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Ricardo Roberto da Silva

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Universidade de São Paulo (USP). Faculdade de Ciências Farmacêuticas de Ribeirão Preto (FCFRP)  (Institutional affiliation for the last research proposal)
Birthplace: Brazil

Graduated in Forestry Engineering from the Federal University of Viçosa (2007), Master in Genetics from the same institution (2010) and PhD in Genetics (with emphasis in Bioinformatics) from the University of São Paulo, Ribeirão Preto (2014). I have experience in the areas of Omics Sciences, Computational Biology and Bioinformatics, especially in the study of metabolism. During the postdoctoral period, I worked on the development of databases, multivariate statistics for omics data, and the application and development of quantitative methods for multidimensional data integration. My main interest is the application and development of methods for interpretation of phenotypes, using molecular information from large scale sampling techniques (Omics Sciences). I am currently developing research in the field of data science that aims to integrate different data sources and use computational statistics to elucidate altered metabolic pathways under different sampling conditions in different organisms, particularly plants and microorganisms. As a Young Researcher at FAPESP my focus is on the development of extensible and modular applications and the rational use of computational resources. (Source: Lattes Curriculum)

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Scientific publications resulting from Research Grants and Scholarships under the grantee's responsibility (16)

(References retrieved automatically from Web of Science and SciELO through information on FAPESP grants and their corresponding numbers as mentioned in the publications by the authors)

Data from Web of Science

FAEDO, RAQUEL ROMAN; DA SILVA, GABRIEL; DA SILVA, RODRIGO MOREIRA; USHIDA, TATIANE RESENDE; DA SILVA, RICARDO ROBERTO; LACCHINI, RICCARDO; MATOS, LEANDRO LUONGO; KOWALSKI, LUIZ PAULO; LOPES, NOBERTO PEPORINE; LEOPOLDINO, ANDREIA MACHADO. Sphingolipids signature in plasma and tissue as diagnostic and prognostic tools in oral squamous cell carcinoma. BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR AND CELL BIOLOGY OF LIPIDS, v. 1867, n. 1, . Web of Science Citations: 0. (18/17480-9, 19/05026-4, 17/18922-2, 18/03278-3, 16/19103-2)

DOS SANTOS, ANCELY F.; INAGUE, ALEX; ARINI, GABRIEL S.; TERRA, LETICIA F.; WAILEMANN, ROSANGELA A. M.; PIMENTEL, ANDRE C.; YOSHINAGA, MARCOS Y.; SILVA, RICARDO R.; SEVERINO, DIVINOMAR; DE ALMEIDA, DARIA RAQUEL Q.; et al. Distinct photo-oxidation-induced cell death pathways lead to selective killing of human breast cancer cells. CELL DEATH & DISEASE, v. 11, n. 12, . Web of Science Citations: 0. (19/09517-2, 17/13804-1, 19/05026-4, 16/04676-7, 17/23914-9, 17/18922-2, 17/03618-6, 15/02654-3, 13/07937-8)

LEAO, TIAGO; WANG, MINGXUN; MOSS, NATHAN; DA SILVA, RICARDO; SANDERS, JON; NURK, SERGEY; GUREVICH, ALEXEY; HUMPHREY, GREGORY; REHER, RAPHAEL; ZHU, QIYUN; et al. A Multi-Omics Characterization of the Natural Product Potential of Tropical Filamentous Marine Cyanobacteria. MARINE DRUGS, v. 19, n. 1, . Web of Science Citations: 0. (19/05026-4)

DA SILVA, RICARDO R.; WANG, MINGXUN; NOTHIAS, LOUIS-FELIX; VAN DER HOOFT, JUSTIN J. J.; CARABALLO-RODRIGUEZ, ANDRES MAURICIO; FOX, EVAN; BALUNAS, MARCY J.; KLASSEN, JONATHAN L.; LOPES, NORBERTO PEPORINE; DORRESTEIN, PIETER C.. Propagating annotations of molecular networks using in silico fragmentation. PLOS COMPUTATIONAL BIOLOGY, v. 14, n. 4, . Web of Science Citations: 28. (15/03348-3, 14/50265-3, 14/01884-2)

ERNST, MADELEINE; SILVA, DENISE BRENTAN; SILVA, RICARDO ROBERTO; VENCIO, RICARDO Z. N.; LOPES, NORBERTO PEPORINE. Mass spectrometry in plant metabolomics strategies: from analytical platforms to data acquisition and processing. NATURAL PRODUCT REPORTS, v. 31, n. 6, p. 784-806, . Web of Science Citations: 76. (09/54098-6, 12/18031-7, 10/14926-4, 11/05215-0)

BOUSLIMANI, AMINA; MELNIK, ALEXEY V.; XU, ZHENJIANG; AMIR, AMNON; DA SILVA, RICARDO R.; WANG, MINGXUN; BANDEIRA, NUNO; ALEXANDROV, THEODORE; KNIGHT, ROB; DORRESTEIN, PIETER C.. Lifestyle chemistries from phones for individual profiling. Proceedings of the National Academy of Sciences of the United States of America, v. 113, n. 48, p. E7645-E7654, . Web of Science Citations: 18. (15/03348-3)

QUINN, ROBERT A.; NAVAS-MOLINA, JOSE A.; HYDE, EMBRIETTE R.; SONG, SE JIN; VAZQUEZ-BAEZA, YOSHIKI; HUMPHREY, GREG; GAFFNEY, JAMES; MINICH, JEREMIAH J.; MELNIK, ALEXEY V.; HERSCHEND, JAKOB; et al. From Sample to Multi-Omics Conclusions in under 48 Hours. MSYSTEMS, v. 1, n. 2, . Web of Science Citations: 27. (15/03348-3)

CRUSEMANN, MAX; O'NEILL, ELLIS C.; LARSON, CHARLES B.; MELNIK, ALEXEY V.; FLOROS, DIMITRIOS J.; DA SILVA, RICARDO R.; JENSEN, PAUL R.; DORRESTEIN, PIETER C.; MOORE, BRADLEY S.. Prioritizing Natural Product Diversity in a Collection of 146 Bacterial Strains Based on Growth and Extraction Protocols. Journal of Natural Products, v. 80, n. 3, SI, p. 588-597, . Web of Science Citations: 36. (15/03348-3)

NUNES, TULIO M.; MATEUS, SIDNEI; FAVARIS, ARODI P.; AMARAL, MONICA F. Z. J.; VON ZUBEN, LUCAS G.; CLOSOSKI, GIULIANO C.; BENTO, JOSE M. S.; OLDROYD, BENJAMIN P.; SILVA, RICARDO; ZUCCHI, RONALDO; et al. Queen signals in a stingless bee: suppression of worker ovary activation and spatial distribution of active compounds. SCIENTIFIC REPORTS, v. 4, . Web of Science Citations: 25. (12/18031-7, 14/20302-4, 09/54098-6, 11/22991-3, 14/01884-2)

ERNST, MADELEINE; SILVA, DENISE B.; SILVA, RICARDO; MONGE, MARCELO; SEMIR, JOAO; VENCIO, RICARDO Z. N.; LOPES, NORBERTO P.. A metabolomic protocol for plant systematics by matrix-assisted laser-desorption/ionization time-of flight mass spectrometry. Analytica Chimica Acta, v. 859, p. 46-58, . Web of Science Citations: 3. (09/54098-6, 12/18031-7, 10/14926-4, 11/05215-0)

WANG, MINGXUN; CARVER, JEREMY J.; PHELAN, VANESSA V.; SANCHEZ, LAURA M.; GARG, NEHA; PENG, YAO; NGUYEN, DON DUY; WATROUS, JERAMIE; KAPONO, CLIFFORD A.; LUZZATTO-KNAAN, TAL; et al. Sharing and community curation of mass spectrometry data with Global Natural Products Social Molecular Networking. NATURE BIOTECHNOLOGY, v. 34, n. 8, p. 828-837, . Web of Science Citations: 383. (12/18031-7, 14/18052-0, 14/50265-3, 14/01884-2, 13/16496-5, 14/01651-8)

ELIAS, LARISSA G.; SILVA, DENISE B.; SILVA, RICARDO; PENG, YAN-QIONG; YANG, DA-RONG; LOPES, NORBERTO P.; PEREIRA, RODRIGO A. S.. A comparative venomic fingerprinting approach reveals that galling and non-galling fig wasp species have different venom profiles. PLoS One, v. 13, n. 11, . Web of Science Citations: 1. (13/01918-1, 14/50265-3, 14/01884-2)

MCAVOY, ANDREW C.; JAIYESIMI, OLAKUNLE; THREATT, PAXTON H.; SELADI, TYLER; GOLDBERG, JOANNA B.; DA SILVA, RICARDO R.; GARG, NEHA. Differences in Cystic Fibrosis-Associated Burkholderia spp. Bacteria Metabolomes after Exposure to the Antibiotic Trimethoprim. ACS INFECTIOUS DISEASES, v. 6, n. 5, p. 1154-1168, . Web of Science Citations: 0. (17/18922-2, 19/05026-4)

KAZANDJIAN, T. D.; PETRAS, D.; ROBINSON, S. D.; VAN THIEL, J.; GREENE, H. W.; ARBUCKLE, K.; BARLOW, A.; CARTER, D. A.; WOUTERS, R. M.; WHITELEY, G.; et al. Convergent evolution of pain-inducing defensive venom components in spitting cobras. Science, v. 371, n. 6527, p. 386+, . Web of Science Citations: 16. (19/05026-4, 17/18922-2)

BIN KANG, KYO; WOO, SUNMIN; ERNST, MADELEINE; VAN DER HOOFT, JUSTIN J. J.; NOTHIAS, LOUIS-FELIX; DA SILVA, RICARDO R.; DORRESTEIN, PIETER C.; SUNG, SANG HYUN; LEE, MINA. Assessing specialized metabolite diversity of Alnus species by a digitized LC-MS/MS data analysis workflow. Phytochemistry, v. 173, . Web of Science Citations: 0. (17/18922-2, 19/05026-4)

CARABALLO-RODRIGUEZ, ANDRES MAURICIO; PUCKETT, SARA P.; KYLE, KATHLEEN E.; PETRAS, DANIEL; DA SILVA, RICARDO; NOTHIAS, LOUIS-FELIX; ERNST, MADELEINE; VAN DER HOOFT, JUSTIN J. J.; TRIPATHI, ANUPRIYA; WANG, MINGXUN; et al. Chemical Gradients of Plant Substrates in an Atta texana Fungus Garden. MSYSTEMS, v. 6, n. 4, . Web of Science Citations: 0. (19/05026-4, 17/18922-2)

Academic Publications

(References retrieved automatically from State of São Paulo Research Institutions)

SILVA, Ricardo Roberto da. Anotação probabilística de perfis de metabólitos obtidos por cromatografia líquida acoplada a espectrometria de massas. Tese (Doutorado) -  Faculdade de Medicina de Ribeirão Preto.  Universidade de São Paulo (USP).  Ribeirão Preto.  (10/14926-4

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