaran AA, Krishnamurthy A, Raju R, Keshava Prasad TS, Nair AS, Rajasekharan KN, Oommen OV, Sudhakaran PR. SARS-CoV-2 variants infectivity prediction and therapeutic peptide design using computational approaches. Journal of Biomolecular Structure and Dynamics. 2023;

DOI


19.  

Dagamajalu S, Rex DA, Suchitha GP, Rai AB, Kumar S, Joshi S, Raju R, Prasad TK. A network map of discoidin domain receptor 1 (DDR1)-mediated signaling in pathological conditions. Journal of Cell Communication and Signaling. 2023;

DOI


20.  

Chatterjee O, Gopalakrishnan L, Pullimamidi D, Raj C, Yelamanchi S, Gangadharappa BS, Nair B, Mahadevan A, Raju R, Keshava Prasad TS. A molecular network map of orexin-orexin receptor signaling system. Journal of cell communication and signaling. 2023;

DOI


21.  

Rex DA, Dagamajalu S, Gouda MM, Suchitha GP, Chanderasekaran J, Raju R, Prasad TK, Bhandary YP. A comprehensive network map of IL-17A signaling pathway. Journal of Cell Communication and Signaling. 2023;

DOI


22.  

Ashwitha A, Ramesha KP, Ramesh P, Kootimole CN, Devadasan MJ, Ammankallu S, Jeyakumar S, Kumaresan A, Veerappa VG, Das DN, Prasad TS. Quantitative proteomics profiling of spermatozoa and seminal plasma reveals proteins associated with semen quality in Bos indicus bulls. Journal of Proteomics. 2023;

DOI


23.  

Husain AA, Pinto SM, Subbannayya Y, Kapoor S, Khulkhule P, Bhartiya N, Prasad TK, Daginawala HF, Singh LR, Kashyap RS. Development of multiple reaction monitoring (MRM) assays to identify Brucella abortus proteins in the serum of humans and livestock. PROTEOMICS–Clinical Applications. 2023;

DOI


24.  

Abhinand CS, Ibrahim J, Keshava Prasad TS, Raju R, Oommen OV, Nair AS. Molecular docking and dynamics studies for the identification of Nipah virus glycoprotein inhibitors from Indian medicinal plants. Journal of Biomolecular Structure and Dynamics. 2023;

DOI


25.  

Deolankar SC, Najar MA, Ramesh P, Kanichery A, Kudva AK, Raghu SV, Prasad TK. Discovery of molecular networks of neuroprotection conferred by brahmi extract in Aβ42-induced toxicity model of Drosophila melanogaster using a quantitative proteomic approach. Molecular neurobiology. 2023;

DOI


26.  

Deolankar SC, Najar MA, Ramesh P, Kanichery A, Kudva AK, Raghu SV, Prasad TK. Discovery of molecular networks of neuroprotection conferred by brahmi extract in Aβ42-induced toxicity model of Drosophila melanogaster using a quantitative proteomic approach. Molecular neurobiology. 2023;

DOI


27.  

Chatterjee O, Gopalakrishnan L, Pullimamidi D, Raj C, Yelamanchi S, Gangadharappa BS, Nair B, Mahadevan A, Raju R, Keshava Prasad TS. A molecular network map of orexin-orexin receptor signaling system. Journal of cell communication and signaling. 2023;

DOI


1.  

Rawat RS, Gupta A, Antil N, Bhatnagar S, Singh M, Rawat A, Prasad TK, Sharma P. Protein kinase PfPK2 mediated signalling is critical for host erythrocyte invasion by malaria parasite. PLoS Pathogens. 2023

DOI


2.  

Ranade AV, Hegde PS, Bhat MA, Rai P, Vinodini NA, Aravind A, Prasad TS, Damodara Gowda KM. Astaxanthin and DHA supplementation ameliorates the proteomic profile of perinatal undernutrition-induced adipose tissue dysfunction in adult life. Scientific reports. 2023;

DOI


3.  

Phukan H, Sarma A, Rex DA, Christie SA, Sabu SK, Hariharan S, Prasad TS, Madanan MG. Physiological temperature and osmotic changes drive dynamic proteome alterations in the leptospiral outer membrane and enhance protein export systems. Journal of Proteome Research. 2023;

DOI


4.  

Hegde A, Upadhyay SS, Prasad TS, Modi PK. Mass spectrometry–based approaches for the identification of molecular mechanism of action of ayurvedic medicines in Parkinson disease. InAyurvedic Herbal Preparations in Neurological Disorders 2023;

DOI


5.  

Devadasan MJ, Ramesha KP, Ramesh P, Kootimole CN, Jeyakumar S, Ashwitha A, Ammankallu S, Rai AB, Kumaresan A, Vedamurthy VG, Raju R. Exploring molecular dynamic indicators associated with reproductive performance of Bos indicus cattle in blood plasma samples through data-independent acquisition mass spectrometry. Journal of Proteomics. 2023;

DOI


6.  

Mangalaparthi KK, Patel K, Khan AA, Nair B, Kumar RV, Prasad TS, Sidransky D, Chatterjee A, Pandey A, Gowda H. Molecular characterization of esophageal squamous cell carcinoma using quantitative proteomics. Cancers. 2023;

DOI


7.  

Ramesh P, Behera SK, Kotimoole CN, Mohanty V, Raju R, Prasad TK, Codi JA. Mining proteomics data to extract post-translational modifications associated with gastric cancer. Amino Acids. 2023;

DOI


8.  

Kumar S, Balaya RD, Kanekar S, Raju R, Prasad TS, Kandasamy RK. Computational tools for exploring peptide-membrane interactions in gram-positive bacteria. Computational and Structural Biotechnology Journal. 2023;

DOI


9.  

Suchitha GP, Balaya RD, Raju R, Keshava Prasad TS, Dagamajalu S. A network map of cytoskeleton-associated protein 4 (CKAP4) mediated signaling pathway in cancer. Journal of Cell Communication and Signaling. 2023;

DOI


10.  

Upadhyay SS, Devasahayam Arokia Balaya R, Parate SS, Dagamajalu S, Keshava Prasad TS, Shetty R, Raju R. An assembly of TROP2-mediated signaling events. Journal of Cell Communication and Signaling. 2023;

DOI


11.  

Kotimoole CN, Antil N, Kasaragod S, Behera SK, Aravind A, Reiling N, Flo TH, Prasad TS. Development of a Spectral Library for the Discovery of Altered Genomic Events in Mycobacterium avium Associated With Virulence Using Mass Spectrometry–Based Proteogenomic Analysis. Molecular & Cellular Proteomics. 2023;

DOI


12.  

Sanjeev D, Dagamajalu S, Shaji V, George M, Subbannayya Y, Prasad TK, Raju R, Devasahayam Arokia Balaya R. A network map of macrophage-stimulating protein (MSP) signaling. Journal of Cell Communication and Signaling. 2023;

DOI


13.  

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;


14.  

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;


15.  

Mol P, Balaya RD, Dagamajalu S, Babu S, Chandrasekaran P, Raghavan R, Suresh S, Ravishankara N, Raju AH, Nair B, Modi PK. A network map of GDNF/RET signaling pathway in physiological and pathological conditions. Journal of Cell Communication and Signaling. 2023;

DOI


16.  

Husain AA, Pinto SM, Agarwal N, Behera SK, Khulkhule PR, Bhartiya NM, Subbannayya Y, Prasad TK, Singh LR, Daginawala HF, Kashyap RS. Comprehensive proteomic analysis of Brucella melitensis ATCC23457 strain reveals metabolic adaptations in response to nutrient stress. Current microbiology. 2023;

DOI


17.  

Ramesh P, Babu S, Ammankallu S, Codi JA, Prasad TS, Raju R. Helicobacter pylori regulated microRNA map of human gastric cells. Helicobacter. 2023 Feb;28(1):e12941.

DOI


18.  

Abhinand CS, Prabhakaran AA, Krishnamurthy A, Raju R, Keshava Prasad TS, Nair AS, Rajasekharan KN, Oommen OV, Sudhakaran PR. SARS-CoV-2 variants infectivity prediction and therapeutic peptide design using computational approaches. Journal of Biomolecular Structure and Dynamics. 2023;

DOI


19.  

Dagamajalu S, Rex DA, Suchitha GP, Rai AB, Kumar S, Joshi S, Raju R, Prasad TK. A network map of discoidin domain receptor 1 (DDR1)-mediated signaling in pathological conditions. Journal of Cell Communication and Signaling. 2023;

DOI


20.  

Chatterjee O, Gopalakrishnan L, Pullimamidi D, Raj C, Yelamanchi S, Gangadharappa BS, Nair B, Mahadevan A, Raju R, Keshava Prasad TS. A molecular network map of orexin-orexin receptor signaling system. Journal of cell communication and signaling. 2023;

DOI


21.  

Rex DA, Dagamajalu S, Gouda MM, Suchitha GP, Chanderasekaran J, Raju R, Prasad TK, Bhandary YP. A comprehensive network map of IL-17A signaling pathway. Journal of Cell Communication and Signaling. 2023;

DOI


22.  

Ashwitha A, Ramesha KP, Ramesh P, Kootimole CN, Devadasan MJ, Ammankallu S, Jeyakumar S, Kumaresan A, Veerappa VG, Das DN, Prasad TS. Quantitative proteomics profiling of spermatozoa and seminal plasma reveals proteins associated with semen quality in Bos indicus bulls. Journal of Proteomics. 2023;

DOI


23.  

Husain AA, Pinto SM, Subbannayya Y, Kapoor S, Khulkhule P, Bhartiya N, Prasad TK, Daginawala HF, Singh LR, Kashyap RS. Development of multiple reaction monitoring (MRM) assays to identify Brucella abortus proteins in the serum of humans and livestock. PROTEOMICS–Clinical Applications. 2023;

DOI


24.  

Abhinand CS, Ibrahim J, Keshava Prasad TS, Raju R, Oommen OV, Nair AS. Molecular docking and dynamics studies for the identification of Nipah virus glycoprotein inhibitors from Indian medicinal plants. Journal of Biomolecular Structure and Dynamics. 2023;

DOI


25.  

Deolankar SC, Najar MA, Ramesh P, Kanichery A, Kudva AK, Raghu SV, Prasad TK. Discovery of molecular networks of neuroprotection conferred by brahmi extract in Aβ42-induced toxicity model of Drosophila melanogaster using a quantitative proteomic approach. Molecular neurobiology. 2023;

DOI


26.  

Deolankar SC, Najar MA, Ramesh P, Kanichery A, Kudva AK, Raghu SV, Prasad TK. Discovery of molecular networks of neuroprotection conferred by brahmi extract in Aβ42-induced toxicity model of Drosophila melanogaster using a quantitative proteomic approach. Molecular neurobiology. 2023;

DOI


27.  

Chatterjee O, Gopalakrishnan L, Pullimamidi D, Raj C, Yelamanchi S, Gangadharappa BS, Nair B, Mahadevan A, Raju R, Keshava Prasad TS. A molecular network map of orexin-orexin receptor signaling system. Journal of cell communication and signaling. 2023;

DOI


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