Dr. Saulo de Oliveira, Structural Bioinformatician.


  • Academic Background

  • 2011 - 2016 · D.Phil in Systems Approaches to Biomedical Sciences.
    Department of Statistics – University of Oxford.
    Thesis Title: Biologically inspired de novo protein structure prediction.

  • 2009 - 2011 · M.Sc. in Bioinformatics.
    Institute of Bioinformatics - University of Sao Paulo, Brazil.
    Thesis Title: Development of an algorithm to find and characterize cavities in specific regions of 3D protein structures.

  • 2005 - 2008 · B.Sc. in Molecular Sciences.
    University of Sao Paulo, Brazil.
    Dissertation Title: Antimalarial Drugs and Calcium Homeostasis in P. falciparum.


Research Interests: protein informatics and drug discovery.

My main research interests are protein structure and folding. In particular, I want to elucidate how biological and structural features can mediate protein folding and function. I believe that protein informatics can be used to augment our biological knowledge. In turn, biology can be a source of inspiration to improve a multitude of computational methods such as structure prediction, protein docking, and molecular dynamics. I am also interested in applying protein informatics to optimize drug discovery pipelines.



  • Work Experience

  • 2017 - Present · Department of Statistics - Oxford, United Kingdom
    Postdoctoral Researcher in Structural Bioinformatics
    Development and benchmarking of novel structural bioinformatics software with applications to protein structure prediction.

  • 2016 · UCB Pharma - Braine L'Alleud, Belgium
    Postdoctoral Research Scientist
    Benchmarked several state-of-the-art antibody modelling tools. The aim of this project was to identify an optimal strategy for producing high quality models of antibodies from sequence.

  • 2012 · InhibOx - Oxford, United Kingdom
    Cheminformatics Intern
    Developed a web-based Matched Molecular Pair (MMP) routine using Python Django and C for CUDA/GPUs.

  • 2011 · YASARA - Vienna, Austria [remotely]
    Freelance Programmer
    Initiated the implementation of a Molecular Dynamics routine for GPUs using OpenCL.

  • 2009 - 2010 · Genoa Biotechnology Inc. - Sao Paulo, Brazil
    Programming Analyst
    Implemented OpenBravo ERP software for business and laboratorial management.


Technical Skills


Programming LanguagesServer ManagementWeb Development
AdvancedC, Bash, Python, RShell Scripting, UNIX (Debian)HTML5, CSS, Bootstrap, Python Django, MVC framework
ProficientC++, Tcl/Tk, Ruby, Perl, C for CUDA, OpenCLWindows, Red HatSQL (mySQL and PostgreSQL), Ruby on Rails.
BasicProlog, Pascal, Java, SmalltalkSambaJavascript, Apache

Conferences and Events

  1. Doctoral Training Centre 4th Year Symposium. Oxford, 2015. Oral Presentation: Biologically Inspired de novo Protein Structure Prediction.
  2. 11th Conference for the Critical Assessment of protein Structure Prediction (CASP11). Playa del Carmen, 2014. Poster Presentation: SAINT2: Biologically Inspired de novo Protein Structure Prediction.
  3. UCB Pharma Studentship Day. London, 2014. Poster Presentation: SAINT2: Biologically Inspired de novo Protein Structure Prediction.
  4. Doctoral Training Centre 4th Year Symposium. Oxford, 2014. Poster Presentation: Improving Fragment Libraries for de novo (co-translational) protein structure prediction.
  5. UCB Pharma Symposium. Oxford, 2014. Poster Presentation: Improving Fragment Libraries for de novo (co-translational) protein structure prediction.
  6. 3D-Sig (ISMB satellite meeting). Berlin, 2013. Poster Presentation: Improving Fragment Libraries for de novo (co-translational) protein structure prediction.
  7. Annual Intelligent Systems for Molecular Biology (ISMB) - International Society for Computational Biology. Berlin, 2013. Poster Presentation: Improving Fragment Libraries for de novo (co-translational) protein structure prediction.
  8. UCB Pharma PhD Studentship Day. Oxford, 2013. Poster Presentation: Improving Fragment Libraries for de novo (co-translational) protein structure prediction.
  9. Academy for PhD Training in Statistics (APTS). Cambridge, 2012. Statistical Computing and Statistical Inference Courses.
  10. Workshop: CUDA Programming on NVIDIA GPUs. e-infrastructure South Consortium, University of Oxford, 2012.
  11. Second Bioinformatics Workshop at University of São Paulo, 2010. Oral Presentation.
  12. Bioinformatics Summer Course at University of São Paulo, 2009. Oral Presentation.
  13. XVI International Symposium of Scietific Initiation of University of Sao Paulo (SIICUSP). Sao Paulo, 2008.
  14. ACM Programming Contest National Stage. Vila Velha, 2008. Team [CCM-USP].
  15. ACM Programming Contest Regional Stage. Sao Paulo, 2008. Team [CCM-USP].
  16. 5th Winter School of the Institute of Biosciences (IB-USP). Sao Paulo, 2008. Oral Presentation.
  17. Advanced Workshop in Cellular Biology of Pathogens, 3rd Edition. Salvador, 2007.

Prizes and Awards

  1. Best Poster at the 11th Conference for the Critical Assessment of protein Structure Prediction (CASP11) - 2014.
  2. Second Best Poster Award at the UCB Pharma PhD Studentship Day - 2014.
  3. Santander Scholarship Award for Academic Excellence - 2012.
  4. Best Presentation Award at the Second Bioinformatics Workshop at University of Sao Paulo - 2010.
  5. Honor Poster Award at the XVI International Symposium of Scientific Initiation of the Universty of Sao Paulo - 2008.
  6. Scientific Initiation Scholarship from CNPq (Conselho Nacional de auxilio a Pesquisa) - 2008/2009.

Other Activities

  • 2012 - Present · Webmaster and Server Maintenance Liaison for the Oxford Protein Informatics Group, University of Oxford, UK.
  • 2011 - 2012 · Middle Common Room Social Secretary - Pembroke College, University of Oxford, UK.
  • 2009 - 2011 · Server Liaison at the Bioinformatics Group - Laboratory of Genetics and Molecular Cardiology of the Heart Institute (INCOR), Sao Paulo.
  • 2005 - 2008 · Student Representative for the Molecular Sciences Program - University of Sao Paulo.
  • 2006 - 2008 · IT Manager for the Molecular Sciences Program - University of Sao Paulo.

Contact Information