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Ramiro Magno is a Research Software Engineer with expertise in computational biology, focusing on developmental biology, human genomics, marine biology and standardization of clinical data reporting. He currently holds the position of Director and independent researcher at the Pattern Institute in Faro, Portugal.
Identificação

Identificação pessoal

Nome completo
Ramiro Emanuel Magno Morgado

Nomes de citação

  • Magno, Ramiro

Identificadores de autor

Ciência ID
301D-EA6F-3663
ORCID iD
0000-0001-5226-3441
Google Scholar ID
OAahJGgAAAAJ

Websites

  • https://www.pattern.institute/team/rmagno (Profissional)
  • https://ramiromagno.r-universe.dev/builds (Profissional)

Domínios de atuação

  • Ciências Exatas - Ciências da Computação e da Informação - Bioinformática
  • Ciências Naturais - Ciências Biológicas - Biologia
  • Ciências Sociais - Economia e Gestão - Organização e Gestão de Empresas

Idiomas

Idioma Conversação Leitura Escrita Compreensão Peer-review
Português Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1)
Inglês Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1) Utilizador proficiente (C1)
Formação
Grau Classificação
2023 - 2023
Concluído
 Making Data Science Work for Clinical Reporting (Postgraduate Certificate)
Coursera Inc, Estados Unidos
2022 - 2022
Concluído
 Data Science: Foundations using R Specialization (Postgraduate Certificate)
Johns Hopkins University, Estados Unidos
2022
Em curso
 Masters in Healthcare Management (Mestrado integrado)
Universidade do Algarve, Portugal
2005 - 2006
Concluído
 PhD Program in Computational Biology (Curso de doutoramento (conclusão de unidades curriculares))
Instituto Gulbenkian de Ciência, Portugal
2004
Concluído
 Licenciatura em Biologia Vegetal Aplicada (Licenciatura)
Universidade de Lisboa Faculdade de Ciências, Portugal
"Geometry and dynamics of pollen tube growth" (TESE/DISSERTAÇÃO)
 15
Percurso profissional

Ciência

Categoria Profissional
Instituição de acolhimento 		Empregador
2023/05 - Atual Investigador (Investigação) Pattern Institute, Portugal
Pattern Institute, Portugal
2014/08 - 2022/05 Investigador (Investigação) Universidade do Algarve, Portugal
Universidade do Algarve Centro de Investigação em Biomedicina, Portugal
2010/02 - 2013/01 Investigador (Investigação) John Innes Centre, Reino Unido
John Innes Centre Department of Computational and Systems Biology, Reino Unido
2008/11 - 2009/12 Investigador (Investigação) Universidade do Minho, Portugal
Universidade do Minho Instituto de Investigação em Ciências da Vida e Saúde, Portugal
2006/09 - 2008/10 Investigador (Investigação) Universiteit Utrecht, Países Baixos
Universiteit Utrecht Theoretical Biology and Bioinformatics, Países Baixos
2004/08 - 2005/08 Investigador (Investigação) Instituto Gulbenkian de Ciência, Portugal
Instituto Gulbenkian de Ciência, Portugal

Cargos e Funções

Categoria Profissional
Instituição de acolhimento 		Empregador
2024/05 - Atual R Developer R Validation Hub, Suiça
Pattern Institute, Portugal
2023/05 - Atual Director Pattern Institute, Portugal
Pattern Institute, Portugal
2023/03 - Atual R Developer Clinical Data Interchange Standards Consortium, Estados Unidos
Pattern Institute, Portugal
2024/01 - 2024/03 Project Leader Lodiag SAS, França
Lodiag SAS, França
2023/09 - 2023/12 Project Leader Amoneta Diagnostics SAS, França
Amoneta Diagnostics SAS, França
Projetos

Bolsa

Designação Financiadores
2024/06 - 2025/06 CaCau: Cancer Causality for Precision Oncology | Phase 2
2023.10973.CPCA.A2
Co-Investigador Responsável (Co-IR)
Universidade do Algarve, Portugal

Pattern Institute, Portugal
Fundacao de Computacao Cientifica Nacional
Em curso
2024/01 - 2024/06 CaCau: Cancer Causality | Phase 1
2023.09536.CPCA
Co-Investigador Responsável (Co-IR)
Universidade do Algarve, Portugal

Pattern Institute, Portugal
Associação para a Inovação e Desenvolvimento da FCT
Em curso
2023/06 - 2023/12 MitoProfiles: Gene Expression Landscape in Cancers from High Metabolic Rate Organs
2022.46814.CPCA.A0
Co-Investigador Responsável (Co-IR)
Pattern Institute, Portugal

Universidade do Algarve, Portugal
Em curso
2019 - 2021 DEvoCancer: Decoding breast cancer evolution through mutant allele differential expression signatures
PTDC/MED-ONC/31477/2017
Investigador
Universidade do Algarve Centro de Investigação em Biomedicina, Portugal
 Fundação para a Ciência e a Tecnologia
Concluído
2013/06 - 2016/02 Human Mesenchymal Stem Cells Chronobiology: evaluating the crosstalk between the Embryonic and Circadian Clocks
Provided by PTCRIS: 125901
Investigador
Fundação para a Ciência e a Tecnologia
Concluído
2014 - 2015 Timing cell differentiation: gene regulatory network in temporal control of mesoderm specification
PTDC/BEX-BID/5410/2014
Investigador
Universidade do Algarve Algarve Biomedical Center Research Institute, Portugal
 Associação para a Inovação e Desenvolvimento da FCT
Concluído
2010/04 - 2013/07 The role of molecular clock genes in temporal control of mesoderm patterning in vertebrate embryos
Provided by PTCRIS: 105111
Investigador
Fundação para a Ciência e a Tecnologia
Concluído

Projeto

Designação Financiadores
2023/02/20 - 2024/08/19 Exploring the shared regulatory genetic basis in cancer risk
2022.02380.PTDC
10.54499/2022.02380.PTDC
Universidade do Algarve, Portugal

Universidad Complutense de Madrid, Espanha
Fundação para a Ciência e a Tecnologia
Em curso
2010/02 - 2013/01 Multi-level modelling of morphogenesis
BBS/E/J/000C0645
Bolseiro de Doutoramento
John Innes Centre, Reino Unido
 Biotechnology and Biological Sciences Research Council
Concluído
Produções

Publicações

Artigo em revista
  1. Maia-Fernandes, Ana Cristina; Martins-Jesus, Ana; Borralho-Martins, Nísia; Pais-de-Azevedo, Tomás; Magno, Ramiro; Duarte, Isabel; Andrade, Raquel P.. "Spatio-temporal dynamics of early somite segmentation in the chicken embryo". PLOS ONE 19 4 (2024): e0297853. http://dx.doi.org/10.1371/journal.pone.0297853.
    10.1371/journal.pone.0297853
  2. Rui Pedro Peres dos Santos; Rodríguez, Yasmina; Sears, Richard; Magno, Ramiro; Castilho, Rita. "Tour operators as a tool to improve information on data-deficient cetacean species". Aquatic Conservation Marine and Freshwater Ecosystems (2024):
    Acesso aberto • Submetido
  3. Nuno Sales Henriques; Tommaso Russo; Luis Bentes; Pedro Monteiro; Antonio Parisi; Ramiro Magno; Frederico Oliveira; et al. "An approach to map and quantify the fishing effort of polyvalent passive gear fishing fleets using geospatial data". ICES Journal of Marine Science (2023): https://doi.org/10.1093/icesjms/fsad092.
    10.1093/icesjms/fsad092
  4. Correia, Lizelle; Magno, Ramiro; Xavier, Joana M.; de Almeida, Bernardo P.; Duarte, Isabel; Esteves, Filipa; Ghezzo, Marinella; et al. "Allelic expression imbalance of PIK3CA mutations is frequent in breast cancer and prognostically significant". npj Breast Cancer 8 1 (2022): http://dx.doi.org/10.1038/s41523-022-00435-9.
    Acesso aberto • Publicado • 10.1038/s41523-022-00435-9
  5. Joana M. Xavier; Magno, Ramiro; Maia, Ana-Teresa. Autor correspondente: Maia, Ana-Teresa. "Mapping of cis-regulatory variants by differential allelic expression analysis identifies candidate risk variants and target genes of 27 breast cancer risk loci". medRxiv (2022): MEDRXIV/2022/271889.
  6. Magno, Ramiro; Duarte, Isabel; Maia, Ana-Teresa. "quincunx: an R package to query, download and wrangle PGS Catalog data". Bioinformatics 38 1 (2021): 294-296. http://dx.doi.org/10.1093/bioinformatics/btab522.
    Publicado • 10.1093/bioinformatics/btab522
  7. Ana Jacinta-Fernandes; Joana M. Xavier; Magno, Ramiro; Joel G. Lage; Ana-Teresa Maia. "Allele-specific miRNA-binding analysis identifies candidate target genes for breast cancer risk". npj Genomic Medicine 5 1 (2020): https://doi.org/10.1038/s41525-019-0112-9.
    Publicado • 10.1038/s41525-019-0112-9
  8. Magno, Ramiro; Maia, Ana-Teresa. "gwasrapidd: an R package to query, download and wrangle GWAS catalog data". Bioinformatics 36 2 (2019): 649-650. http://dx.doi.org/10.1093/bioinformatics/btz605.
    10.1093/bioinformatics/btz605
  9. Matias, A.T.; Jacinta-Fernandes, A.; Magno, Ramiro; Xavier, J.; Cabral, M.G.; Jacinto, A.; Maia, A.T.; Braga, S.. "Differential molecular signature in patients from African origin with triple-negative breast cancer". Annals of Oncology 29 (2018): viii95. http://dx.doi.org/10.1093/annonc/mdy272.290.
    10.1093/annonc/mdy272.290
  10. Pais de Azevedo, Tomás Augusto Barreiros ; Morgado, Ramiro; Duarte, Isabel; Isabel Palmeirim. "Recent advances in understanding vertebrate segmentation". F1000Research (2018): https://doi.org/10.12688/f1000research.12369.1.
    Acesso aberto • Publicado • 10.12688/f1000research.12369.1
  11. Pinto, José P; Machado, Rui S R; Magno, Ramiro; Oliveira, Daniel V; Machado, Susana; Andrade, Raquel P; Bragança, José; Duarte, Isabel; Futschik, Matthias E. "StemMapper: a curated gene expression database for stem cell lineage analysis". Nucleic Acids Research 46 D1 (2017): D788-D793. http://dx.doi.org/10.1093/nar/gkx921.
    10.1093/nar/gkx921
  12. Magno, Ramiro; Duarte, Isabel; Andrade, Raquel P.; Isabel Palmeirim. "rdml: A Mathematica package for parsing and importing Real-Time qPCR data". BMC Research Notes 10 1 (2017): http://dx.doi.org/10.1186/s13104-017-2533-9.
    10.1186/s13104-017-2533-9
  13. Magno, Ramiro; Grieneisen, Verônica A; Marée, Athanasius FM. "The biophysical nature of cells: potential cell behaviours revealed by analytical and computational studies of cell surface mechanics". BMC Biophysics 8 1 (2015): http://dx.doi.org/10.1186/s13628-015-0022-x.
    10.1186/s13628-015-0022-x
  14. Duarte, Isabel; Nabuurs, Sander B.; Magno, Ramiro; Huynen, Martijn. "Evolution and Diversification of the Organellar Release Factor Family". Molecular Biology and Evolution 29 11 (2012): 3497-3512. http://dx.doi.org/10.1093/molbev/mss157.
    10.1093/molbev/mss157
Poster em conferência
  1. Duarte, Isabel; Magno, Ramiro; Maia, Ana-Teresa. "Silent but Significant: Uncovering the Passenger Role of Transcriptionally Silenced Mutations in Breast Cancer Drivers". Trabalho apresentado em 6th ASPIC International Conference, 2024.
  2. Casanova, Miguel; Dany Mukesha; Mustafa E. Özer; Swann Ruyter; Seval Kul; Louis Chauvière; Stéphanie Boutillier; et al. "Neurodegene: A genetic panel for the prognosis and early-detection of multiple forms of neurodegenerative diseases". Trabalho apresentado em AD/PD™ 2024 International Conference on Alzheimer’s and Parkinson’s Diseases and related neurological disorders, 2024.
  3. Peres dos Santos, Rui; Rodríguez, Yasmina; Richard Sears; Magno, Ramiro; Castilho, Rita. "Tour-operators as Key tool to Improve Information on Data Deficient Cetacean Species". Trabalho apresentado em Our Oceans, Our Future, 2023.
  4. Rui Pedro Peres dos Santos; Rodríguez, Yasmina; Sears, Richard; Magno, Ramiro; Castilho, Rita. "Tour-operators as Key tool to Improve Information on Data Deficient Cetacean Species". Trabalho apresentado em Our Oceans, Our Future, 2023.
  5. Ghezzo, Marinella N; Magno, Ramiro; Xavier, Joana M; Maia, Ana-Teresa. "Redesigned case-control study using allelic expression as a quantitative phenotype identifies new risk loci for breast cancer". Trabalho apresentado em 5th ASPIC International Congress, 2022.
  6. Duarte, Isabel; Magno, Ramiro; Maia, Ana-Teresa. "Transcriptionally Silenced Mutations in Breast Cancer Driver Genes act as Functional Passengers". Trabalho apresentado em EMBL Cancer Genomics, 2021.
  7. Duarte, Isabel; Magno, Ramiro; Maia, Ana-Teresa. "Monoallelic Expression of Breast Cancer Driver Genes Reveals Functional Passenger Mutations". Trabalho apresentado em 25th Annual Meeting SPGH, 2021.
  8. Liber, Marta; Magno, Ramiro; Andrade, Raquel P.; Duarte, Isabel. "ClockOME: Searching for oscillatory genes in early vertebrate development". Trabalho apresentado em II International Meeting of the Portuguese Society of Genetics | IMPSG 2021, 2021.
  9. Duarte, Isabel; Magno, Ramiro; Maia, Ana-Teresa. "Monoallelic Expression of Breast Cancer Mutations Reveals Functionally Relevant Cis-Regulation". Trabalho apresentado em EACR Bioinformatics in Cancer, 2021.
  10. Duarte, ARB; Magno, Ramiro; Martel, Paulo; Ghezzo, Marinella; Xavier, Joana M; Maia, Ana-Teresa. "Exploring the role of alternative splicing in breast cancer risk". Trabalho apresentado em CANCER BIOLOGY: FROM BASIC TO TRANSLATIONAL RESEARCH, 2020.
  11. Martins-Jesus, Ana P.; Maia-Fernandes, Ana; Magno, Ramiro; Duarte, Isabel; Andrade, Raquel P.. "Temporal control in early chick embryo somite segmentation". Trabalho apresentado em European Developmental Biology Congress (EDBC Alicante, Spain), 2019.
  12. Xavier, Joana M; Magno, Ramiro; Rocha, Cátia L; Dunning, M; Russell, Roslin; Maia, Ana-Teresa. "Mapping cis-regulatory variants pinpoints target genes of breast cancer risk loci". Trabalho apresentado em EMBO | EMBL Symposium: Systems Genetics: From Genomes to Complex Traits., 2019.
  13. Ana Patrícia Martins-Jesus; Maia-Fernandes, Ana C.; Magno, Ramiro; Duarte, Isabel; Andrade, Raquel P.. "Somite formation in the early vertebrate embryo: temporal control and hairy1 oscillations". Trabalho apresentado em European Developmental Biology Congress (EDBC2019), 2019.
  14. Ana Patrícia Martins-Jesus; Maia-Fernandes, Ana; Magno, Ramiro; Duarte, Isabel; Andrade, Raquel P.. "Characterization of early somite formation in the chicken embryo". Trabalho apresentado em Development in Action (DiA) Meeting, Portuguese Society for Developmental Biology (SPBD), 2019.
  15. Esteves, Filipa; Magno, Ramiro; Xavier, Joana M; Maia, Ana-Teresa. "A comprehensive analysis of RNA-Seq data to identify risk variants for breast cancer using allelic expression". Trabalho apresentado em EMBL Conference: From Functional Genomics to Systems Biology, 2018.
  16. Esteves, Filipa; Magno, Ramiro; Xavier, Joana M; Maia, Ana-Teresa. "Identification of risk variants for breast cancer: a comprehensive analysis of RNA-Seq data". Trabalho apresentado em 3rd ASPIC International Congress, 2018.
  17. Jacinta-Fernandes, A; Xavier, Joana M; Magno, Ramiro; Jerónimo, Carmen; Maia, Ana-Teresa. "Revealing the role of allele- specific miRNA regulation in prostate cancer susceptibility". Trabalho apresentado em 3rd ASPIC International Congress., 2018.
  18. Xavier, Joana M; Magno, Ramiro; Almeida, Bernardo P.; Maia, Ana-Teresa. "Integrative genomic approach elucidates the risk mechanism for breast cancer associated 5q14.1 locus". Trabalho apresentado em 3rd ASPIC International Congress, 2018.
  19. Martins, Catarina; Xavier, Joana; Magno, Ramiro; Maia, Ana-Teresa. "Identifying novel genes associated with Breast Cancer susceptibility using Allelic Expression Ratios". Trabalho apresentado em 3rd ASPIC International Congress, 2018.
Pré-impressão
  1. Joana M. Xavier; Ramiro Magno; Roslin Russell; Bernardo P. de Almeida; Ana Jacinta-Fernandes; André Duarte; Mark Dunning; et al. "Mapping of cis-regulatory variants by differential allelic expression analysis identifies candidate causal variants and target genes of 41 breast cancer risk loci". 2022. https://doi.org/10.1101/2022.03.08.22271889.
    10.1101/2022.03.08.22271889
Recurso online
  1. Duarte, Isabel; Magno, Ramiro. ualg.dia.aberto | R Package | Bioinformatics interactive tutorial | Scientific outreach for high school students. 2022. https://github.com/instructr/ualg.dia.aberto.
  2. Duarte, Isabel; Magno, Ramiro. ualg.compbio | R Package | R programming interactive tutorials. 2022. https://github.com/instructr/ualg.compbio.
  3. Duarte, André; Magno, Ramiro; Paulo José Martel; Maia, Ana-Teresa. Autor correspondente: Maia, Ana-Teresa. Alternative splicing in breast cancer risk. 2020. https://zenodo.org/record/3776118.
    10.5281/ZENODO.3776118
  4. Duarte, Isabel; Magno, Ramiro. Piromyces Laterally Transferred Metabolism | R notebook. 2018. https://doi.org/10.6084/m9.figshare.7173173.v2.
    10.6084/m9.figshare.7173173
Resumo em conferência
  1. Xavier, Joana M; Magno, Ramiro; Russel, R; de Almeida, BP; Jacinta-Fernandes, Ana; Duarte, ARB; BARBOSA-MORAIS, NUNO; Maia, Ana-Teresa. "Mapping of cis-regulatory variants by differential allelic expression analysis identifies regulatory variants and target genes of 31 breast cancer risk loci". Trabalho apresentado em Bioinformatics in Cancer - Virtual Event: 18 - 19 May 2021, 2021.
    Submetido

Propriedade Intelectual

Pedido provisório de patente
  1. 2021. "Methods of analysis of polymorphisms associated with allelic expression of PIK3CA in cancer and uses thereof".
    Protegido

Outros

Conjunto de dados
  1. Duarte, Isabel; Magno, Ramiro. gga.mirnas.qpcr | RData package | Data from the qPCR validation of miRNAs from gga_mirnOME | 2021. https://github.com/iduarte/gga.mirnas.qpcr (Private Repository until publication)..
  2. Maia-Fernandes, Ana; Martins-Jesus, Ana; Pais de Azevedo, Tomás Augusto Barreiros ; Magno, Ramiro; Duarte, Isabel; Andrade, Raquel P.. Chick Embryo Segmented Region Length | Dataset | 2023. FigShare.
    https://doi.org/10.6084/m9.figshare.22341070.v3
Outra produção
  1. Preferential allelic expression of PIK3CA mutations is frequent in breast cancer and is prognostically significant. 2021. Lizelle Correia; Joana M. Xavier; Magno, Ramiro; Bernardo P. de Almeida; Filipa Esteves; Duarte, Isabel; Matthew Eldridge; et al. https://doi.org/10.1101/2021.03.05.434137.
    10.1101/2021.03.05.434137
  2. FrozenChicken: Promoting the meta-analysis of chicken microarray data. 2021. Isabel Duarte; Marta Liber; Magno, Ramiro; Raquel P. Andrade. https://doi.org/10.1101/2021.02.25.432894.
    10.1101/2021.02.25.432894
  3. Alternative splicing regulation by GWAS risk loci for breast cancer. 2019. Juliana Machado; Ramiro Magno; Joana M Xavier; Ana-Teresa Maia. https://doi.org/10.1101/766394.
    10.1101/766394
  4. Piromyces Laterally Transferred Metabolism. The purpose of this analysis is to find if the connectivity of metabolic genes that are predicted to be Lateral Transfers from Bacteria to Piromyces is significantly different from what could be expected from randomly choosing edges (which correspond to enzymes) from the whole metabolic map.. 2018. Duarte, Isabel; Magno, Ramiro. https://doi.org/10.6084/m9.figshare.7173173.v2.
    10.6084/m9.figshare.7173173.v2
  5. R for Absolute Beginners | Hands-on Tutorial. R programming introduction for intense 2 day workshop. 2018. Magno, Ramiro; Duarte, Isabel. https://www.researchgate.net/publication/331209857_R_for_Absolute_Beginners_-_Hands-on_R_Tutorial.
    DOI: 10.13140/RG.2.2.23615.36000
Software
  1. Magno, Ramiro; Duarte, Isabel. "Read Mouse Genome Informatics Reports". 0.1.0. Pattern Institute. R. 2024.
    10.32614/CRAN.package.mgi.report.reader
  2. Magno, Ramiro. "lieves: Real-Time PCR Data Sets by Lievens et al. (2012)". 0.0.1. Pattern Institute. R. 2024.
    https://doi.org/10.32614/CRAN.package.lievens
  3. Magno, Ramiro. "karlen: Real-Time PCR Data Sets by Karlen et al. (2007)". 0.0.2. Pattern Institute. R. 2024.
    https://doi.org/10.32614/CRAN.package.karlen
  4. Magno, Ramiro. "sisti: Real-Time PCR Data Sets by Sisti et al. (2010)". 0.0.1. Pattern Institute. R. 2024.
    https://doi.org/10.32614/CRAN.package.sisti
  5. Magno, Ramiro. "boggy: Real-Time PCR Data Sets by Boggy et al. (2010)". 0.0.1. Pattern Institute. R. 2024.
    https://doi.org/10.32614/CRAN.package.boggy
  6. Rammprasad Ganapathy; Adam Forys; Edgar Manukyan; Rosemary Li; Preetesh Parikh; Lisa Houterloot; Yogesh Gupta; Omar Garcia; Magno, Ramiro. "SDTM Data Transformation Engine". 0.0.0.9006. Clinical Data Interchange Standards Consortium. R. 2024.
  7. Magno, Ramiro. "CDISC SDTM Controlled Terminology". 0.0.1. Pattern Institute. R. 2024.
  8. Magno, Ramiro. "guescini: Real-Time PCR Data Sets by Guescini et al. (2008)". 0.1.0. Pattern Institute. R. 2024.
    https://doi.org/10.32614/CRAN.package.guescini
  9. Duarte, Isabel; Magno, Ramiro. "tdp43 | R package". Universidade do Algarve. GitHub | https://github.com/patterninstitute/tdp43 (Private Repository until publication). 2023.
  10. Magno, Ramiro. "Quarto format for Wiley's New Journal Design (NJD)". 0.1.0. Pattern Institute. R Quarto. 2023.
    10.5281/zenodo.8172098
  11. Magno, Ramiro; Monteiro, Pedro; Bentes, Luis. "eunis.habitats | An R data package that provides the EUNIS Habitat Classification in tidy format.". 0.1.0. Pattern Institute. R. 2023.
    https://doi.org/10.32614/CRAN.package.eunis.habitats
  12. Magno, Ramiro. "rutledge: R Data Package: qPCR data set by Rutledge et al. (2004)". 0.1.0. Pattern Institute. 2023.
    https://doi.org/10.32614/CRAN.package.rutledge
  13. Magno, Ramiro. "batsch: R Data Package: Real-Time PCR Data Sets by Batsch et al. (2008)". 0.1.0. Pattern Institute. 2023.
    https://doi.org/10.32614/CRAN.package.batsch
  14. Magno, Ramiro. "ruijter: R Data Package: Technical Data Sets by Ruijter et al. (2013)". 0.1.2. Pattern Institute. 2023.
    https://doi.org/10.32614/CRAN.package.ruijter
  15. Magno, Ramiro; Gonçalo Magno; Hirotada Okawa. "w4: W4 Method for Nonlinear Root Finding". 0.1.0. Pattern Institute. R. 2023.
  16. Magno, Ramiro. "fluents: Phase Plane Analysis of Low-Dimensional Ordinary Differential Equation Models". 0.1.0. Pattern Institute. R. 2023.
  17. Magno, Ramiro. "vermeulen: R Data Package: Biomarker Data Set by Vermeulen et al. (2009)". 0.1.1. Pattern Institute. 2022.
    https://doi.org/10.32614/CRAN.package.vermeulen
  18. Magno, Ramiro; Duarte, Isabel; Maia, Ana-Teresa. "quincunx: an R package to query, download and wrangle PGS Catalog data". 0.1.5. Centro de Investigação em Tecnologias e Serviços de Saúde. 2022.
    10.1101/2021.02.19.431997
  19. Magno, Ramiro; Duarte, Isabel; Maia, Ana-Teresa. "agvgd: An R Implementation of the Align-GVGD Method". 0.1.2. Pattern Institute. R. 2022.
    https://doi.org/10.32614/CRAN.package.agvgd
  20. Magno, Ramiro; Maia, Ana-Teresa; Jacob Munro. "hgnc: Download and Import the HUGO Gene Nomenclature Committee (HGNC) Data Set into R". 0.1.5. Pattern Institute. R. 2022.
    https://doi.org/10.32614/CRAN.package.hgnc
  21. Magno, Ramiro; Duarte, Isabel; Maia, Ana-Teresa. "protean: Sequence Profiles of OncoKB Genes". 0.1.2. Pattern Institute. R. 2022.
  22. Magno, Ramiro. "Import WIG Data into R in Long Format". 0.1.0. Pattern Institute. 2021.
    https://doi.org/10.32614/CRAN.package.wig
  23. Magno, Ramiro; Duarte, Isabel; Maia, Ana-Teresa. "grantham: calculate the Grantham Distance". 0.1.1. Pattern Institute. R. 2021.
    https://doi.org/10.32614/CRAN.package.grantham
  24. Magno, Ramiro; Maia, Ana-Teresa. "gwasrapidd: an R package to query, download and wrangle GWAS Catalog data". 0.99.17. Pattern Institute. R. 2019.
  25. Magno, Ramiro; Duarte, Isabel; Maia, Ana-Teresa. "ensemblr: R Client for the Ensembl REST API". 0.1.0. Pattern Institute. R. 2019.
Atividades

Apresentação oral de trabalho

Título da apresentação Nome do evento
Anfitrião (Local do evento)
2011/10/12 Concurrent sigmoidal curve fitting for reliable RT-qPCR absolute quantification 2011 Annual Science Meeting
John Innes Centre and Sainsbury Laboratory (Norwich, Reino Unido)

Organização de evento

Nome do evento
Tipo de evento (Tipo de participação) 		Instituição / Organização
2023/10/31 - 2023/11/03 R-Mind: Unlocking the Potential of R Data Analysis for Biomolecular Research | 3-days international workshop | ESN-ISN Neurochemistry School 2023 (2023/10/31 - 2023/11/03)
Oficina (workshop) (Membro da Comissão Organizadora)
 Universidade do Algarve, Portugal
2023/04/20 - 2023/04/25 ENCODS 2023 Workshop | Publication ready graphs using R. (2023/05/02 - 2023/05/02)
Oficina (workshop) (Membro da Comissão Organizadora)
 Universidade do Algarve Algarve Biomedical Center Research Institute, Portugal
2022/10/26 - 2022/10/28 Tidy data and visualisation with R. | In research, a significant amount of effort is spent cleaning data to get it ready for visualisation and analysis. This course will teach you how to convert your messy dataset into tidy data using R for easy data visual exploration and analysis. URL: https://www.ccmar.ualg.pt/advanced-tech-training/tidy-data-visualisation-r. (2022/10/26 - 2022/10/28)
Oficina (workshop) (Membro da Comissão Científica)
 Centro de Ciências do Mar, Portugal
2019/05/27 - 2019/05/28 Workshop | R for Absolute Beginners, 7th edition (2019/05/27 - 2019/05/28)
Oficina (workshop) (Coorganizador)
 Centro de Ciências do Mar, Portugal
2018/06/04 - 2018/06/05 Workshop | R for Absolute Beginners, 6th edition (2018/06/04 - 2018/06/05)
Oficina (workshop) (Coorganizador)
 Centro de Ciências do Mar, Portugal
2017/06/05 - 2017/06/06 Workshop | R for Absolute Beginners, 4th edition (2017/06/05 - 2017/06/06)
Oficina (workshop) (Coorganizador)
 Centro de Ciências do Mar, Portugal
2017/05/29 - 2017/05/30 Workshop | R for Absolute Beginners, 3rd edition (2017/05/29 - 2017/05/30)
Oficina (workshop) (Coorganizador)
 Centro de Ciências do Mar, Portugal

Participação em evento

Descrição da atividade
Tipo de evento 		Nome do evento
Instituição / Organização
2023/10/18 - 2023/10/18 Hands-on workshop on how to perform machine learning using the R package `{tidymodels}` and friends.
Oficina (workshop)
 Introduction to Machine Learning with {tidymodels} / R in Pharma
R Consortium, Estados Unidos
2023/10/18 - 2023/10/18 Hands-on workshop on how to perform clinical trial design and simulations using the R package `{targets}` and friends.
Oficina (workshop)
 Leveraging {targets} and {crew} to simulate clinical trials / R in Pharma 2023
R Consortium, Estados Unidos
2023/09/11 - 2023/09/15 Open Research Hybrid Summer School 2023. The LMU Open Science Center organises this hybrid open research summer school to allow early-career researchers to gain more trust in the research that they do, and make it as credible as it can be in the eyes of their peers, the public, and funding agencies.
Oficina (workshop)
 LMU Open Science Center Summer School 2023
Ludwig-Maximilians-Universität München, Alemanha
2023/07/20 - 2023/07/20 Webinar about algorithms and their use in driving metadata-driven automation
Seminário
 Introduction to Algorithms - Introduction to Algorithms and their use in driving metadata-driven automation
Clinical Data Interchange Standards Consortium, Estados Unidos
2023/07/13 - 2023/07/13 Webinar about Conceptual & Operational Standards Metadata Services (COSMoS).
Seminário
 CDISC Biomedical Concepts
Clinical Data Interchange Standards Consortium, Estados Unidos
2023/07/11 - 2023/07/11 Introduction to the CDISC Library Data Standards Browser (DSB) and CDISC Library API portal (API portal).
Seminário
 CDISC Library Training
Clinical Data Interchange Standards Consortium, Estados Unidos
2023/07/05 - 2023/07/07 Ciência 2023 | Portuguese Science Summit. Science and ocean beyond the horizon.
Conferência
 Ciência 2023
Universidade de Aveiro, Portugal
2023/06/27 - 2023/06/27 OAK Garden is part of the "next-generation" solution for Roche's data and analytics platforms to move towards increased automation. The OAK Garden will be used by the Data Science teams to produce SDTM.
Seminário
 OAK-SDTM Automation Project Kick-Off
Clinical Data Interchange Standards Consortium, Estados Unidos
2021/02/26 - 2021/02/26 hSNS Workshop 2021 | Portuguese public hospital performance assessment using a multi-criteria decision analysis framework. A multi-perspective look at the healthcare sector. OR innovation applied to healthcare.
Oficina (workshop)
 hSNS Workshop 2021
Universidade de Lisboa Instituto Superior Técnico, Portugal
2021/02/03 - 2021/02/05 Ensembl REST API Workshop | 3 day course taught by the EMBL-EBI training team
Oficina (workshop)
 Ensembl REST API Workshop
European Bioinformatics Institute, Reino Unido
2021/01/26 - 2021/01/28 Ensembl Browser Workshop | 3 day course taught by the EMBL-EBI training team
Oficina (workshop)
 Ensembl Browser Workshop
European Bioinformatics Institute, Reino Unido

Consultoria / Parecer

Descrição da atividade Instituição / Organização
2024/05 - Atual R package development in the context of https://github.com/pharmaR repositories. Pattern Institute, Portugal
2023/09 - Atual Bioinformatics Consulting Pattern Institute, Portugal
2023/04/18 - Atual Designing, developing, testing, and maintaining the R packages: {mint}, {oak}, and {raw.synthetic.data}, from the CDISC OAK-SDTM Automation project. Clinical Data Interchange Standards Consortium, Estados Unidos

Membro de associação

Nome da associação Tipo de participação
2023/05 - Atual Pattern Institute Director

Revisão ad hoc de artigos em revista

Nome da revista (ISSN) Editora
2023/07 - Atual Frontiers in Cell and Developmental Biology (2296-634X) Lausanne: Frontiers Media S.A.
Distinções

Prémio

2020 Academic Merit Scholarship Award
Universidade do Algarve Faculdade de Economia, Portugal