Identification
Personal identification
- Full name
- Isabel Rocha
Citation names
- Rocha, Isabel
- Rocha, I.
Author identifiers
- Ciência ID
- 7711-3969-7806
- ORCID iD
- 0000-0001-9494-3410
- Google Scholar ID
- https://scholar.google.com/citations?user=ZgGREPcAAAAJ&hl=en
- Researcher Id
- A-4279-2013
- Scopus Author Id
- 35238052200
Websites
- https://www.itqb.unl.pt/research/technology/systems-and-synthetic-biology (Académico)
- https://www.unl.pt/en/people/isabel-rocha (Académico)
Knowledge fields
- Ciências da Engenharia e Tecnologias - Biotecnologia Industrial
- Ciências da Engenharia e Tecnologias - Biotecnologia Industrial - Biocombustíveis
- Ciências da Engenharia e Tecnologias - Biotecnologia Industrial - Fermentação
- Ciências da Engenharia e Tecnologias - Biotecnologia Industrial - Tecnologias de BioProcessamento
- Ciências Naturais - Ciências Biológicas - Biologia Molecular
- Ciências Exatas - Ciências da Computação e da Informação - Bioinformática
- Ciências da Engenharia e Tecnologias - Outras Ciências da Engenharia e Tecnologias
Languages
Language | Speaking | Reading | Writing | Listening | Peer-review |
---|---|---|---|---|---|
Inglês | Utilizador proficiente (C2) | Utilizador proficiente (C2) | Utilizador proficiente (C2) | Utilizador proficiente (C2) | Utilizador proficiente (C2) |
Português (Mother tongue) | |||||
Espanhol; Castelhano | Utilizador proficiente (C1) | Utilizador proficiente (C1) | Utilizador independente (B2) | Utilizador proficiente (C2) | Utilizador proficiente (C1) |
Francês | Utilizador independente (B1) | Utilizador independente (B2) | Utilizador independente (B1) | Utilizador independente (B1) | Utilizador independente (B1) |
Education
Degree | Classification | |
---|---|---|
2003
Concluído
|
Doutoramento em Engenharia Química e Biológica (Doutoramento)
Universidade do Minho Escola de Engenharia, Portugal
"Model-based strategies for computer-aided operation of a recombinant E. coli fermentation" (THESIS/DISSERTATION)
|
Não Aplicável |
1997
Concluído
|
Engenharia Biológica (Licenciatura)
Universidade do Minho Escola de Engenharia, Portugal
"N/A" (THESIS/DISSERTATION)
|
17 valores |
Affiliation
Ciência
Category Host institution |
Employer | |
---|---|---|
2019/03/01 - Current | Investigador principal (carreira) (Investigação) | Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal |
Universidade Nova de Lisboa, Portugal | ||
2003/12/01 - 2004/07/31 | Pós-doutorado (Investigação) | Danmarks Tekniske Universitet, Dinamarca |
Docência no Ensino Superior
Category Host institution |
Employer | |
---|---|---|
2007/09/01 - 2017/09/14 | Professor Auxiliar (Docente Universitário) | Universidade do Minho Departamento de Engenharia Biológica, Portugal |
2004/11/01 - 2007/08/31 | Assistente (Docente Universitário) | Universidade do Minho Departamento de Engenharia Biológica, Portugal |
2002/09/01 - 2003/08/31 | Assistente (Docente Universitário) | Universidade do Minho, Portugal |
Cargos e Funções
Category Host institution |
Employer | |
---|---|---|
2021/10/20 - Current | Vice-Reitor | Universidade Nova de Lisboa, Portugal |
2019/06/01 - Current | Vice-Presidente | BIOREF Colab, Portugal |
2018/11/15 - Current | Member of the Board | Madan Parque, Portugal |
2019/11/15 - 2022/12/31 | Vice-Presidente | ELIXIR - Distributed Infrastructure for Biological Data, Reino Unido |
2019/02/01 - 2022/03/31 | Presidente | InnovPlantProtect CoLab, Portugal |
2017/09/15 - 2021/10/20 | Pró-Reitor | Universidade Nova de Lisboa, Portugal |
2009/03/01 - 2011/02/28 | Presidente | APBio - Portuguese Bioindustries Association (now P-Bio), Portugal |
Outros
Category Host institution |
Employer | |
---|---|---|
2010/05/01 - Current | Founder, Scientific Advisor and member of the Board | SilicoLife, Portugal |
2007/01/01 - 2017/09/14 | Member of the Faculty | MIT Portugal Program, Portugal |
2002/01/01 - 2015/12/31 | Founder and Chief Scientific Officer | Biotempo, Ltd, Portugal |
2012/09/01 - 2015/08/31 | Member of the Scientific Advisory Board of the ERA-SynBio, an European effort to promote projects and initiatives in Synthetic Biology | ERA SynBio - Synthetic Biology, Bélgica |
2007/02/01 - 2007/05/31 | Visiting Scholar | Massachusetts Institute of Technology, Estados Unidos |
1999/01/01 - 2003/10/31 | Trainer and consultant in the fields of ISO 9000 and ISO 14000 implementation | Several, Portugal |
1998/05/01 - 2003/10/31 | PhD Student | Universidade do Minho Centro de Engenharia Biológica, Portugal |
Projects
Bolsa
Designation | Funders | |
---|---|---|
2019/01/01 - 2023/03/31 | SHIKIFACTORY100 - Modular cell factories for the production of 100 compounds from the shikimate pathway
Investigador responsável
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
|
European Commission
Em curso
|
2019/07/01 - 2022/06/30 | Machine learning and deep learning approaches to industrial biotechnology applications
Investigador responsável
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
|
Agência Nacional de Inovação SA
Em curso
|
2021/02/01 - 2022/02/28 | Using computational and experimental methods to provide a global characterization of viral fusion peptides
PTDC/CCI-BIO/28200/2017
Universidade de Lisboa Instituto de Medicina Molecular João Lobo Antunes, Portugal
Universidade Nova de Lisboa, Portugal |
Fundação para a Ciência e a Tecnologia
Concluído
|
2018/10/01 - 2021/09/30 | MIXED-UP - Targeting pathogenesis and engineering cell factories: developing mixed regulatory
PTDC/BII-BIO/28216/2017
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Fundação para a Ciência e a Tecnologia
Em curso
|
2016/03/01 - 2020/02/29 | DD-Decaf - Bioinformatics Services for Data-Driven Design of Cell Factories and Communities
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
European Commission
Concluído
|
2017/04 - 2019/05 | Bio.Data – Portuguese Biological Data Network
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Fundação para a Ciência e a Tecnologia
Em curso
|
2015/04/01 - 2018/12/31 | DYNAMICS - Analysis and optimization of industrial microorganisms under dynamic process conditions
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Fundação para a Ciência e a Tecnologia
Concluído
|
2014/04/01 - 2017/12/31 | DeYeastLibrary - Designer Yeast Strain Library Optimized for Metabolic Engineering Applications
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Fundação para a Ciência e a Tecnologia
Concluído
|
2013/10/01 - 2017/08/31 | Microbial cell factory and processes development for sugarcane hemicellulose hydrolysate valorization
MEC/MCTI/CAPES/CNPq/FAPs Nº 71/2013
Investigador responsável
|
Concluído
|
2013/11/01 - 2016/10/31 | BACterial Hosts for production of Bioactive phenolics from bERRY fruits
Investigador responsável
Biotempo, Ltd, Portugal
|
European Commission
Concluído
|
2012/07/01 - 2015/06/30 | PEM – A platform for Metabolic engineering
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Agência Nacional de Inovação SA
Concluído
|
2012/04/01 - 2015/03/31 | Finding the naturally evolved design principles of prevalent metabolic circuits
PTDC/QUI-BIQ/119657/2010
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Fundação para a Ciência e a Tecnologia
Concluído
|
2011/01/01 - 2013/12/31 | In silico reconstruction of Streptococcus pneumoniae cellular networks and their impact on virulence.
FCT PTDC/EBB-EBI/113824/2009
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Fundação para a Ciência e a Tecnologia
Concluído
|
2010/04/01 - 2013/12/31 | HeliSysBio - Molecular Systems Biology in Helicobacter pylori
FCT PTDC/EBB-EBI/104235/2008
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Fundação para a Ciência e a Tecnologia
Concluído
|
2008/11/01 - 2011/10/31 | SYSINBIO- Systems Biology as a Driver for Industrial Biotechnology
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
European Commission
Concluído
|
2008/09/01 - 2010/08/31 | Propolis efficacy for the control of American Foulbrood: evaluation in controlled regions
Measure 6A
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Concluído
|
Projeto
Designation | Funders | |
---|---|---|
2023/09/01 - Current | Life Sciences for a Healthy and Sustainable Future
LA/P/0087/2020
Instituto Português de Oncologia de Lisboa Francisco Gentil EPE, Portugal
Universidade Nova de Lisboa Molecular Structural and Cellular Microbiology, Portugal Universidade Nova de Lisboa, Portugal Instituto de Biologia Experimental e Tecnológica, Portugal Instituto Gulbenkian de Ciência, Portugal Universidade de Lisboa Centro de Estudos Comparatistas, Portugal BioResources 4 Sustainability, Portugal Universidade de Trás-os-Montes e Alto Douro Centro de Investigação e de Tecnologias Agro-Ambientais e Biologicas, Portugal |
Fundação para a Ciência e a Tecnologia
Em curso
|
2019/01/01 - Current | Centre of Biological Engineering - University of Minho
UID/BIO/04469/2019
Universidade do Minho, Portugal
|
Fundação para a Ciência e a Tecnologia
Concluído
|
2023/01/01 - 2025/12/31 | Modelling vitamins B1 and B2 biosynthesis and biofortification in rice
2022.02916.PTDC
Universidade Nova de Lisboa, Portugal
Instituto Nacional de Saúde Doutor Ricardo Jorge, Portugal |
Fundação para a Ciência e a Tecnologia
Em curso
|
2010/05 - 2013/11 | SYNBIOBACTHER - Synthetic biology approaches to engineer "therapeutic" bacteria
PTDC/EBB-BIO/102863/2008
Universidade do Minho, Portugal
Instituto de Biotecnologia e Bioengenharia, Portugal Universidade de Lisboa Instituto Superior Técnico, Portugal Universidade do Porto Faculdade de Engenharia, Portugal |
Fundação para a Ciência e a Tecnologia
Concluído
|
2011/01/01 - 2012/12/31 | Projecto Estratégico - LA 23 - 2011-2012
PEst-OE/EQB/LA0023/2011
Universidade do Minho, Portugal
Instituto de Biotecnologia e Bioengenharia, Portugal Universidade do Algarve, Portugal Fundação da Faculdade de Ciências da Universidade de Lisboa, Portugal Universidade de Trás-os-Montes e Alto Douro, Portugal Fundação Gaspar Frutuoso, Portugal Universidade de Lisboa Instituto Superior Técnico, Portugal Associação do Instituto Superior Técnico para a Investigação e Desenvolvimento, Portugal Universidade dos Açores, Portugal |
Fundação para a Ciência e a Tecnologia
Concluído
|
2009/04/01 - 2012/09/30 | Bridging Systems and Synthetic Biology for the development of Improved Microbial Cell Factories
MIT-Pt/BS-BB/0082/2008
Universidade do Minho, Portugal
Instituto de Biologia Experimental e Tecnológica, Portugal Universidade do Minho Centro de Engenharia Biológica, Portugal Universidade do Porto Faculdade de Engenharia, Portugal |
Fundação para a Ciência e a Tecnologia
Concluído
|
2007/11/01 - 2009/10/31 | Development of a user-friendly software platform for the rational design of improved microbial strains
Dupont Science and Engineering Program
Investigador responsável
Universidade do Minho Centro de Engenharia Biológica, Portugal
|
Concluído
|
Outputs
Publicações
Artigo em conferência |
|
Artigo em revista |
|
Capítulo de livro |
|
Livro |
|
Poster em conferência |
|
Pré-impressão |
|
Resumo em conferência |
|
Tese / Dissertação |
|
Outros
Outra produção |
|
Activities
Apresentação oral de trabalho
Presentation title | Event name Host (Event location) |
|
---|---|---|
2018/10 | Computer-based Synthetic Biology strategies for novel Cell Factories. Invited plenary speaker at Synthetic Biology – Resource allocation in natural and unnatural systems (Nature Conferences). Shanghai, China. October 15-17 2018. | Resource allocation in natural and unnatural systems
Nature Conferences (Shangai, China)
|
2018/03 | Kinetic Modelling and Strain Design. Invited plenary speaker at the Workshop Challenges in Applied Systems Biology. Science Center Delft. March 15, 2018. | Workshop Challenges in Applied Systems Biology
Science Center Delft (Delft, Países Baixos)
|
2017/12 | In silico design of improved cell factories – New methods and experimental validation. Invited speaker at Microbiotec'17 - Congress of Microbiology and Biotechnology 2017. Porto, Portugal, Dec 7-9, 28, 2017. | Microbiotec'17 - Congress of Microbiology and Biotechnology
(Porto, Portugal)
|
2017/05 | New Tools for improving metabolic annotations. Invited plenary speaker at Copenhagen Biosciences Conferences - 11th Conference: Data-Driven Biotechnology, Bench, Bioreactor and Bedside. Copenhagen, Denmark, 7-11 May, 2017 | 11th Conference: Data-Driven Biotechnology
Copenhagen Biosciences Conferences (Copenhagen, Dinamarca)
|
2017/04 | Rational design of microbes for competitive biotechnological processes. Invited plenary speaker at SynBioBeta London 2017 – Imperial College, UK, April 4-6 2017. | SynBioBeta
(Reino Unido)
|
2016/07 | In silico design of cell factories. Invited speaker at Ciência 2016 – National Science Meeting – Lisbon, Portugal, July 6 2016. | National Science Meeting
(lisbon, Portugal)
|
2016/07 | In silico Metabolic Engineering: from research to the market. Invited plenary speaker at PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi – Lisbon, Portugal, July 11-14 2016. | PYFF6 - 6th Conference on Physiology of Yeast and Filamentous Fungi
(Lisbon, Portugal)
|
2016/06 | Metabolic Systems Biology: tools for model-based analysis and design of microbial systems. Invited plenary speaker at the 5th International Iberian Biophysics Congress, Porto, Portugal, 15-17 June 2016. | 5th International Iberian Biophysics Congress
(Porto, Portugal)
|
2015/10 | Melhoramento das predições in sílico para assistência ao desenvolvimento de estratégias de engenharia metabólica. Invited plenary speaker at the V Encontro da Escola Brasileira de Química Verde, Campinas, Brasil, October 20 2015. | V Encontro da Escola Brasileira de Química Verde
(Campinas, Brasil)
|
2015/09 | Reconciling Experimental Data With in Silico Predictions In Metabolic Engineering Applications. Invited plenary speaker at the 4th COBRA Conference on Constraint-Based Reconstruction and Analysis, Heidelberg, Germany, 16-18 September 2015. | 4th COBRA Conference on Constraint-Based Reconstruction and Analysis
(Heidelberg, Alemanha)
|
2015/06 | Improved in silico strain design by a combined approach to simulation and optimization. Invited plenary speaker at the EMBO |EMBL Symposium “Enabling Technologies for Eukaryotic Synthetic Biology”, Heidelberg, Germany, June 21-23 2015. | EMBO |EMBL Symposium “Enabling Technologies for Eukaryotic Synthetic Biology”
EMBL (Heidelberg, Alemanha)
|
2013/09 | Improving in silico predictions in Metabolic Engineering problems. Invited plenary speaker at the Metabolic Pathways Analysis Conference, Oxford, UK, September 16-20 2013. | Metabolic Pathways Analysis Conference
(Oxford, Reino Unido)
|
2013/08 | Systems Biology for the development of microbial cell factories. Invited speaker at the XIX Sinaferm – Simpósio Nacional de Bioprocesso, Foz do Iguaçu, Brazil, July 30 – August 2 2013 | XIX Sinaferm – Simpósio Nacional de Bioprocesso
(Brasil)
|
2011/12 | New tools for the simulation and optimization of microbes in metabolic engineering problems. Invited speaker at the Conference MicroBiotec'11. Braga, Portugal, 1-3 December, 2011. | Conference MicroBiotec'11
(Portugal)
|
2010/12 | Rational strain improvement through Metabolic Systems Biology. Invited plenary speaker at the conference Joint meeting of the NZ Microbiological Society and NZ Society for Biochemistry & Molecular Biology: Small Things, Big Ideas, Auckland, New Zealand, December 2-4 2010. | Joint meeting of the NZ Microbiological Society and NZ Society for Biochemistry & Molecular Biology: Small Things, Big Ideas
(Auckland, Nova Zelândia)
|
2009/07 | Systems Biology for the development of microbial cell factories. Invited speaker at the National Science Meeting 2009, Lisbon, Portugal, July 30 2009. | National Science Meeting
(Portugal)
|
2006/09 | Systems Biology of Recombinant Organisms. Invited plenary speaker at the European Biopharm Scale-up Congress, Geneva, Switzerland, September 12-14 2006. | European Biopharm Scale-up Congress
(Suiça)
|
Orientação
Thesis Title Role |
Degree Subject (Type) Institution / Organization |
|
---|---|---|
2011/10 - Current | Computer Aided Design of Metabolic Pathways. Co-supervision with Miguel Rocha, DI, UMinho.
Coorientador
|
PhD in Computer Science (MAP-i) (Doutoramento)
Universidade do Minho, Portugal
|
2019/06 - 2023/05 | Development of hybrid metabolic models for the optimization of production of aromatic compounds derived from shikimate. Co-supervision
with Sónia Carneiro, SilicoLife, Portugal.
Orientador
|
Molecular BioSciences PhD Program (Doutoramento)
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
|
2018/11 - 2022/12 | Metagenomics Analysis in Extreme Environments for the discovery of novel enzymes and pathways. Co-Supervision with José Pereira
Leal, CEDOC, NOVA University Lisbon.
Orientador
|
Molecular BioSciences PhD Program (Doutoramento)
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
|
2018/01 - 2021/12 | Development of Genome-scale reconstruction strategies. Program. Co-supervision with Rafael Carreira (SilicoLIfe)
Orientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2018/01 - 2020/12 | Metabolic Engineering aided by computer-guided enzyme engineering for the optimization of cell factories. Co-supervision with
Cláudio Soares (ITQB NOVA).
Orientador
|
PhD in Bioengineering (MIT-Portugal Program) (Doutoramento)
Universidade do Minho, Portugal
|
2017/01 - 2020/12 | Design and optimization of microbial communities
Orientador
|
PhD in BioEngineering (Doutoramento)
Universidade do Minho, Portugal
|
2017/09 - 2020/09 | Optimization of organic acids titers in Saccharomyces cerevisiae chassis cells. Co-Supervision with Lucília Domingues (CEB-UMINHO)
Orientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2017/09 - 2020/09 | Development of chemically defined medium for biopharmaceuticals production using mammalian cell lines guided through metabolic
modelling tools and metabolomics measurements.
Orientador
|
PhD in Bioengineering (MIT-Portugal Program) (Doutoramento)
Universidade do Minho, Portugal
|
2015/01 - 2019/12 | Metabolic Systems Biology of Leishmania major. Co-supervision with Sónia Carneiro, SilicoLife,
Coorientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2017/12 - 2019/06 | Building a database and development of a machine learning algorithm to identify and characterize viral fusion peptides. Co-supervision
with Diana Lousa (ITQB NOVA).
Coorientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2017/02 - 2019/01 | Otimização da fermentação para a produção industrial de compostos fenólicos. Co-supervision with Adelaide Braga (University
of Minho) and Nuno Faria (Biotempo, Lda).
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2014/01 - 2018/12 | Development of novel strains for the production of biofuels. Co-supervision with Aljoscha Whal, Technical University of Delft,
The Netherlands and Rui Pereira (Chalmers, Sweden). Currently Post-Doc at ITQB NOVA
Orientador
|
PhD in Bioengineering (MIT-Portugal Program) (Doutoramento)
Universidade do Minho, Portugal
|
2014/01 - 2018/12 | Accelerating Metabolic Engineering tasks by the in silico development of libraries of strains. Co-supervision with Kiran Patil,
EMBL, Germany. Currently Advisor for Technology Transfer at NOVA University
Orientador
|
PhD in Bioengineering (MIT-Portugal Program) (Doutoramento)
Universidade do Minho, Portugal
|
2014/01 - 2018/12 | Improving Predictions in Metabolic Engineering problems by incorporating enzyme structural information. Co-supervision with
Cláudio Soares, ITQB, Portugal. Currently working at the Biotech multinational company Amyris, Porto, Portugal
Orientador
|
PhD in Bioengineering (MIT-Portugal Program) (Doutoramento)
Universidade do Minho, Portugal
|
2013/10 - 2018/07 | Evaluation and development of algorithms and computational tools for metabolic pathway optimization. Co-supervision with Miguel
Rocha, DI, UMinho. Currently Post-Doc researcher at the Argonne National Laboratory, USA
Coorientador
|
PhD in Computer Science (MAP-i) (Doutoramento)
Universidade do Minho, Portugal
|
2016/12 - 2017/10 | Reconstructing the metabolic network of Lactobacillus helveticus on a genome-wide scale. Co-supervision with Óscar Manuel
Lima Dias (University of Minho) and Ahmad Adel Zeidan (Chr Hansen A/S, Denmark).
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2016/12 - 2017/10 | Genome-Scale Metabolic Network Reconstruction of the dairy bacterium Streptococcus thermophiles. Co-supervision with Óscar
Manuel Lima Dias (University of Minho) and Ahmad Adel Zeidan (Chr Hansen A/S, Denmark).
Coorientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2012/01 - 2017/10 | Development of cell factories for the efficient production of mannosylglycerate, a thermolyte with great potential in biotechnology.
Co-supervision with Helena Santos and Nuno Borges, ITQB, Portugal. Currently Head of Development at SilicoLife, Ltd, Braga.
Coorientador
|
PhD in Bioengineering (MIT-Portugal Program) (Doutoramento)
Universidade do Minho, Portugal
|
2012/01 - 2017/05 | Systems analysis of metabolic network origin and evolution in prokaryotes. Co-supervision with Kiran Patil, EMBL, Germany.
Currently POst-Doc reseracher at Heinrich Heine Universität Düsseldorf
Orientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2015/02 - 2017/03 | Optimization of the production of bioplastics using Metabolic Engineering. Co-supervision with Rui Pereira, SilicoLife, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2005 - 2017 | Supervision of over 80 researchers (Bachelor or Master level) under the scope of the funded research projects.
Supervision of 1st year PhD students of the PhD program in Bioengineering in their 6-weeks lab rotation – 20 students 2007-2017.
Supervision of 5th year graduate students of Biological Engineering (pre-Bologna) in their industrial training period – 4
students 2005-2007.
Supervision of 4th year graduate students in process design projects in the Master Program in Biological Engineering (since
2005) – 6 groups of students 2005-2017
Orientador
|
Several (Outra)
Universidade do Minho, Portugal
|
2016/02 - 2016/10 | Preparation and presentation of a plan to improve the fast cooling process in a unit of human food production. Co-supervision
with Pedro Lorga (Pingo Doce, S. A.)
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2016/02 - 2016/10 | Aplicação do Sistema HACCP no caso de estudo de fiambres fatiados. Co-supervision with Juliana Martins (Salsicharia Limiana,
Lda).
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2009/09 - 2016/09 | Development of Dynamic Multi-Layered Cell Models based on Cellular Automata. Co-Supervision with Miguel Rocha, DI, UMinho
and Bruce Tidor, MIT, USA. Currently Data Scientist at HOLD Platform Limited.
Orientador
|
PhD in Bioengineering (MIT-Portugal program) (Doutoramento)
Universidade do Minho, Portugal
|
2014/12 - 2016/01 | Evolutionary Engineering of Lactic Acid Bacteria. Co-supervision with Jochen Foster, DTU, Denmark.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2014/12 - 2015/12 | Analysis and optimization of industrial microorganisms under dynamic process conditions. – University of Minho. Co-supervision
with Carlos Daniel Machado, CEB, UMinho.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2010/01 - 2015/12 | Hydrocarbonoclastic bacteria: from bioremediation to bioenergy feedstock. Co-supervision with Alcina Pereira, DEB, UMinho.
Currently Post-Doc Reseacrher at UMinho
Coorientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2014/12 - 2015/10 | Regulatory modelling of Saccharomyces cerevisiae. Co-supervision with Kiran R. Patil, EMBL, Germany.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2014/12 - 2015/10 | Development of a dynamic model for the production of phenolic compounds. Co-supervision with Nuno Faria, Biotempo.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2014/12 - 2015/10 | Development of metabolic pathway analysis based algorithms for strain optimization. Co-supervision with Miguel Rocha, DI,
UMinho.
Coorientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2010/09 - 2015/07 | Optimization of the Production Active Pharmaceutical Ingredients with E.coli. Co-supervision with Jens Nielsen, Chalmers,
Sweden. Currently Post-Doc at Chalmers, Sweden.
Orientador
|
PhD in Bioengineering (MIT-Portugal program) (Doutoramento)
Universidade do Minho, Portugal
|
2013/12 - 2015/06 | In silico optimization of organic acids production. Co-supervision with Simão Soares, SilicoLife.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2010/09 - 2015/06 | Understanding the evolution and conservation of regulatory mechanisms through reconstruction and comparison of metabolic regulatory
networks. Co-Supervision with Miguel Rocha, DI, UMinho and Chris Henry, Argonne National Laboratory, USA. Currently Researcher
at Argonne National Laboratory and University of Chicago, USA
Orientador
|
PhD in Bioengineering (MIT-Portugal program) (Doutoramento)
Universidade do Minho, Portugal
|
2009/09 - 2015/06 | Developing Computational Tools to Explore the Synergies between Systems Biology and Metabolome Analysis. Co-supervision with
Miguel Rocha, DI, UMinho and Silas Villas-Bôas, University of Auckland, New Zealand. Currently Head of Development at SilicoLife,
Ltd, Braga, Portugal
Coorientador
|
PhD in Biomedical Engineering
Universidade do Minho, Portugal
|
2009/09 - 2015/06 | Metabolic Control Analysis as a Framework for Strain Optimization. Co-Supervision with Miguel Rocha, DI, UMinho. Currently
Head of Development at SilicoLife, Ltd, Braga, Portugal
Orientador
|
PhD in Bioengineering (MIT-Portugal program) (Doutoramento)
Universidade do Minho, Portugal
|
2013/12 - 2015/04 | Analysis of output properties of Peroxiredoxin / Thioredoxin /thioredoxin reductase system. Co-supervision with Armindo Machado,
CNC, Coimbra University.
Coorientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2014/02 - 2014/10 | Desenho e Visualização de Vias Metabólicas para Análise de Soluções de Otimização de Estirpes. – University of Minho. Co-supervision
with Sónia Carneiro, SilicoLife, Ltd.
Orientador of Ana Isabel Lobo Castro
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2014/02 - 2014/10 | Reconstrução do modelo metabólico do Actinobacillus succionogenes. – University of Minho. Co-supervision with Sónia Carneiro,
SilicoLife, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2014/02 - 2014/10 | Implementation of the fermentation strategies for lactic acid bacteria. Co-supervision with Nuno Faria, Biotempo, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2014/02 - 2014/10 | Importância do pH na carne de bovino embalada. Co-supervision with Graciete Machado, Centralcarnes, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2013/12 - 2014/10 | Extraction of kinetic information from literature. Co-supervision with Miguel Rocha, DI, UMinho.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2009/02 - 2014/06 | Systems analysis of metabolism in Helicobacter pylori. Co-Supervision with Maria João Vieira, DEB, University of Minho and
Nuno Azevedo, Faculty of Engineering, University of Porto. Currently Head of R&D at the Perfume company Nortempresa, Ltd,
Braga, Portugal.
Orientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2009/03 - 2013/12 | In vivo metabolic pathway analysis of Enterococcus faecalis for uncovering key pathogenicity factors. Co-Supervision with
Eugénio Ferreira, DEB, UMinho and Silas Vilas-Boas, Univ. Auckland, New Zealand. Currently employed at the Value Creation
Office at NOVA University Lisbon, Portugal.
Orientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2013/02 - 2013/11 | Sistemas de Segurança Alimentar e de Controlo de Qualidade na Cerealis Produtos Alimentares S.A. Co-supervision with Cláudia
Torres, Cerealis, Ltd. Role: Main supervisor. February – October 2013 (concluded).
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2013/02 - 2013/10 | Estudo das análises microbiológicas realizadas no Departamento Alimentar dos SASUM, no âmbito do respetivo SGSA. Co-supervision
with Raquel Lopes, Biotempo, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2013/02 - 2013/10 | Metabolic engineering – In silico fumaric acid production. Co-supervision with Sónia Carneiro, SilicoLife, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2013/02 - 2013/10 | Revisão do SGQ e Segurança Alimentar em empresas do Grupo IDIS. Co-supervision with Sara Antunes, Idis, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2013/02 - 2013/10 | Metabolic Engineering – Itaconic Acid Production in Escherichia coli. Co-supervision with Sónia Carneiro, SilicoLife, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2012/12 - 2013/10 | Computational tools for pathway optimization towards metabolic engineering applications. Co-supervision with Miguel Rocha,
DI, UMinho.
Orientador of Filipe Alexandre Wang Liu
|
MSc in Informatics (Mestrado)
Universidade do Minho, Portugal
|
2012/12 - 2013/10 | Development of computational methods for the determination of biomass composition and evaluation of its impact in genome-scale
models predictions.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2012/12 - 2013/10 | Genome reannotation and genome-scale metabolic model reconstruction of Helicobacter pylori 26695.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2012/12 - 2013/10 | Investigação da produção do ácido itacónico pela bactéria Escherichia coli. Co-supervision with Sónia Carneiro, CEB, UMinho.
Coorientador
|
MSc in Bioengineering (Mestrado)
Universidade do Minho, Portugal
|
2009/02 - 2013/06 | Reconstruction of the Genome-scale Metabolic Network of Kluyveromyces lactis. Co-Supervision with Eugénio Ferreira, DEB, UMinho
and Andreas Gombert, University of Sao Paulo, Brazil. Currently Assistant Researcher at University of Minho.
Orientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2007/12 - 2012/12 | Computational tools for large-scale biological network analysis. Co-supervision with Miguel Rocha, DI, UMinho. Currently
Post-Doc researcher at the University of Algarve.
Coorientador
|
PhD in Informatics (Doutoramento)
Universidade do Minho, Portugal
|
2012/02 - 2012/10 | Desenvolvimento de metodologias para a optimização operacional de uma linha de produção de Galactooligossacarídeos e Frutooligossacarídeos.
Co-supervision with Nuno Faria, Biotempo, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2011/12 - 2012/10 | Reconstruction of a generic metabolic model for Streptococcus pneumonia. Co-supervision with Francisco Pinto, University
of Lisbon, Portugal.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2009/12 - 2012/06 | Connecting design and function in moiety-transfer cycles: functional implications of product inhibition by cycled intermediates.
– University of Minho. Co-supervision with Armindo Salvador, CNC, Portugal.
Coorientador
|
MSc Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2008/09 - 2012/06 | Extracção e Classificação de Relações Biologicamente Relevantes da Literatura Biomédica. Co-supervision with Anália Lourenço,
IBB,
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2008/09 - 2012/01 | Novel modelling formalisms and simulation tools in Computational Biosystems. Co-supervision with Eugénio Ferreira, DEB, UMinho
and Bruce Tidor, MIT, USA. Currently Post-Doc at EMBL, Heidelberg, Germany.
Coorientador
|
PhD in Bioengineering (MIT-Portugal program) (Doutoramento)
Universidade do Minho, Portugal
|
2006/01 - 2011/11 | Systems analysis and metabolic network modeling in Escherichia coli. Co-supervision with Eugénio Ferreira, DEB, UMinho). Currently
Researcher at FCT NOVA.
Coorientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2011/02 - 2011/10 | Integração Energética de um Processo Industrial de Valorização de Soro de Queijo. – University of Minho. Co-supervision with
Nuno Faria, Biotempo, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2010/12 - 2011/10 | Analysis of the kinetic response of S. cerevisiae to dynamic feast/famine conditions. Co-supervision with Aljoscha Wahl,
Delft University of Technology, The Netherlands.
Coorientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2010/12 - 2011/10 | Reconstruction, refinement and validation of a genome-scale metabolic model for the biosynthesis of triacylglycerols in Rhodococcus
opacus. Co-supervision with Alcina Pereira, IBB, University of Minho.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2010/10 - 2011/10 | Desenvolvimento de ferramentas computacionais para otimização de estirpes por adição de reacções ao modelo metabólico. Co-supervision
with Miguel Rocha, DI, UMinho.
Coorientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2011/03 - 2011/06 | Systems analysis of metabolic networks’ origin and evolution.
Orientador
|
Integrated Master Program in Bioengineering (Mestrado)
Universidade do Porto, Portugal
|
2006/01 - 2010/12 | A Systems Biology approach for the characterization of metabolic bottlenecks in recombinant protein production processes.
Co-supervision with Eugenio Ferreira, DEB, UMinho. Currently Head of Development at SilicoLife, Ltd, Braga, Portugal.
Orientador
|
PhD in Chemical and Biological Engineering (Doutoramento)
Universidade do Minho, Portugal
|
2009/12 - 2010/10 | Uncovering metabolic and regulatory signatures in H. pylori infection by integration of “omics” data and metabolic models.
Co-supervision with Kiran Patil, Technical University of Denmark.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2008/02 - 2010/01 | Engenharia Genética de Escherichia coli com vista ao melhoramento do processo de produção de proteínas recombinantes. Co-supervision
with Lucília Domingues, IBB, University of Minho.
Coorientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2009/02 - 2009/12 | Measurement and Control of Glucose Concentration in Mammalian Cultivations using Mid-IR Spectroscopy. Co-supervision with
Mats Akesson, NovoNordisk, Inc, Denmark.
Coorientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2008/01 - 2009/12 | Implementação de um Sistema Integrado de Gestão da Qualidade e Ambiental numa empresa transformadora de madeira. Co-supervision
with Maria Olívia Pereira, DEB, University of Minho.
Coorientador
|
MSc in Environmental Management Systems (Mestrado)
Universidade do Minho, Portugal
|
2009/02 - 2009/11 | Physiological characterization of PUFA producing microorganisms. Co-supervision with Jochen Forster, Fluxome Sciences, Denmark.
Coorientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2008/10 - 2009/11 | Desenvolvimento de ferramentas computacionais para a optimização de processos de fermentação em Biotecnologia. - University
of Minho. Co-supervision with Miguel Rocha, DI, University of Minho.
Coorientador
|
MSc in Informatics (Mestrado)
Universidade do Minho, Portugal
|
2008/12 - 2009/10 | Semi-automatic reconstruction of the metabolic network of three different strains of the Streptococcus pneumoniae (TIGR4,
R6 and G54). Co-supervision with Francisco Pinto, University of Lisbon.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2008/12 - 2009/10 | Identifying metabolic and regulatory signatures of type 2 diabetes by integration of gene expression data and genome-scale
metabolic networks. Co-supervision with Kiran Patil, Technical University of Denmark.
Coorientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2008/12 - 2009/09 | Multi-Objective Evolutionary Algorithms for the in silico Optimization of Mutant Strains. Co-supervision with Miguel Rocha,
DI, University of Minho.
Coorientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2008/12 - 2009/09 | Computational Tools for the Simulation and Optimization of Biological processes with Dynamical Models. Co-supervision with
Miguel Rocha, DI, University of Minho.
Orientador
|
MSc in Bioinformatics (Mestrado)
Universidade do Minho, Portugal
|
2008/02 - 2009/07 | Optimization of the production of fructo-oligosaccharides with Aspergillus spp. Co-supervision with Lígia Rodrigues, IBB,
University of Minho.
Coorientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2007/10 - 2009/07 | Monitoring and modelling of recombinant E. coli fermentation. Co-supervision with E. C. Ferreira, DEB, University of Minho.
Orientador
|
MSc in Biotechnology (Mestrado)
Universidade do Minho, Portugal
|
2007/11 - 2008/10 | Computational Tools for the Reconstruction of Genome-scale Metabolic Models. Co-supervision with Miguel Rocha, DI, University
of Minho.
Coorientador
|
MSc in Informatics (Mestrado)
Universidade do Minho, Portugal
|
2007/02 - 2007/12 | Application of Bioinformatics tools to the optimization of an Industrial Biotechnology Process. - University of Minho. Co-supervision
with Miguel Rocha, DI, University of Minho.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2007/02 - 2007/12 | Online optimization of the production of functional food ingredients. - University of Minho. Co-supervision with Duarte Torres,
Biotempo, Ltd.
Orientador
|
Integrated Master in Biological Engineering (Mestrado)
Universidade do Minho, Portugal
|
2006/10 - 2007/12 | Modelling of Biotechnological Processes - an approach based on Artificial Neural Networks. Co-supervision with Miguel Rocha,
DI, University of Minho.
Coorientador
|
MSc in Informatics (Mestrado)
Universidade do Minho, Portugal
|
2005/10 - 2006/06 | Implementation of an Environmental Management System in a company producing package material and its integration with quality
and health management systems. Co-supervision with Maria Olívia Pereira, DEB, University of Minho.
Coorientador
|
MSc in Environmental Management Systems (Mestrado)
Universidade do Minho, Portugal
|
Júri de grau académico
Topic Role |
Candidate name (Type of degree) Institution / Organization |
|
---|---|---|
2019/10 | Analysis of metabolic heterogeneity over cell division cycle in non-synchronized yeast
Arguente principal
|
Inês Vasconcelos Miranda Santos (Doutoramento)
Universidade de Coimbra, Portugal
|
2019/07 | New constraint-based methods to characterize Chinese hamster ovary cell metabolism
Arguente principal
|
Sarah Noel Galleguillos Rioboo (Doutoramento)
Universität für Bodenkultur Wien, Áustria
|
2018/10/03 | A mathematical model of the phosphoinositide pathway in human pulmonary epithelial cells
Arguente principal
|
Daniel Olivença (Doutoramento)
Universidade de Lisboa Faculdade de Ciências, Portugal
|
2018/10 | Analysis, mathematical modeling and optimization of mammalian cell cultures in perfused bioreactors. University of Mons, Belgium,
October 2018. Member of jury as opponent.
Arguente principal
|
Sofia Afonso Fernandes de Sousa (Doutoramento) |
2017 | Developing strategies for systems metabolic engineering of Pichia pastoris
Arguente principal
|
Màrius Tomàs Gamisans (Doutoramento)
Universitat Autònoma de Barcelona, Espanha
|
2016/12 | Network Inference for Logic-Based Ordinary Differential Equations
Arguente
|
David Saque Henriques (Doutoramento)
Universidade do Minho, Portugal
|
2016/11 | Seeking general principles in the design of defense systems against hydrogen peroxide
Arguente principal
|
Gianluca Selvaggio (Doutoramento)
Universidade Nova de Lisboa, Portugal
|
2016/09 | Development of Dynamic Multi-Layered Cell Models based on Cellular Automata
Orientador
|
Pedro Tiago Evangelista (Doutoramento)
Universidade do Minho, Portugal
|
2016/05 | Systems analysis of metabolic network origin and evolution in prokaryotes
Orientador
|
Joana Rute Calça Xavier (Doutoramento)
Universidade do Minho, Portugal
|
2015/09 | Rational design of insect cell-based vaccine production: Bridging metabolomics with mathematical tools to study virus-host
interactions.
Arguente principal
|
Francisca Sarreira Simões Horta Monteiro (Doutoramento)
Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal
|
2015/07 | Improvement of in silico strain engineering methods in S. cerevisiae
Orientador
|
Rui Miguel Pinheiro Silva Pereira (Doutoramento)
Universidade do Minho, Portugal
|
2015/06 | Modelling microbes: new methods for integrated metabolic and regulatory network reconstruction
Orientador
|
José Pedro Lopes Faria (Doutoramento)
Universidade do Minho, Portugal
|
2014/06 | Systems analysis of metabolism in Helicobacter pylori
Orientador
|
Daniela Matilde Marques Correia (Doutoramento)
Universidade do Minho, Portugal
|
2013/12 | In vivo metabolic pathway analysis of Enterococcus faecalis for uncovering key pathogenicity factors
Orientador
|
Carla Andreia Freixo Portela (Doutoramento)
Universidade do Minho, Portugal
|
2013/06 | Reconstruction of the Genome-scale Metabolic Network of Kluyveromyces lactis
Orientador
|
Óscar Manuel Lima Dias (Doutoramento)
Universidade do Minho, Portugal
|
2013/03 | Management and characterization of Helicobacter pylori in vitro growth: new insights into its free-living and biofilm modes
of growth
Arguente principal
|
Lucinda Janete da Silva Bessa (Doutoramento)
University D’ANNUNZIO, Itália
|
2013/01 | Design and engineering of a cyanobacterial photoautotrophic chassis and parts for synthetic biology applications
Arguente principal
|
Filipe José Vilarinho Pinto (Doutoramento)
Universidade do Porto, Portugal
|
2012/12 | Computational Tools for Data Integration and Regulatory Network Inference in Systems Biology
Orientador
|
José Pedro Basto Gouveia Pereira Pinto (Doutoramento)
Universidade do Minho, Portugal
|
2012/06 | . Investigating genotype-phenotype relationships in Saccharomyces cerevisiae metabolic network through stoichiometric modeling
Arguente principal
|
Ana Rita Brochado (Doutoramento)
Danmarks Tekniske Universitet, Dinamarca
|
2012/01 | Novel modelling formalisms and simulation tools in Computational Biosystems
Orientador
|
Carlos Daniel Moutinho Machado (Doutoramento)
Universidade do Minho, Portugal
|
2010/12 | From Genome-scale Models of Microorganisms to Process Control and Optimization - Application to Recombinant Protein Production
Orientador
|
Rafael Sousa Costa (Doutoramento)
Universidade do Minho, Portugal
|
2010/12 | Characterization of a Salmonella phage using omic tools and mathematical models to predict host-phage interaction
Arguente
|
Sílvio Roberto Branco dos Santos (Doutoramento)
Universidade do Minho, Portugal
|
2010/12 | A Systems Biology approach for the characterization of metabolic bottlenecks in recombinant protein production processes
Orientador
|
Sónia Madalena Azevedo Carneiro (Doutoramento)
Universidade do Minho, Portugal
|
2010/06 | Model discrimination in time-course kinetics: the glyoxalase pathway in Saccharomyces cerevisiae
Arguente principal
|
Nuno Filipe Gonçalves Lages (Doutoramento)
Universidade de Lisboa Faculdade de Ciências, Portugal
|
2010/03 | Production of Galacto-Oligosaccharides - Physicochemical and Functional Characterization
Arguente
|
Duarte Paulo Martins Torres (Doutoramento)
Universidade do Minho, Portugal
|
2007 | Feed Strategies Optimization for Parameter Identification in a E. coli Fermentation Model for Monitoring and Control
Arguente
|
Ana Cristina Araújo Veloso (Doutoramento)
Universidade do Minho, Portugal
|
Arbitragem científica em conferência
Conference name | Conference host | |
---|---|---|
2018/06 - 2018/06 | 12th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB'18), Toledo, Spain, June 20-22 2018. Member of the Scientific Committee. | |
2017 - 2017 | 11th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB’17), Polytechnic of Porto – Porto, Portugal. June 21-23, 2017. Member of the Scientific Committee. | |
2016 - 2016 | XIX National Biochemistry Congress (Portugal), University of Minho, Guimarães, Portugal, December 8-10 2016. Member of the Scientific Committee. | |
2016 - 2016 | 6th International Conference Foundations of Systems Biology in Engineering, FOSBE 2016. Otto-von-Guericke University and the Max Planck Institute, Magdeburg, Germany, October 9-12 2016. Member of the Programme Committee. | |
2016 - 2016 | 10th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB'16). Seville, Spain. June 1-3, 2016. Member of the Scientific Committee. | |
2015 - 2015 | 9th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB'15), Salamanca, Spain, June 3-5 2015. Member of the Scientific Committee. | |
2015 - 2015 | MPA 2015 – Metabolic Pathway Analysis 2015 (http://www.mpa15), Braga, June 8-12 2015. Member of the scientific committee. | |
2014 - 2014 | 8th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB'14), Salamanca, Spain, June 4-6 2014. Member of the Scientific Committee. | |
2014 - 2014 | Bioinformatics 2014 – 5th International Conference on Bioinformatics models, methods and algorithms, Angers, France, March 3-6 2014. Member of the Program Committee. | |
2013 - 2013 | 7th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB'13), Salamanca, Spain, May 22-24 2013. Member of the Scientific Committee. | |
2012 - 2012 | 6th International Conference on Practical Applications of Computational Biology and Bioinformatics (PACBB 2012), Salamanca, Spain, March 28-30 2012. Member of the Scientific Committee. | |
2011 - 2011 | 5th International Conference on Practical Applications of Computational Biology and Bioinformatics (PACBB 2011), Salamanca, Spain, April 6-8 2011. Member of the Scientific Committee. | |
2010 - 2010 | X Jornadas de Bioinformática, Malaga, Spain, October 27-29 2010. Member of the Scientific Committee. | |
2010 - 2010 | 4th International Workshop on Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2010), Guimarães, Portugal, June 16-18 2010. Member of the Scientific Committee. | |
2009 - 2009 | 2nd Workshop on Computational Methods in Bioinformatics and Systems Biology, 14th Portuguese Conference on Artificial Intelligence, Aveiro, Portugal, October 12-15 2009. Member of the Program Committee. | |
2009 - 2009 | 3rd International Workshop Practical Applications Computational Biology and Bioinformatics (IWPACBB 2009), Salamanca, Spain, June 10-12 2009. Member of the Scientific Committee. | |
2008 - 2008 | 2nd International Workshop Practical Applications of Computational Biology and Bioinformatics (IWPACBB 2008), Salamanca, Spain, October 22-24 2008. Member of the Scientific Committee. |
Curso / Disciplina lecionado
Academic session | Degree Subject (Type) | Institution / Organization | |
---|---|---|---|
2017/10 - Current | Course coordination and teaching of the module Systems Biology at the PhD Program in Molecular Biosciences, 1.5 credits (6 hours of teaching, 35 hours total) | PhD Program in Molecular Biosciences (Doutoramento) | Universidade Nova de Lisboa Instituto de Tecnologia Química e Biológica, Portugal |
2009/09 - 2017/08 | Master in Bioengineering - Bioinformatics and Systems Biology. Discipline part of the Curricular Unit Bioprocess Engineering (UCE Engenharia de Bioprocessos). 5 credits. 1st year. 1st Semester. Compulsory Discipline. Typology: 50% T + 50% TP. Role: Coordinator since the launch of the discipline (2009/2010). Responsible for the design and implementation of the program Average number of students: 20. | MSc Bioengineering (Mestrado) | Universidade do Minho, Portugal |
2007/09 - 2017/08 | PhD in Bioengineering (MIT-Portugal): - Bio-Teams (Bioengenharia de sistemas: da Ideia à Inovação). 1st year. 2nd semester. Compulsory Discipline. Typology: 40% T + 60% TP. Role: Coordinator. Responsible for the design and implementation of the program. Average number of students: 30. - Lab Rotations (Rotação Laboratorial). 1st year. Compulsory Discipline. Typology: 50% P + 50% OT. Role: lecturer. Average number of students: 5. | PhD Bioengineering (Doutoramento) | Universidade do Minho, Portugal |
2007/09 - 2017/08 | PhD in Bioengineering (MIT-Portugal): - Computational Biosystems (Ciência e Engenharia de Biosistemas). 1st year. 1st Semester. Compulsory Discipline. Typology: 40% T + 60% TP. Role: lecturer. Coordinator in 2016/2017. Co-responsible for the design of the program. Average number of students: 20. - Innovation in Bioengineering (Inovação em Bioengenharia). 1st year. 1st semester. Compulsory Discipline. Typology: 100% T. Role: lecturer. Average number of students: 20. | PhD Bioengineering (Doutoramento) | Universidade do Minho, Portugal |
2007/09 - 2017/08 | - Systems Biology. 5 credits. 1st year. 1st Semester. Compulsory Discipline. Typology: 50% T + 50% TP. Role: Coordinator since the launch of the Master Program (2007/2008). Responsible for the design and implementation of the program. Average number of students: 30. - Modeling of Biological Processes 5 credits. 1st year. 2st Semester. Compulsory Discipline. Typology: 50% T + 50% TP. Role: Coordinator since 2010/2011. Co-responsible for the design and implementation of the program. Average number of students: 30. | MSc Bioinformatics (Mestrado) | Universidade do Minho, Portugal |
2007/09 - 2017/08 | Master in Bioinformatics: - Project in Bioinformatics and Systems Biology 10 credits. 1st year. 2nd Semester. Compulsory Discipline. Typology: 100% PL. Role: Coordinator since 2007/2008. Co-responsible for the design and implementation of the program. Average number of students: 30. - Entrepreneurship in Biotechology and Bioinformatics 5 credits. 2nd year. 1st Semester. Compulsory Discipline. Typology: 100% T. Role: Coordinator since. Co-responsible for the design and implementation of the program. Average number of students: 30. | MSc Bioinformatics (Mestrado) | Universidade do Minho, Portugal |
2007/09 - 2017/08 | Master in Bioinformatics: - Biochemical Engineering 5 credits. 1st year. 1st Semester. Compulsory Discipline. Typology: 100% TP. Role: Lecturer. Average number of students: 5. - Research methods and tools in Research in Bioinformatics 5 credits. 2nd year. 1st Semester. Compulsory Discipline. Typology: 50% T + 50% TP. Role: Lecturer. Average number of students: 30. - Bioinformatics Laboratories 5 credits. 1st year. 1st Semester. Compulsory Discipline. Typology: 100% PL. Role: Lecturer. Average number of students: 30. | MSc Bioinformatics (Mestrado) | Universidade do Minho, Portugal |
2005/02 - 2017/08 | Integrated Master in Biological Engineering: - Process Control and Instrumentation. 5 credits. 4th year. 2nd Semester. Compulsory Discipline. Typology: 40% T + 10% TP + 40% OT. Role: Coordinator from 2010/2011 to 2012/2013 and in 2016/2017. Average number of students: 60. | MSc Biological Engineering (Mestrado integrado) | Universidade do Minho, Portugal |
2013 - 2013 | Course coordination and teaching of the Course on “Metabolic Engineering with OptFlux”, offered at the Sinaferm Conference 2013 (6 hours), Foz de Iguaçu, Brazil, July 30 2013. | Post-Graduation course (Outros) |
Membro de comissão
Activity description Role |
Institution / Organization | |
---|---|---|
2019/10/14 - 2019/10/19 | 8th International Conference Foundations of Systems Biology in Engineering, FOSBE 2019. Valencia, Spain, October 14-19 2019.
Vice-chair for Industry of the Program committee.
Membro
|
|
2019/08 - 2019/08 | MPA 2019 – Metabolic Pathway Analysis 2019, Riga, Latvia, August 2019. Member of the organizing committee.
Membro
|
|
2018/09 - 2018/09 | 2nd DD-DeCaF workshop – Data driven cell factory design (http://dd-decaf.eu/2018/09/18/2nd-workshop.html), Oeiras, September
18-19 2018. Co-head of the organizing committee.
Membro
|
|
2018 - 2018 | Metabolic Engineering 12 - Systems Metabolic Engineering for Superior Bio-Production, The Westin Grand Munich, Munich, Germany, June 24-28, 2018. Member of the Organizing Committee. | |
2015 - 2015 | MPA 2015 – Metabolic Pathway Analysis 2015 (http://www.mpa15.org), Braga, June 8-12 2015. Head of the organizing committee.
Presidente / Vice-presidente
|
|
2008 - 2008 | CHEMPOR 2008 - 10th International Chemical and Biological Engineering Conference, Braga, Portugal, September 4-6 2008. Member
of the Organizing Committee.
Membro
|
|
2007 - 2007 | Workshop on Computational Methods in Bioinformatics and Systems Biology, 13th Portuguese Conference on Artificial Intelligence,
Guimarães, Portugal, December 3-7 2007. Member of the Organizing Committee.
Membro
|
Outro júri / avaliação
Activity description | Institution / Organization | |
---|---|---|
2019/04 - 2019/04 | Evaluator DFB - Deutsche Forschungsgemeinschaft: Review Panel for the Priority Programme “Novel production processes and multi-scale analysis, modelling and design of cell-cell and cell-bioreactor interactions (InterZell). | |
2019 - 2019 | Evaluator for the European Commission Horizon 2020 call SC1-BHC-02-2019: 'Systems approaches for the discovery of combinatorial therapies for complex disorders'. | |
2019 - 2019 | Evaluation of PhD Grants for FCT in Portugal - Bioengineering and Biotechnology panel | |
2019 - 2019 | Evaluator for the European Commission Horizon 2020 call CE-Biotec-05-2019: Microorganism communities for plastics bio-degradation (RIA). Single Stage. 4 full proposals. | |
2019 - 2019 | Evaluator for the Portuguese Science Foundation (FCT) of the Research Infrastructures (panel coordinator) | |
2017 - 2017 | Evaluator for the European Commission Horizon 2020 call SC1-PM-02-2017: New Concepts in Patient Stratification – stage 1 (22 proposals) and stage 2 (6 proposals). | |
2016 - 2016 | Evaluator for the European Commission for COST Actions Open Call OC-2016-2 (1 proposal). | |
2015 - 2015 | Evaluator for the European Commission Horizon 2020 call PHC2 – 2015: "Understanding disease: systems medicine" – stage 1 (18 proposals) and stage 2 (8 proposals). | |
2014 - 2014 | Evaluator for the ERASynBio call on collaborative projects – 2014 (1 proposal). | |
2014 - 2014 | Evaluator for the Czech Ministry of Education (Czech-Norwegian Research Programme), Czech Republic, 2014 | |
2007 - 2014 | Evaluator for the Biotechnology and Biological Sciences Research Council grants (United Kingdom). 2007, 2009 and 2014. | |
2013 - 2013 | Evaluator for the BBRSC (Multidisciplinary Research Centres in Synthetic Biology), UK, 2013. | |
2013 - 2013 | Evaluator for the Portuguese Innovation Agency, Portugal, 2013 | |
2013 - 2013 | Evaluator for the Latvian Science Council (national call), Latvia, 2013 | |
2012 - 2012 | Evaluator for the Polish-Norwegian Research Programme, The National Centre for Research and Development, Poland, 2012. | |
2011 - 2012 | Evaluator for the EU 7th Framework Programme in the area of Systems Medicine (European Union). 2011 and 2012. | |
2011 - 2011 | Evaluator for the Research Council of K.U.Leuven. (Belgium). 2011. | |
2010 - 2010 | Evaluator for the Research Foundation - Flanders, (FWO). (Belgium). 2010. | |
2010 - 2010 | Evaluator for the ERA-IB 2nd Call - Industrial biotechnology for Europe: an integrated approach (European Union). 2010. | |
2008 - 2009 | Evaluator for the Chilean Research Fund Council (FONDECYT) – Initiation projects (Chile). 2008 and 2009. | |
2007 - 2009 | Evaluator for the Biotechnology and Biological Sciences Research Council grants (United Kingdom). 2007 and 2009. |
Distinctions
Outra distinção
2010 | Atreve-te Award to the best entrepreneurial project to SilicoLife (sponsored by the President of the Portuguese Republic)
Caixa Geral de Depositos, Portugal
|
2009 | 1st Annual 2009 MIT-Portugal Education Innovation Award |
2007 | Dupont Science & Engineering Award
EI Dupont de Nemours and Co, Estados Unidos
|
1997 | University of Minho Award
Universidade do Minho, Portugal
|
1997 | Rotary Club Foundation Prize |
1996 | University/Industry Prize |