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Identification

Personal identification

Full name
Tiago Matias Machado dos Santos Seara Paixão

Citation names

  • Paixão, Tiago

Author identifiers

Ciência ID
C41D-4B88-1D2C
ORCID iD
0000-0003-2361-3953
Google Scholar ID
7x0vA8EAAAAJ
Scopus Author Id
24773710200

Email addresses

  • tpaixao@igc.gulbenkian.pt (Professional)

Languages

Language Speaking Reading Writing Listening Peer-review
Portuguese Proficiency (C2) Proficiency (C2) Proficiency (C2) Proficiency (C2)
English Advanced (C1) Advanced (C1) Advanced (C1) Advanced (C1)
Education
Degree Classification
2007/09
Concluded
 - (Doutoramento)
Universidade do Porto Instituto de Ciências Biomédicas Abel Salazar, Portugal
"The Stochastic Basis of Somatic Variation" (THESIS/DISSERTATION)
 Aprovado por Unanimidade
2001
Concluded
 Engenharia Fisica e Tecnologica (Licenciatura)
Universidade de Lisboa Instituto Superior Técnico, Portugal
"Análise do modelo de Frenkel-Kontorova" (THESIS/DISSERTATION)
 15
Affiliation

Science

Category
Host institution 		Employer
2020 - Current Contracted Researcher (Research) Instituto Gulbenkian de Ciência, Portugal
2011 - 2017 Contracted Researcher (Research) Institute of Science and Technology Austria, Austria

Others

Category
Host institution 		Employer
2018 - 2019 Head of Clinical Research IB Lab GmbH (ImageBiopsy Lab), Austria
2008 - 2011 Postdoctoral fellow University of Houston, United States
2003 - 2007 PhD student Instituto Gulbenkian de Ciência, Portugal
2001 - 2002 Junior Researcher at the Non-Linear Dynamics Group at IST Universidade de Lisboa Instituto Superior Técnico, Portugal
Projects

Grant

Designation Funders
2013/01 - 2017/01 Speed of Adaptation in Genetics and Evolutionary computation (SAGE)
618091
 Seventh Framework Programme
2009/01/01 - 2009/12/31 A computational framework for the evolution of gene regulatory networks
SFRH/BPD/43753/2008
Researcher
University of Houston, United States
 Fundação para a Ciência e a Tecnologia
Concluded
2003 - 2007 The Stochastic basis of somatic variation
SFRH/BD/10550/2002
Instituto Gulbenkian de Ciência, Portugal
 Fundação para a Ciência e a Tecnologia
Concluded

Other

Designation Funders
2021/01/01 - Current Comprehensive study of the mutational effects in E.coli
CPCA/A1/7350/2020
Principal investigator
Instituto Gulbenkian de Ciência, Portugal
 Fundação para a Ciência e a Tecnologia
Ongoing
Outputs

Publications

Conference paper
  1. Oliveto, P.S.; Paixão, T.; Heredia, J.P.; Sudholt, D.; Trubenová, B.. "When non-elitism outperforms elitism for crossing fitness valleys". 2016.
    10.1145/2908812.2908909
  2. Tiago Paixao; Jorge Pérez Heredia; Dirk Sudholt; Barbora Trubenova. "First Steps Towards a Runtime Comparison of Natural and Artificial Evolution". 2015.
    10.1145/2739480.2754758
  3. Tiago Paixão; Nick Barton. "A variance decomposition approach to the analysis of genetic algorithms". 2013.
    10.1145/2463372.2463470
  4. Nick Barton; Tiago Paixão. "Can quantitative and population genetics help us understand evolutionary computation?". 2013.
    10.1145/2463372.2463568
Journal article
  1. Susana Ramos; Viktoria Jeney; Ana Figueiredo; Tiago Paixão; Maria Rosário Sambo; Vatúsia Quinhentos; Rui Martins; et al. "Targeting circulating labile heme as a defense strategy against malaria". Life Science Alliance (2024): https://doi.org/10.26508/lsa.202302276.
    10.26508/lsa.202302276
  2. Caramalho, Iris; Matoso, Paula; Ligeiro, Dário; Paixão, Tiago; Sobral, Daniel; Fitas, Ana Laura; Limbert, Catarina; Demengeot, Jocelyne; Penha-Gonçalves, Carlos. "The rare DRB1*04:08-DQ8 haplotype is the main HLA class II genetic driver and discriminative factor of Early-onset Type 1 diabetes in the Portuguese population". Frontiers in Immunology 14 (2024): http://dx.doi.org/10.3389/fimmu.2023.1299609.
    10.3389/fimmu.2023.1299609
  3. Wu, Qian; Sacomboio, Euclides; Valente de Souza, Lara; Martins, Rui; Kitoko, Jamil; Cardoso, Sílvia; Ademolue, Temitope W.; et al. "Renal control of life-threatening malarial anemia". Cell Reports 42 2 (2023): 112057. http://dx.doi.org/10.1016/j.celrep.2023.112057.
    10.1016/j.celrep.2023.112057
  4. Smolle, Maria Anna; Goetz, Christoph; Maurer, Dietmar; Vielgut, Ines; Novak, Michael; Zier, Gerhard; Leithner, Andreas; et al. "Artificial intelligence-based computer-aided system for knee osteoarthritis assessment increases experienced orthopaedic surgeons’ agreement rate and accuracy". Knee Surgery, Sports Traumatology, Arthroscopy 31 3 (2022): 1053-1062. http://dx.doi.org/10.1007/s00167-022-07220-y.
    10.1007/s00167-022-07220-y
  5. Velho, Tiago R.; Ferreira, Ricardo; Willmann, Katharina; Pedroso, Dora; Paixão, Tiago; Pereira, Rafael Maniés; Junqueira, Nádia; et al. "Role of Omega-6 Fatty Acid Metabolism in Cardiac Surgery Postoperative Bleeding Risk". Critical Care Explorations 4 10 (2022): e0763. http://dx.doi.org/10.1097/cce.0000000000000763.
    10.1097/cce.0000000000000763
  6. Velho, Tiago R.; Pereira, Rafael Maniés; Paixão, Tiago; Guerra, Nuno Carvalho; Ferreira, Ricardo; Corte-Real, Hugo; Nobre, Ângelo; Moita, Luís Ferreira. "Sequential Organ Failure Assessment Score in the ICU As a Predictor of Long-Term Survival After Cardiac Surgery". Critical Care Explorations 4 5 (2022): e0682. http://dx.doi.org/10.1097/cce.0000000000000682.
    10.1097/cce.0000000000000682
  7. Gomes Pereira, Sónia; Sousa, Ana Laura; Nabais, Catarina; Paixão, Tiago; Holmes, Alexander J.; Schorb, Martin; Goshima, Gohta; et al. "The 3D architecture and molecular foundations of de novo centriole assembly via bicentrioles". Current Biology 31 19 (2021): 4340-4353.e7. http://dx.doi.org/10.1016/j.cub.2021.07.063.
    Published • 10.1016/j.cub.2021.07.063
  8. Ducrée, Jens; Etzrodt, Martin; Bartling, Sönke; Walshe, Ray; Harrington, Tomás; Wittek, Neslihan; Posth, Sebastian; et al. "Unchaining Collective Intelligence for Science, Research, and Technology Development by Blockchain-Boosted Community Participation". Frontiers in Blockchain 4 (2021): http://dx.doi.org/10.3389/fbloc.2021.631648.
    10.3389/fbloc.2021.631648
  9. Paiva, Rafael A.; Sousa, António G.G.; Ramos, Camila V.; Ávila, Mariana; Lilue, Jingtao; Paixão, Tiago; Martins, Vera C.. "Self-renewal of double-negative 3 early thymocytes enables thymus autonomy but compromises the ß-selection checkpoint". Cell Reports 35 2 (2021): 108967. http://dx.doi.org/10.1016/j.celrep.2021.108967.
    10.1016/j.celrep.2021.108967
  10. Nagy-Staron, Anna; Tomasek, Kathrin; Caruso Carter, Caroline; Sonnleitner, Elisabeth; Kavcic, Bor; Paixão, Tiago; Guet, Calin C. "Local genetic context shapes the function of a gene regulatory network". eLife 10 (2021): e65993. http://dx.doi.org/10.7554/elife.65993.
    Open access • Published • 10.7554/elife.65993
  11. Paixao, T.; DiFranco, M.D.; Ljuhar, R.; Ljuhar, D.; Goetz, C.; Bertalan, Z.; Dimai, H.P.; Nehrer, S.. "A novel quantitative metric for joint space width: data from the Osteoarthritis Initiative (OAI)". Osteoarthritis and Cartilage (2020): http://dx.doi.org/10.1016/j.joca.2020.04.003.
    Published • 10.1016/j.joca.2020.04.003
  12. Paixao, T.; Ljuhar, R.; Carrino, J.A.; Goetz, C.; Nehrer, S.. "Application of machine learning for the prediction of cartilage loss: data from the osteoarthritis initiative & multicenter osteoarthritis study". Osteoarthritis and Cartilage 28 (2020): S318. http://dx.doi.org/10.1016/j.joca.2020.02.491.
    Published • 10.1016/j.joca.2020.02.491
  13. Nehrer, Stefan; Ljuhar, Richard; Steindl, Peter; Simon, Rene; Maurer, Dietmar; Ljuhar, Davul; Bertalan, Zsolt; et al. "Automated Knee Osteoarthritis Assessment Increases Physicians’ Agreement Rate and Accuracy: Data from the Osteoarthritis Initiative". CARTILAGE (2019): http://dx.doi.org/10.1177/1947603519888793.
    Published • 10.1177/1947603519888793
  14. Marta Lukacišinová; Claus O. Wilke; Sebastian Novak; Tiago Paixão. "Stress-induced mutagenesis: Stress diversity facilitates the persistence of mutator genes". PLOS Computational Biology 13 7 (2017): e1005609-e1005609. https://doi.org/10.1371%2Fjournal.pcbi.1005609.
    10.1371/journal.pcbi.1005609
  15. Mato Lagator; Tiago Paixão; Nicholas H Barton; Jonathan P Bollback; Calin C Guet. "On the mechanistic nature of epistasis in a canonical cis-regulatory element". eLife 6 (2017): https://doi.org/10.7554/eLife.25192.
    10.7554/eLife.25192
  16. Paixão T; Barton NH. "The effect of gene interactions on the long-term response to selection.". (2016): http://europepmc.org/abstract/med/27044080.
    10.1073/pnas.1518830113
  17. Perez Heredia, Jorge; Trubenova, Barbora; Sudholt, Dirk; Paixao, Tiago; Pérez Heredia J; Trubenová B; Sudholt D; Paixão T. "Selection Limits to Adaptive Walks on Correlated Landscapes.". Genetics (2016): http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=MEDLINE&KeyUT=MEDLINE:27881471&KeyUID=MEDLINE:27881471.
  18. Giacobbe, M.; Guet, C.C.; Gupta, A.; Henzinger, T.A.; Paixão, T.; Petrov, T.. "Model checking the evolution of gene regulatory networks". Acta Informatica (2016): 1-23. http://www.scopus.com/inward/record.url?eid=2-s2.0-84983499661&partnerID=MN8TOARS.
    10.1007/s00236-016-0278-x
  19. Murat Tugrul; Tiago Paixão; Nicholas H. Barton; Gašper Tkacik; Justin C. Fay. "Dynamics of Transcription Factor Binding Site Evolution". PLoS Genet 11 11 (2015): e1005639-e1005639. http://dx.doi.org/10.1371/journal.pgen.1005639.
    10.1371/journal.pgen.1005639
  20. Tiago Paixão; Golnaz Badkobeh; Nick Barton; Dogan Çörüs; Duc-Cuong Dang; Tobias Friedrich; Per Kristian Lehre; et al. "Toward a unifying framework for evolutionary processes". Journal of Theoretical Biology 383 (2015): 28-43. http://dx.doi.org/10.1016/j.jtbi.2015.07.011.
    10.1016/j.jtbi.2015.07.011
  21. N. H. Barton; S. Novak; T. Paixao. "Diverse forms of selection in evolution and computer science". Proceedings of the National Academy of Sciences 111 29 (2014): 10398-10399. http://dx.doi.org/10.1073/pnas.1410107111.
    10.1073/pnas.1410107111
  22. S. S. Phadke; T. Paixao; T. Pham; S. Pham; R. A. Zufall. "Genetic Background Alters Dominance Relationships between mat Alleles in the Ciliate Tetrahymena thermophila". Journal of Heredity 105 1 (2013): 130-135. http://dx.doi.org/10.1093/jhered/est063.
    10.1093/jhered/est063
  23. H.-A. Long; T. Paixao; R. B. R. Azevedo; R. A. Zufall. "Accumulation of Spontaneous Mutations in the Ciliate Tetrahymena thermophila". Genetics 195 2 (2013): 527-540. http://dx.doi.org/10.1534/genetics.113.153536.
    10.1534/genetics.113.153536
  24. Paixao, Tiago; Barton, Nick; Blum, C. "A Variance Decomposition Approach to the Analysis of Genetic Algorithms". Gecco'13: Proceedings of the 2013 Genetic and Evolutionary Computation Conference (2013): 845-852. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000321981300106&KeyUID=WOS:000321981300106.
  25. Barton, Nick; Paixao, Tiago; Blum, C. "Can Quantitative and Population Genetics Help us Understand Evolutionary Computation?". Gecco'13: Proceedings of the 2013 Genetic and Evolutionary Computation Conference (2013): 1573-1580. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000321981300197&KeyUID=WOS:000321981300197.
  26. Tiago Paixão; Sujal S. Phadke; Ricardo B. R. Azevedo; Rebecca A. Zufall. "SEX RATIO EVOLUTION UNDER PROBABILISTIC SEX DETERMINATION". Evolution 65 7 (2011): 2050-2060. http://dx.doi.org/10.1111/j.1558-5646.2011.01266.x.
    10.1111/j.1558-5646.2011.01266.x
  27. Tiago Paixão; Ricardo B. R. Azevedo; Philip E. Bourne. "Redundancy and the Evolution of Cis-Regulatory Element Multiplicity". PLoS Comput Biol 6 7 (2010): e1000848-e1000848. http://dx.doi.org/10.1371/journal.pcbi.1000848.
    10.1371/journal.pcbi.1000848
  28. T. F. Cooper; T. Paixao; J. A. Heinemann. "Within-host competition selects for plasmid-encoded toxin-antitoxin systems". Proceedings of the Royal Society B: Biological Sciences 277 1697 (2010): 3149-3155. http://dx.doi.org/10.1098/rspb.2010.0831.
    10.1098/rspb.2010.0831
  29. Ricardo B. R. Azevedo; Rolf Lohaus; Tiago Paixão. "Networking networks". Evolution & Development 10 5 (2008): 514-515. http://dx.doi.org/10.1111/j.1525-142x.2008.00265.x.
    10.1111/j.1525-142x.2008.00265.x
  30. Azevedo, R.B.R.; Lohaus, R.; Paixão, T.. "Networking networks". Evolution and Development 10 5 (2008): 514-515. http://www.scopus.com/inward/record.url?eid=2-s2.0-51249093403&partnerID=MN8TOARS.
    10.1111/j.1525-142X.2008.00265.x
  31. Tiago Paixão; Tiago P Carvalho; Dinis P Calado; Jorge Carneiro. "Quantitative insights into stochastic monoallelic expression of cytokine genes". Immunol Cell Biol 85 4 (2007): 315-322. http://dx.doi.org/10.1038/sj.icb.7100057.
    10.1038/sj.icb.7100057
  32. Carneiro, Jorge; Leon, Kalet; Caramalho, Iris; van den Dool, Carline; Gardner, Rui; Oliveira, Vanessa; Bergman, Marie-Louise; et al. "When three is not a crowd: a Crossregulation Model of the dynamics and repertoire selection of regulatory CD4(+) T cells". Immunological Reviews 216 1 (2007): 48-68. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000244885500005&KeyUID=WOS:000244885500005.
    10.1111/j.1600-065x.2007.00487.x
  33. Calado, Dinis Pedro; Paixao, Tiago; Holmberg, Dan; Haury, Matthias; Calado, D.P.; Paixão, T.; Holmberg, D.; et al. "Stochastic monoallelic expression of IL-10 in T cells". Journal of Immunology 177 8 (2006): 5358-5364. http://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=ORCID&SrcApp=OrcidOrg&DestLinkType=FullRecord&DestApp=WOS_CPL&KeyUT=WOS:000241093100048&KeyUID=WOS:000241093100048.
    10.4049/jimmunol.177.8.5358
  34. Jorge Carneiro; Tiago Paixão; Dejan Milutinovic; João Sousa; Kalet Leon; Rui Gardner; Jose Faro. "Immunological self-tolerance: Lessons from mathematical modeling". Journal of Computational and Applied Mathematics 184 1 (2005): 77-100. http://dx.doi.org/10.1016/j.cam.2004.10.025.
    10.1016/j.cam.2004.10.025
Preprint
  1. Qian Wu; Euclides Sacomboio; Lara Valente de Souza; Rui Martins; Sílvia Cardoso; Temitope W. Ademolue; Tiago Paixão; et al. "A Protective Inter-Organ Communication Response Against Life-Threatening Malarial Anemia". 2022. https://doi.org/10.1101/2022.01.12.475857.
    10.1101/2022.01.12.475857

Other

Other output
  1. Phenotypic architecture of sociality and its associated genetic polymorphisms in zebrafish. 2021. Claúdia Gonçalves; Kyriacos Kareklas; Magda C. Teles; Susana A. M. Varela; João Costa; Ricardo B. Leite; Tiago Paixão; Rui F. Oliveira. https://doi.org/10.1101/2021.07.29.454277.
    10.1101/2021.07.29.454277
  2. The 3D architecture and molecular foundations of de novo centriole assembly via bicentrioles. 2020. Sónia Gomes Pereira; Ana Laura Sousa; Catarina Nabais; Tiago Paixão; Alexander. J. Holmes; Martin Schorb; Gohta Goshima; et al. https://doi.org/10.1101/2020.12.21.423647.
    10.1101/2020.12.21.423647
  3. Model Checking Gene Regulatory Networks. 2015. Mirco Giacobbe; Calin C. Guet; Ashutosh Gupta; Thomas A. Henzinger; Tiago Paixão; Tatjana Petrov. http://dx.doi.org/10.1007/978-3-662-46681-0_47.
    10.1007/978-3-662-46681-0_47
  4. Emergent speciation by multiple Dobzhansky-Muller incompatibilities. 2014. Tiago Paixão; Kevin E. Bassler; Ricardo B. R. Azevedo.
    10.1101/008268
Distinctions

Other distinction

2008 Honorable Mention (3rd place) at the Reinhart Heinrich Doctoral Thesis Award