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Mandlik, V. and Bejugam , P.P. and Singh , S. (2015) Application of Artificial Neural Networks in Modern Drug Discovery Chapter – 6 published in Artificial Neural Network for Drug Design, Delivery and Disposition. In: Artificial Neural Network for Drug Design, Delivery and Disposition. Elsevier.

Soni, S. and Mandlik , V. and Bejugam, P.R. and Singh , S. (2016) Molecular clock calibrations and substitution rates as a theoretical framework for systems approaches in TLRs: A perspective for drug targeting in leishmaniasis. Gene Reports, 4. pp. 74-86. ISSN Volume 4, September 2016, Pages 74–86

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Bejugam , P.R. and Singh, S. (2016) Computing Molecular Devices in L.major through Transcriptome Analysis: Structured Simulation Approach. PLoS One, 11 (2). e0148909-e0148909. ISSN 2016 Feb 22;11(2):e0148909

Bejugam , P.R. and Singh , S. (2018) Engineering riboswitch in L. major: From prediction to conceptualization. Elsevier International Journal of Biological Macromolecules, 115. pp. 98-115. ISSN Volume 115, August 2018, Pages 98-105

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Carina , C. and Pereira, JAM and Taunk , K. and Taware , R. (2018) Screening of salivary volatiles for putative breast cancer discrimination: an exploratory study involving geographically distant populations. Breast cancer discrimination using saliva: an exploratory study involving geographic distant populations. Analytical and Bioanalytical Chemistry, 410 (18). pp. 4459-4468. ISSN July 2018, Volume 410, Issue 18, pp 4459–4468

Chanukuppa, V and Paul, D and Taunk, K and Chatterjee, T and Sharma , S and Shirolkar, A and Islam, S and Santra, MK and Rapole, S (2020) Proteomics and functional study reveal marginal zone B andB1 cell specific protein as a candidate marker of multiple myeloma. International Journal of Oncology. pp. 325-337.

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Dutta , M. and Subramani, E. and Taunk, K. and Gajbhiye, A. and Seal, S. and Pendharkar , N. and Dhali , S. and Ray, C.D. and Lodh, I. and Chakravarty, B. and Dasgupta , S. and Rapole , S. and Chaudhury, K. (2015) Investigation of serum proteome alterations in human endometriosis. Journal of Proteomics, 114. pp. 182-196. ISSN 114:182-96.

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Gajbhiye, A. and Dabhi , R. and Taunk, K. and Vannuruswamy , G. and RoyChoudhury, S. and Adhav, R. and Seal , S. and Mane, A. and Santhakumari , B. and Santra, M.K. and Chaudhury , K. and Rapole, S. (2016) Urinary proteome alterations in HER2 enriched breast cancer revealed by multipronged quantitative proteomics. Proteomics, 16 (17). pp. 2403-2418.

Gajbhiye , A. and Dabhi , R and Taunk , K and Jagadeeshaprasad , M.G. and Roy Choudhury , S. and Mane , A. and Bayatigeri , S. and Chaudhury , K. and Santra , M.K. and Rapole , S. (2017) Multipronged quantitative proteomics reveals serum proteome alterations in breast cancer intrinsic subtypes. Journal of Proteomics, 163. pp. 1-13. ISSN Journal of Proteomics

Gajbhiye , A. and Dabhi , R. and Taunk , K. and Vannuruswamy, G. and RoyChoudhury , S. and Adhav , R. and Seal , S. and Mane , A. and Santhakumari , B. and Santra , M.K. and Chaudhury , K. and Rapole, S. (2016) Urinary proteome alterations in HER2 enriched breast cancer revealed by multipronged quantitative proteomics. Proteomics.

Ganji, R. and Dhali , S. and Rizvi, A. and Sankati , S. and Vemula, M.R. and Mahajan, G. and Rapole, S. and Banerjee, S. (2016) Proteomics approach to understand reduced clearance of mycobacteria and high viral titers during HIV–mycobacteria co-infection. Cell Microbiol., 18 (3). pp. 355-368.

Ginotra, Y.P. and Ramteke , S.N. and Walke, G.R. and Rapole, S. and Kulkarni, P.P. (2016) Histidine availability is decisive in ROS-mediated cytotoxicity of copper complexes of Aβ1-16 peptide. Free Radic Res. 2016;50(4):405-13. doi: 10.3109/10715762.2015.1133907. Epub 2016 Jan 28., 50 (4). pp. 405-413.

Gollapalli , K. and Ghantasala , S. and Kumar , S. and Srivastava , R. and Rapole , S. and Moiyadi , A. and Epari , S. and Srivastava , S. (2017) Subventricular zone involvement in Glioblastoma – A proteomic evaluation and clinicoradiological correlation. Scientific Reports , 7 (1449 ).

Gollapalli , K. and Ghantasala , S. and Atak , A. and Rapole , S. and Moiyadi , A. and Epari , S. and Srivastava , S. (2017) Tissue Proteome Analysis of Different Grades of Human Gliomas Provides Major Cues for Glioma Pathogenesis. OMICS: A Journal of Integrative Biology, 21 (5). pp. 275-284. ISSN 2017 May;21(5):275-284. doi: 10.1089/omi.2017.0028.

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Ingale, P and Kabra , R and Singh, S (2020) Chapter Ten - Structural sequence evolution and computational modeling approaches of the complement system in leishmaniasis. In: Advances in Protein Chemistry and Structural Biology. Springer, pp. 409-424.

Ingale , P and Kabra , R and Singh , S (2020) Structural sequence evolution and computationalmodeling approaches of the complement system in leishmaniasis. In: Advances in Protein Chemistry and Structural Bi. Springer, pp. 409-424.

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Jain , R. and Kulkarni , P. and Dhali , S. and Rapole , S. and Srivastava , S. (2015) Quantitative proteomic analysis of global effect of LLL12 on U87 cell's proteome: An insight into the molecular mechanism of LLL12. Journal of Proteomics, 113. pp. 127-174. ISSN 113:127-42.

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Kabra, R and Singh, S (2021) Evolutionary Artificial Intelligence Based Peptide Discoveries for Effective Covid-19 Therapeutics. Biochimica et Biophysica Acta (BBA) - Molecular Basis of Disease, 1867 (1). p. 165978.

Kabra , R and Ingale , P and Singh, S (2020) Computationally Designed Synthetic Peptides for Transporter Proteins Imparts Allostericity in Miltefosine Resistant Leishmania major. Biochemical Journal, 477 (10). pp. 2007-2026.

Kirdat , K and Tiwarekar , B (2020) Draft Genome Sequences of Two Phytoplasma Strains associated with Sugarcane Grassy Shoot (SCGS) and Bermuda Grass White Leaf (BGWL) diseases. Molecular Plant-Microbe Interactions (MPMI) .

Kosey , D. and Singh , S. (2017) Computational design of molecular motors as nanocircuits in Leishmaniasis [version 1; referees: 1 approved with reservations]. F1000 Research.

Kosey , D. and Singh , S. (2017) Computational design of molecular motors as nanocircuits in Leishmaniasis. Version 2. F1000Res. 2017 Jan 31.

Kumar , A. and Saha , B. and Singh , S. (2017) Dataset generated for Dissection of mechanisms of Trypanothione Reductase and Tryparedoxin Peroxidase through dynamic networkanalysis and simulations in leishmaniasis. Data Brief. 2017 Oct 19;15:757-769, 15. pp. 757-769.

Kumar , R. and Dhali , S. and Srikanth, R. and Ghosh , S.K. and Srivastava , S. (2014) Comparative proteomics of mitosis and meiosis in Saccharomyces cerevisiae. Journal of Proteomics, 109. pp. 1-15. ISSN Volume 109, 23 September 2014, Pages 1–15

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Maheswarappa , N.B. and Rani , K.U. and Kumar, Y.P. and Kulkarni, V.V. and Rapole , S. (2016) Proteomic based approach for characterizing 4-hydroxy-2-nonenal induced oxidation of buffalo (Bubalus bubalis) and goat (Capra hircus) meat myoglobins. Proteome Science, 14 (18).

Mandlik, V. and Patil, S. and Bopanna, R. and Basu, S. and Singh, S. (2016) Biological Activity of Coumarin Derivatives as Anti-Leishmanial Agents. PLOS ONE , DOI:10 (1371). pp. 1-15.

Mandlik, V. and Singh , S. (2016) Molecular docking and molecular dynamics simulation study of inositol phosphorylceramide synthase – inhibitor complex in leishmaniasis: Insight into the structure based drug design [version 1; referees: 1 approved with reservations]. F1000 Research , 5 (1610). pp. 1-10.

Mandlik , V and Limbachiya , D and Shinde , S and Mol, M. and Singh, S. (2013) Synthetic circuit of inositol phosphorylceramide synthase in Leishmania: a chemical biology approach. J Chem Biol , 6. pp. 51-62.

Mandlik , V and Shinde , S and Chaudhary , A and Singh, S. (2012) Biological network modeling identifies IPCS in Leishmania as a therapeutic target. Integrative Biology, 4 (9). pp. 1130-1142.

Mandlik , V. and Kabra , R. and Singh , S. (2017) System pharmacogenomics application in infectious diseases. Brief Funct Genomics .

Mandlik , V. and Patil , S. and Bopanna , R. and Basu , S. and Singh, S. (2016) Biological Activity of Coumarin Derivatives as Anti-Leishmanial Agents. PLoS One, 11 (10). e0164585-e0164585.

Mandlik , V. and Shinde , S. and Singh , S. and UNSPECIFIED (2014) Molecular evolution of the enzymes involved in the sphingolipid metabolism of Leishmania: selection pressure in relation to functional divergence and conservation. BMC Evolutionary Biology , 14 (142). pp. 1-10.

Meyerson , J.R. and Kumar , J. and Chittori, S. and Rao, P. and Pierson , J. and Bartesaghi , A. and Mayer, M.L. and Subramaniam , S. (2014) Structural mechanism of glutamate receptor activation and desensitization. Nature , 514 (7522). pp. 328-334.

Milsee Mol, M. and Bejugam, P.R. and Shailza , S. (2014) Synthetic biology at the interface of functional genomics. Briefings in Functional Genomics.

Misra , P. and Singh, S. (2020) Vaccine Design, Nanoparticle Vaccines and Biomaterial Applications. In: Systems and Synthetic Immunology. In: Systems and Synthetic Immunology pp 1-52. Springer.

Mol, M. and Kosey, D. and Boppana, R. and Singh , S. (2018) Transcription Factor Target Gene Network governs the Logical Abstraction Analysis of the Synthetic Circuit in Leishmaniasis. Scientific Report, 8 (1). p. 3464.

Mol, M. and Kosey , D. and Singh , S. (2015) Nano Synthetic Devices in Leishmaniasis : A Bioinformatics Approach. Frontiers in Immunology, 6. p. 323.

Mol, M. and Patole , M.S. and Singh, S (2013) Signaling networks in Leishmania macrophages deciphered through integrated systems biology: a mathematical modeling approach. Syst Synth Biol, 7. pp. 185-195.

Mol , M. and Kabra , R. and Singh , S. (2017) Genome modularity and synthetic biology: Engineering systems. Progress in Biophysics and Molecular Biology.

Mol , M. and Kabra , R. and Singh , S. (2017) Genome modularity and synthetic biology: Engineering systems. Prog Biophys Mol Biol. .

Mol , M. and Kabra , R. and Singh , S. (2018) Genome modularity and synthetic biology: Engineering systems. Progress in Biophysics and Molecular Biology, 132. pp. 43-51.

Mol., M. and Singh , S. (2014) Computational Design of Biological Systems: From Systems to Synthetic Biology. In: Frontiers in Computational Chemistry. Benthum Science, pp. 158-196. ISBN 978-1-60805-865-5 ISSN :2352-944X

Mol., M. and Singh , S. (2014) In silico Approaches for Dealing With Gene Regulatory Networks to Understand Molecular Mechanisms of Immunity in Infectious Disease. In: Genomics and Drug Discovery. Benthum Science, pp. 1-20. (In Press)

More , T. and Choudhury, R.S. and Gollapally, K. and Patel, S.K. and Gowda, H. and Chaudhury, K. and Rapole, S. (2016) Metabolomics and its integration with systems biology: PSI 2014 conference panel discussion report ☆. Journal of Proteomics, 127 (Part A). pp. 73-39. ISSN Volume 127, Part A, 8 September 2015, Pages 73–79

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Naveena , B.M. and Jagadeesh , D.S. and Kamuni , V. and Muthukumar, M. and Kulkarni , V.V. and Kiran , M. and Rapole , S. (2017) In-gel and OFFGEL-based proteomic approach for authentication of meat species from minced meat and meat products. J Sci Food Agric. (doi: 1).

Naveena BM, , B.M. and Jagadeesh DS,, D.S. and Babu A,, J. and Rao , M.T. and Kamuni V, V. and Vaithiyanathan S, S. and Kulkarnia, V.V and Rapole , S. (2017) OFFGEL electrophoresis and tandem mass spectrometry approach compared with DNA-based PCR method for authentication of meat species from raw and cooked ground meat mixtures containing cattle meat, water buffalo meat and sheep meat. Food Chem. , 15 (233). pp. 311-320.

Naveenaa, B.M. and Jagadeesh, D.S. and Babu AJ, A.J. and Rao TM, T.M. and Kamunia, V. and Vaithiyanathana , S. and Kulkarnia, V.V. and Rapole, S. (2017) OFFGEL electrophoresis and tandem mass spectrometry approach compared with DNA-based PCR method for authentication of meat species from raw and cooked ground meat mixtures containing cattle meat, water buffalo meat and sheep meat. Food Chem. 2017 Oct 15;233:311-320., 233. pp. 311-320.

Nimsarkar, P. and Ingale, P. and Singh, S. (2020) Systems Studies Uncover miR-146a as a Target in Leishmania major Infection Model. ACS Omega, 5 (21). pp. 12516-12526.

Nirujogi , R.S. and Pawar , H. and Renuse, S. and Kumar, P. and Chavan , S. and Sathe , G. and Sharma , J. and Khobragade , S. and Pande , J. and Modak , B. and Prasad , T.S.K. and Harsha , H.C and Patole, M.S. and Pande , A. (2014) Moving from unsequenced to sequenced genome: Reanalysis of the proteome of Leishmania donovani☆. Journal of Proteomics, 97 (31). pp. 48-61. ISSN Volume 97, 31 January 2014, Pages 48–61

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Patel , P. and Mandlik , V. and Singh , S. (2016) LmSmdB: an integrated database for metabolic and gene regulatory network in Leishmania major and Schistosoma mansoni. Genomic Data , 7. pp. 115-118.

Patel , R. and Parray Mehraj ud din, P. and Singh, U.K. and Islam , A. and Venkatesu , P. and Singh , S. and Bohidar , H.B. (2016) Effect of 1,4-bis(3-dodecylimidazolium-1-yl) butane bromide on channel form of gramicidin vesicles. Colloids and Surfaces A: Physicochemical and Engineering Aspects, 508. pp. 150-158.

Paul , D and Kumar , A and Gajbhiye , A and Santra , M. and Rapole, S. (2013) Mass Spectrometry-Based Proteomics in Molecular Diagnostics: Discovery of Cancer Biomarkers Using Tissue Culture. BioMed Research International, 783131. pp. 1-16.

Paul , D. and Chanukuppa , V. and Reddy, P.J. and Taunk , K. and Adhav , R. and Srivastava , S. and Santra , M.K. and Rapole , S. (2016) Global proteomic profiling identifies etoposide chemoresistance markers in non-small cell lung carcinoma. Journal of Proteomics (138). pp. 95-105.

Pendharkar , N. and Gajbhiye , A. and Taunk, K. and RoyChoudhury , S. and Dhali , S. and Seal , S. and Mane , A. and Abhang , S. and Santra , M.K. and Chaudhury, K. and Rapole , S. (2016) Quantitative tissue proteomic investigation of invasive ductal carcinoma of breast with luminal B HER2 positive and HER2 enriched subtypes towards potential diagnostic and therapeutic biomarkers. J Proteomics. 132:112-30. Journal of Proteomics, 132. pp. 112-130.

Pereira , J. and Porto-Figueira, P. and Cavaco, C. and Taunk , T. and Rapole , S. and Dhakne, R. and Nagarajaram , H. and Câmara , J.S. (2015) Breath analysis as a potential and non-invasive frontier in disease diagnosis: an overview. Metabolites, 5 (1). pp. 33-55. ISSN 5(1), 3-55;

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Ramteke , S.N. and Ginotra , Y.P. and Walke, G.R. and Joshi , B.N. and Kumbhar , A.S. and Rapole , S. and Kulkarni , P.P. (2013) Eff ects of oxidation on copper-binding properties of A b 1-16 peptide: A pulse radiolysis study. Free Radical Research, 47 (12). pp. 1046-1053.

Ramtekea , S.N. and Ginotraa, Y.P. and Walkea, G.R. and Joshia, B.N. and Kumbharb, A.S. and Rapole , S. and Kulkarni, P.P. (2013) Effects of oxidation on copper-binding properties of Aβ1-16 peptide: A pulse radiolysis study. Free Radical Research , 47 (12). pp. 1417-1425.

Rao , A. and Mahajan , K. and Banker , A. and Rapole , S. and Ravi , A.K. and Gosavi , S. and Zinjarde , S. (2013) Facile synthesis of size-tunable gold nanoparticles by pomegranate (Punica granatum) leaf extract: Applications in arsenate sensing. Materials Research Bulletin , 48. pp. 1166-1173.

Rao , A.A. and Patkari , M. and Reddy , P.J. and Srivastava , R. and Pendharkar , N. and Rapole , S. and Mehra , S. and Srivastava , S. (2014) Proteomic analysis of Streptomyces coelicolor in response to Ciprofloxacin challenge☆. Journal of Proteomics, 97. pp. 222-234.

Ray, S. and Patel , S.K. and Venkatesh, A. and Bhave, A. and Kumar, V. and Singh, V. and Chatterjee, G. and Shah, V.G. and Sharma, S. and Renu, D. and Nafis, N. and Gandhe, P. and Gogtay , N. and Thatte, U. and Sehgal , K. and Verma, S. and Karak , A. and Khanara, D. and Talukdars , A. and Kochar , S.K. and Vijeth, S.B. and Kochar, D.K. and Rojh , D. and Varma, S.G. and Gandhi, M.N. and Rapole, S. and Patankar, S. and Srivastava, S. (2016) Clinicopathological analysis and multipronged quantitative proteomics reveal oxidative stress and cytoskeletal proteins as possible markers for severe vivax malaria. Scientific Reports (6). p. 24557.

Reddy, P.J. and Sinha, S. and Ray, S. and Sathe, G.J. and Chatterjee, A. and Prasad , T.S.K. and Dhali, S. and Rapole, S. and Panda, D. and Srivastava, S. (2015) Comprehensive analysis of temporal alterations in cellular proteome of Bacillus subtilis under curcumin treatment. PLoS One, 10 (4). e0120620-e0120620.

Reddy , P.J. and Ray, S. and Sathe, G.J. and Gajbhiya, A. and Prasad, T.S. and Rapole , S. (2015) A comprehensive proteomic analysis of totarol induced alterations in Bacillus subtilis by multipronged quantitative proteomics. Journal of Proteomics, 114. pp. 247-262.

Reddy , P.J. and Rao , A.A. and Malhotra, D. and Sharma , S. and Kumar, R. and Jain , R. and Gollapalli, K. and Pendharkar , N. and Rapole, S. and Srivastava , S. (2014) A Simple Protein Extraction Method for Proteomic Analysis of Diverse Biological Specimens. Current Proteomics, 10 (4). pp. 298-311.

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Sancheti , P. and Bhonsle , H. and Patil , R.H. and Kulkarni , M.J. and Rapole , S. and Gade , W.N. (2013) Arsenomics of Exiguobacterium sp. PS (NCIM 5463)3. RSC Advances. pp. 1-20.

Shailza , S. and Mandlika , V. (2015) Structure based investigation on the binding interaction of transport proteins in leishmaniasis: insights from molecular simulation. Mol. Biosyst., 11 (5). pp. 1251-1259. ISSN 11(5):1251-9

Sharma , A. and Rustad , T. and Mahajan, G. and Kumar , A. and Mahajan , G. and Kumar , A. and Rao , K.V. and Banerjee , S. and Sherman , D.R. and Mande, S.C. (2015) Towards understanding the biological function of the unusual chaperonin Cpn60.1 (GroEL1) of Mycobacterium tuberculosis. Tuberculosis.

Shinde, S. and Milsee , M. and Singh, S. (2014) Regulatory networks, genes and glycerophospholipid biosynthesis pathway in schistosomiasis: A systems biology view for pharmacological intervention. Gene, 550 (2). pp. 214-222.

Shinde , S. and Mandlik , V. and Sing, S. (2013) Integrating Bioinformatics and Systems Biology for Exploring Novel lipind pathways in infectious diseases. In: Bioinformatics and Systems Biology. Bioinformatics and Systems Biology . Bioinformatics and Systems Biology , pp. 1-10.

Shinde , S. and Mol, M. and Jamdar, V. and Singh , S. (2014) Molecular modeling and molecular dynamics simulations of GPI 14 in Leishmania major: Insight into the catalytic site for active site directed drug design. Journal of Theoretical Biology, 351. pp. 37-46.

Singh, S. (2018) Synthetic Biology: Omics Tools and their Application,. In: Synthetic Biology : Omics Tools and Their Applications. Springer.

Singh, S. and Mandlik , V. and Shinde, S. (2015) Molecular dynamics simulations and statistical coupling analysis of GPI12 in L. major: functional co-evolution and conservedness reveals potential drug–target sites. Molecular BioSystems, 11 (3). pp. 958-968.

Singh, S. (2012) Quantum pharmacology for infectious diseases: a molecular connectivity approach. In: Quantum pharmacology. Benthum Science, pp. 249-254.

Singh , S. (2020) Systems and Synthetic Immunology. Springer.

Singh , S. (2013) Gene Regulatory Network: A New Paradigm in Bioinformatics. In: Biotechnology Volume 6: Bioinformatics and Computational Biology. Bioinformatics and Computational Biology , 6 . Studium Press LLC, U.S.A., pp. 1-11. ISBN 9781626990210

Sonar , K. and Kabra , R. and Singh, S. (2018) TryTransDB: A web-based resource for transport proteins in Trypanosomatidae. Scientific Report, 8 (4368).

Soni , B. and Nimsarkar , P. and Saha , B. and Mol , M. and Singh , S. (2018) Systems-synthetic biology in understanding the complexities and simple devices in immunology. Cytokine (108). pp. 60-66.

Soni B, B. and Saha B, B. and Singh S, S. (2017) Systems cues governing IL6 signaling in leishmaniasis. Cytokine.

Srikanth Rapole1, , R. and Kulkarni, M.J. and Thakur, S.S. and Sengupta, S. (2015) Next generation proteomics tools [Nature India Special Issue: Proteomics Research in India]. Nature India.

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Taunk , K and Kalita, B and Kale , V and Chanukuppa V,, V and Naiya , T and Zingde, SM and Rapole , S (2020) The development and clinical applications of proteomics: an Indian perspective. Expert Review of Proteomics, 17 (6). pp. 433-451.

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Walke, G.R. and Rapole, S. and Kulkarni , P.P. (2014) Cisplatin inhibits the formation of a reactive intermediate during copper-catalyzed oxidation of amyloid β peptide. 2014 Oct 6;53(19):10003-5, 6 (53). pp. 10003-10005.

Walke , G.R. and Ranade , D.S. and Ramteke , S.N. and Rapole , S. and Satriano , C. and Rizzarell, E. and Tomaselli, G.A. and Trusso Sfrazzetto, G. and Kulkarni PP. , P.P. Fluorescent Copper Probe Inhibiting Aβ1-16-Copper(II)-Catalyzed Intracellular Reactive Oxygen Species Production. Inorganic Chemistry.

This list was generated on Mon Mar 1 13:24:31 2021 IST.