My goal is to consolidate myself as a leading expert in my core research area (the interface between Computer Sciences and Structural Biology) merging chemistry, bioinformatics, biophysics and data-mining to develop and implement novel approaches and address emerging biological questions that cannot be tackled with traditional approaches alone.
Machine-learning; deep-learning; statistics; data-science; computer science; genomics; cancer; mutagenesis; drug design and discovery; computational chemistry; structural biology; bioinformatics; biophysics; molecular modeling; GPCR/G-protein interactions; GPCR/Arrestin interactions; protein-protein interactions; protein-ligand interactions; protein-DNA interactions; molecular docking; computational mutagenesis; structure prediction; virtual-screening; homology modeling; molecular dynamic simulations; binding free energy calculations; MM-PBSA; TI; protein-protein interfacial evolution.
45 SCI-indexed publications: 34 original research papers, 7 reviews, 3 book chapters; Other publications include 7 MOL2NET conference proceedings’ papers, and 3 additional book chapters. Altogether, from the 55 already available publications on total (SCI-indexed, other books chapters, conference proceedings):
- 19 publications as first author (incl. 4 book chapters, one of which SCI-Indexed)
- 20 publications as senior (last) author (of which, 2 as sole author and 7 as conference proceedings)
- 83% of last author papers in Q1 journals (68% overall in Q1 journals).
- 75% publications without the PhD-thesis supervisors (including chapters and conference proceedings)
- h-index: 17 (WS1) – 18 (GS1)
- i-10 index: 20 (WS1) – 25 (GS1)
- citations: 1341 (WS1) – 1925 (GS1)
- 2 featuring IF publications = 16.1 and 9.8.
1st publication year: 2003.
1st publication as senior author in 2013.
2008: PhD in Chemistry, Science Faculty, Oporto University, Portugal.
2003: Grad. Diploma in Biochemistry, Science Faculty, Oporto University, Portugal.
PENDING ACADEMIC QUALIFICATIONS
2020 [expected]: PhD in Computer Science (currently enrolled in the 1stcurricular year), Oporto University, Portugal.
2018 [expected]: Master in Mathematical Engineering (102 out of 120 ECTs concluded), Oporto University, Portugal.
2015-present: Group Leader (Assistant Professor level) of the Data Driven Molecular Design Lab at Center for Neuroscience and Cell Biology (CNC), University of Coimbra, Portugal; position awarded under the highly competitive international programme FCT1 – Investigator for outstanding researchers.
2016-2018: Sabbatical leave at Utrecht University, Netherlands, in A. Bonvin’s Lab, under a H2020 Marie Skłodowska-Curie Fellowship (vide infra).
2009-2014: Associate Researcher (Assistant Professor level), Science Faculty, Oporto University, Portugal; position awarded under FCT1’s international programme “Investigator Ciência 2008” for attracting excellent researchers to Portugal.
2007-2009: Postdoctoral Researcher at Weill Cornell Medical College, NYC, USA; Supervisor: Harel Weinstein (USA).
2016-2018: H2020 – Marie Sklodowska-Curie Individual Fellowship(MSCA-IF(EF)). [http://cordis.europa.eu/project/rcn/195851_en.html].
2015: FCT1 Individual Postdoctoral Fellowship; Declined in favour of the FCT1 – Investigator position.
2003-2007: FCT1 Individual PhD Fellowship; To support the PhD in Chemistry at Oporto University.
PEER-REVIEWED RESEARCH GRANTS
2018-2021: “Cancer Research Advancement through Deep Learning”; Agency: FCT1; Role: Principal Investigator.
2015-2020: “Molecular mechanisms in signaling selectivity of GPCRs”; Agency: FCT1 – IF/00578/2014; Role: Principal Investigator.
2016-2020: “Early Detection, neuromodelation and advanced therapies to brain disorders”; Agency: Centro2020, Institutional driven project; Role: Task Leader.
2013-2015: “In silico design of semi i-synthetic functional mimics of glutathione peroxidase: from the rational choice of the organochalcogen to its bioincorporation in protein scaffols”; Agency: Progetti de Ricerca di Ateneo (CPDA127392/12); University of Padova; Role: Team member.
2012-2015: “Re(I)/99mTc(I) complexes containing L-arginine derivatives as substrates or inhibitors of Nitric Oxide Synthase: A structure-activity study”; Agency: FCT1; Role: Team member.
PEER-REVIEWED RESEARCH ALLOCATIONS
2018-2019: “Conformational dynamics, assembly and inhibition of GPCR oligomers” – 2017174234; Budget: 20.000.000 CPU hours; Agency: PRACE; Role: Team-member.
2017-2018: “Structural and dynamic understanding of the ghrelin receptor function on memory and learning: a computational perspective” – NWO16425; Budget: 4.000.000 CPU hours; Agency: Surfsara, Netherlands; Role: Co-Principal investigator.
2015-2017: “Target-specific delivery of radioactivity to cancer cells by virus-like particles”; Budget: 700.000 CPU hours; Agency: Icahn School of Medicine at Mount Sinai; Role: Task leader.
2015-2016: “Biased agonism in the dopamine receptor” – ISCRA A BiaDop HP10CIQNJW; Budget: 200.000 CPU hours; Agency: CINECA, Italy; Role: Team member.
2014-2015: “In silico design of enzymatic anti-oxidant systems 2”; Budget: 90.000 CPU hours; Agency: CINECA- IDEAS 2, Italy; Role: Team member.
2013-2014: “In silico design of semi i-synthetic functional mimics of glutathione peroxidase: from the rational choice of the organochalcogen to its bioincorporation in protein scaffols”; Budget: 110.000 CPU hours; Agency: CINECA – IDEAS, Italy; Role: Team member.
2008: Luso-American Foundation Network Grant (FLAD) – To support research at an American University.
2003: Eng. António de Almeida’s Prize – For the top-ranking student in the Biochemistry Degree.
1998: Excellence Prize – For the top-ranking student in the Secondary School.
2014: Committee for Professional Opportunities for Women Travel Award – Biophysical Society Meeting, San Francisco, USA.
2006: MGMS Registration Fellowship – Quantum Pharmacology – 30 years on, Oxford, UK.
2006: NBCR Summer Institute Travel and Registration Fellowship – NBCR Summer Institute: Cyberinfrastructure & Multiscale Modeling Approaches”, La Jolla, California.
2006: Marie Curie Travel and Registration Fellowship – CCP5 and Marie Curie Actions: Methods in Molecular Simulation Summer School 2006”, University of Cardiff, Wales.
2006: Italian Physical Society Scholarship – International School of Physics “E. Fermi”, “Protein Folding and Drug Design”, Varenna, Italy.
2006: EMBO Fellowship – “Biomolecular simulation: an EMBO course”, Paris, France.
Ongoing: 2 Post-doctoral Fellows, 1 PhD student, 1 Research Fellow, 1 Master Students, 1 Bachelor Student at Faculty of Science & Technology, University of Coimbra.
Previous: 2 Master students and 3 Erasmus exchange Master students at Faculty of Science & Technology, University of Coimbra; 3 Master and 4 Bachelor students and participated in the task supervision of 2 PhD students at Faculty of Science, University of Porto.
2017: Head Lecturer, Computational Biochemistry course of the BEB PhD programme at CNC, Portugal.
2018: Professor, Computational Analysis of Proteomes and Genomes Class of Biostatistics and Bioinformatics applied to Health Master Program, Polytechnic Institute of Porto, Portugal.
2015-present: Invited lecturer, Cell Regulation Class of the Cellular Molecular Biology/Neurasmus Joint Master Program, University of Coimbra, Portugal.
2010-2013: Invited lecturer, Biochemistry Class of the Biotechnology Master Degree, Science Faculty and Polytechnic Institute of Porto, Portugal.
2010-2011: Professor, Bioinformatics Course, Oporto University, Portugal.
2010: Lecturer at the European Master in Theoretical Chemistry and Computational Modelling, Oporto University, Portugal.
2010-2011: Professor, Computational Biological Chemistry Course, Oporto University, Portugal.
2018: Lecturer at Infection workshop, CNC, Coimbra, Portugal.
2015-2017: Lecturer at the annual Summer School in Computational Biology, Coimbra, Portugal.
2016: Lecturer at R: Hands-ON Workshop, CNC, Coimbra, Portugal.
2006-2014: Various teaching activities to promote computational chemistry for Secondary School.
SCIENTIFIC COMMITTEE/ORGANIZATION OF SCIENTIFIC MEETINGS
2013-present: Organizing committed of EJIBCE – “Encounter of Young investigators in Computational and Structural Biology”, Portugal (organization of 4 out the 5 editions).
2016-present: Scientific Committee of MOL2NET, International Conference of Multidisciplinary Sciences.
2017-present: Guest Editor, Current Topics of Medicinal Chemistry issue: “Modulation of Protein-protein Interactions for Development of Effective Therapeutics – from a Joint Perspective of Experiment and Computation”.
WS = Web-of-Science; GS = Google Scholar; FCT = Portuguese Science Foundation