???global.info.a_carregar???
RICARDO JORGE FONSECA TAVARES GODINHO PAIS. Completed the Doutoramento in Systems Biology in 2018/12/14 by Universidade Nova de Lisboa, Mestrado in Medical Biochemistry in 2011/07/28 by Universidade de Lisboa Faculdade de Ciências and Licenciatura in Bioquímica in 2008/09/18 by Universidade de Lisboa Faculdade de Ciências. Is Researcher in Egas Moniz Cooperativa de Ensino Superior CRL. Published 11 articles in journals. Has 2 section(s) of books. Participates and/or participated as PhD Student Fellow in 1 project(s), Research Fellow in 1 project(s) and Researcher in 1 project(s). Works in the area(s) of Exact Sciences with emphasis on Computer and Information Sciences with emphasis on Bioinformatics and Natural sciences with emphasis on Biological Sciences with emphasis on Biochemistry. In his curriculum Ciência Vitae the most frequent terms in the context of scientific, technological and artistic-cultural output are: Data analysis ; Machine learning; Pattern recognition; Predictive Modelling; Biomarker detection ; Proteomics; Transcriptomics; Mathematical modelling; Mass spectrometry ; Simulation of biochemical systems; Oxidative Stress; Cancer biology; UV-Vis Spectrometry; Logical modelling; EMT; Metastasis; .
Read full resume ↓
Identification

Personal identification

Full name
RICARDO JORGE FONSECA TAVARES GODINHO PAIS

Citation names

  • Pais, Ricardo J.
  • Ricardo Jorge Pais
  • R. Pais

Author identifiers

Ciência ID
0B19-5971-FCE5
ORCID iD
0000-0001-5489-8790

Email addresses

  • rjpais@bioenhancersystems.com (Professional)

Websites

Knowledge fields

  • Exact Sciences - Computer and Information Sciences - Bioinformatics
  • Natural sciences - Biological Sciences - Biochemistry

Languages

Language Speaking Reading Writing Listening Peer-review
Portuguese (Mother tongue)
English Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2) Advanced (C1)
Education
Degree Classification
2019/10/01 - 2019/10/23
Concluded
 TensorFlow: Machine Learning & Deep Learning with Python (Outros)
Udemy Inc, United States
2013/01/01 - 2018/12/14
Concluded
 Systems Biology (Doutoramento)
Major in Biology
Universidade Nova de Lisboa, Portugal
"How cells initiate Epithelial-to-Mesenchymal Transition? A computational modelling of cellular and supra-cellular networks to unravel the control of EMT" (THESIS/DISSERTATION)
 unanimously approved
2018/05/06 - 2018/06/01
Concluded
 Data Science A/Z (Outros)
Udemy Inc, United States
2018/03/05 - 2018/03/09
Concluded
 Advanced Biostatistics for Bioinformatics using R (Outros)
Gulbenkian Training Program in Bioinformatics , Portugal
2017/10/06 - 2017/10/10
Concluded
 Analysis of Differential Expression with RNAseq (Outros)
Gulbenkian Training Program in Bioinformatics , Portugal
2016/05/05 - 2016/05/10
Concluded
 Proteomics Data Analysis (Outros)
Gulbenkian Training Program in Bioinformatics , Portugal
2015/04/19 - 2015/04/24
Concluded
 Bioinformatics using Python for Biomedical Researchers (Outros)
Gulbenkian Training Program in Bioinformatics , Portugal
2010/09/01 - 2011/07/28
Concluded
 Medical Biochemistry (Mestrado)
Major in Biochemistry
Universidade de Lisboa Faculdade de Ciências, Portugal
"Biochemical systems analysis of the reactive oxygen species: A study on the origin of oxidative stress in evolution" (THESIS/DISSERTATION)
 17
2003/09/01 - 2008/09/18
Concluded
 Bioquímica (Licenciatura)
Universidade de Lisboa Faculdade de Ciências, Portugal
"Cloning and overexpression 3Cys and 4 Cys iron and copper substituted rubredoxins" (THESIS/DISSERTATION)
 14
Affiliation

Science

Category
Host institution 		Employer
2020/02/01 - Current Researcher (Research) Egas Moniz Cooperativa de Ensino Superior CRL, Portugal
2013/01/01 - 2018/12/01 Researcher (Research) Instituto Gulbenkian de Ciência, Portugal
2011/05/01 - 2013/01/01 Researcher (Research) Universidade de Coimbra Centro de Neurociências e Biologia Celular, Portugal
2009/02/01 - 2011/03/01 Researcher (Research) Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal
Universidade de Lisboa Faculdade de Ciências, Portugal

Others

Category
Host institution 		Employer
2018/01/01 - 2020/02/01 Data Scientist & Bioinformatician MAP Sciences Ltd, United Kingdom
Projects

Grant

Designation Funders
2013/01/01 - 2017/09/30 How cells initiate Epithelial-to-Mesenchymal Transition?A computational modelling of cellular and supra-cellular networks to unravel the control of EMT
SFRH/BD/52175/2013
PhD Student Fellow
Instituto Gulbenkian de Ciência, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded

Contract

Designation Funders
2018/04/01 - 2020/02/01 LARGE TRIAL TO DEVELOP A LOW COST, MASS MARKET, NON-INVASIVE, URINARY, PRENATAL DIAGNOSTICS TEST FOR THE CHINESE MARKET
11223-2
Researcher
MAP Sciences Ltd, United Kingdom
 Innovate UK
Concluded
2009/02 - 2011/03/31 RECONSTRUCTION AND SYSTEMS ANALYSIS OF THE REACTION NETWORKS OF REACTIVE OXYGEN, NITROGEN AND SULFUR SPECIES IN REPRESENTATIVE PHYSIOLOGICAL SYSTEMS
PTDC/QUI/70523/2006
Research Fellow
Universidade de Coimbra Centro de Neurociências e Biologia Celular, Portugal

Universidade de Lisboa Faculdade de Ciências, Portugal
Fundação para a Ciência e a Tecnologia
Concluded
Outputs

Publications

Book chapter
  1. Pais, Ricardo J.; Zmuidinaite, Raminta; Iles, Ray K.; Butler, Stephen A.. "hCGßcf as a quality control marker for urine mass spectrometry analysis". In 100 Years of Human Chorionic Gonadotropin, 139-147. London, United Kingdom: Elsevier, 2020.
    10.1016/b978-0-12-820050-6.00012-6
  2. Zmuidinaite, Raminta; Iles, Ray K.; Pais, Ricardo J.; Butler, Stephen A.. "Detection and quantification of hCG and its isoforms with MALDI-ToF mass spectrometry". In 100 Years of Human Chorionic Gonadotropin, 75-85. Elsevier, 2020.
    10.1016/b978-0-12-820050-6.00008-4
Journal article
  1. Ricardo J. Pais. "Predictive Modelling in Clinical Bioinformatics: Key Concepts for Startups". BioTech (2022): https://doi.org/10.3390/biotech11030035.
    10.3390/biotech11030035
  2. Ricardo J. Pais; Raminta Zmuidinaite; Jonathan C. Lacey; Christian S. Jardine; Ray K. Iles. "A Rapid and Affordable Screening Tool for Early-Stage Ovarian Cancer Detection Based on MALDI-ToF MS of Blood Serum". Applied Sciences 12 6 (2022): 3030-3030. https://doi.org/10.3390/app12063030.
    10.3390/app12063030
  3. Pais, Ricardo J.. "Simulation of multiple microenvironments shows a pivot role of RPTPs on the control of Epithelial-to-Mesenchymal Transition". Biosystems 198 (2020): 104268-104268. http://dx.doi.org/10.1016/j.biosystems.2020.104268.
    10.1016/j.biosystems.2020.104268
  4. Ricardo J. Pais; Ray K. Iles; Raminta Zmuidinaite. "MALDI-ToF Mass spectra phenomic analysis for human disease diagnosis enabled by cutting-edge data processing pipelines and bioinformatic tools". Current Medicinal Chemistry (2020): https://doi.org/10.2174/0929867327666201027154257.
    10.2174/0929867327666201027154257
  5. Ricardo J. Pais; Fady Sharara; Raminta Zmuidinaite; Stephen Butler; Sholeh Keshavarz; Ray Iles. "Bioinformatic identification of euploid and aneuploid embryo secretome signatures in IVF culture media based on MALDI-ToF mass spectrometry". Journal of Assisted Reproduction and Genetics (2020): https://doi.org/10.1007/s10815-020-01890-8.
    10.1007/s10815-020-01890-8
  6. Ricardo J. Pais; Nuno Taveira. "Predicting the evolution and control of the COVID-19 pandemic in Portugal [version 2; peer review: 2 approved]". (2020): https://f1000research.com/articles/9-283/v2.
    10.12688/f1000research.23401.2
  7. Ricardo J. Pais; Nuno Taveira. "Predicting the evolution and control of the COVID-19 pandemic in Portugal [version 1; peer review: awaiting peer review]". (2020): https://f1000research.com/articles/9-283/v1.
    10.12688/f1000research.23401.1
  8. Pais, Ricardo. "The importance of gestational age in first trimester, maternal urine MALDI-Tof MS screening tests for Down Syndrome". Annals of Proteomics and Bioinformatics (2019): http://dx.doi.org/10.29328/journal.apb.1001008.
    Published • 10.29328/journal.apb.1001008
  9. Pais, Ricardo. "Rapid, Affordable and Efficient Screening of Multiple Blood Abnormalities Made Possible Using an Automated Tool for MALDI-ToF Spectrometry Analysis". Applied Sciences (2019): http://dx.doi.org/10.3390/app9234999.
    10.3390/app9234999
  10. Fady I. Sharara; Stephen A. Butler; Raminta Zmuidinaite; Pais, Ricardo J.; Sholeh Keshavarz; Ray Kurse Iles. "BESST, a Non-Invasive Computational Tool for Embryo Selection Using Mass Spectral Profiling of Embryo Culture Media". Reproductive Health 5 1 (2019): 59-60.
    Published
  11. Pais, Ricardo. "An automated workflow for MALDI-ToF mass spectra pattern identification on large data sets: An application to detect aneuploidies from pregnancy urine". Informatics in Medicine Unlocked (2019): http://dx.doi.org/10.1016/j.imu.2019.100194.
    10.1016/j.imu.2019.100194
  12. Thapper, A.; Rizzi, A.C.; Brondino, C.D.; Wedd, A.G.; Pais, R.J.; Maiti, B.K.; Moura, I.; Pauleta, S.R.; Moura, J.J.G.. "Copper-substituted forms of the wild type and C42A variant of rubredoxin". Journal of Inorganic Biochemistry 127 (2013): 232-237. http://www.scopus.com/inward/record.url?eid=2-s2.0-84884413851&partnerID=MN8TOARS.
    10.1016/j.jinorgbio.2013.06.003
  13. Pais, Ricardo J.; António E. Ferreira; Armindo Salvador; Fernando Antunes. "Kinetic Modeling of Reactive Oxygen Species in the Ancient Ocean: the Evolutionary Origin of Oxidative Stress". Free Radical Biology and Medicine 51 (2011): S143-S144.
    Published
Magazine article
  1. Pais, Ricardo J.. "Bioinformatics and predictive modelling as tools for clinical diagnostics", Omnia-Health DIGITAL PATHOLOGY, 2020, https://insights.omnia-health.com/laboratory/bioinformatics-and-predictive-modelling-tools-clinical-diagnostics.

Other

Other output
  1. Predicting the evolution and control of COVID-19 pandemic in Portugal.. 2020. Ricardo Jorge Pais; Nuno Taveira. https://doi.org/10.1101/2020.03.28.20046250.
    10.1101/2020.03.28.20046250
  2. Simulation of multiple microenvironments shows a putative role of RPTPs on the control of Epithelial-to-Mesenchymal Transition. 2019. Ricardo Jorge Pais. https://doi.org/10.1101/609263.
    10.1101/609263
Activities

Oral presentation

Presentation title Event name
Host (Event location)
2020/10/20 Application of AI & big data to the medical lab, how to do and is it time? MedLab Asia
Informa Markets (Taiwan)
2020/02/05 Advancing care through personalised diagnostics using bioinformatics and predictive modelling tools. Laboratory Inovation
Medlab , UK (Dubai)
2020/02/05 The bioinformatics and automated processing of phenomic data in personalised diagnostics - A working example of mass spectral pattern recognition Molecular Diagnostics & Genetics
Medlab (Dubai, United Arab Emirates)
2019/09/20 Blastocyst and embryo screening selection tool (BESST): an ultrafast non-invasive embryo selection test for use immediately prior to embryo transfer ESHRE 2019
(Viena)

Consulting

Activity description Institution / Organization
2019/09/16 - 2020/02/24 Consulting activities in the field of Informatics, Data science and Python programming. Growin Insights SA, Portugal
2016/07/01 - 2018/05/01 Data analysis and quality assessment of multiple cosmetics products from a Portuguese company. Scientific advisory regarding production protocols and their optimal design. Da Minha Casinha Cosmetica Natural Biologica, Portugal

Course / Discipline taught

Academic session Degree Subject (Type) Institution / Organization
2019/11/16 - 2019/12/16 Bioinformatica Análises Clínicas (Mestrado integrado) Egas Moniz Cooperativa de Ensino Superior CRL, Portugal

Mentoring / Tutoring

Topic Student name
2019/03/01 - 2019/09/01 Hb Analyzer Software development in Python Christian Jardine