Although always open to new opportunities, the academic life fascinates me. Facing challenges every day, elaborating answers to find more questions, learning, teaching, collaborating. In especial, the quest to understand the molecular mechanisms of life guides my thoughts. My favorite approach to pursue this quest is to map the networks of reactions that underlie biological processes and try to simulate them on computers.
Outside the academy, I’m a passionate mountaineer. Being in touch with nature recharge my batteries and clean my mind. The route to the summit teaches me things that books can not, and when I reach there, I can see how big and small we are at the same time.
Name:Paulo E. P. Burke
Phone:+55 11 99773 1987
Address:São Carlos, São Paulo, Brazil
My research currently focuses on the development of simulation methods for complex biochemical systems such as models of integrated cellular processes. I'm also interested in the modeling and analysis of biological networks, and network science in general.
Burke, Paulo E. P.; Costa, Luciano da F. ; Interdisciplinary Relationships Between Biological and Physical Sciences. , arXiv, 2019.
Burke, Paulo E. P.; Comin, Cesar Henrique ; Nascimento, Filipi ; Costa, Luciano da F. . Biological Networks Border Detection. Integrative Biology, v. 9, p. 947-955, 2017.
Burke, Paulo E. P.; Campos, Claudia B. de L.; Quiles, Marcos G. . Whole-Cell Representation Using Complex Networks. Master's Dissertation, Federal University of São Paulo, 2016.
Waltemath, Dagmar; Karr, Jonathan; Bergmann, Frank; Chelliah, Vijayalakshmi; Hucka, Michael; Krantz, Marcus; Liebermeister, Wolfram; Mendes, Pedro; Myers, Chris; Pir, Pinar; Alaybeyoglu, Begum; Aranganathan, Naveen; Baghalian, Kambiz; Bittig, Arne; Burke, Paulo; Cantarelli, Matteo; et al. ; Toward community standards and software for whole-cell modeling. IEEE Transactions on Biomedical Engineering (Print), v. PP, p. 1-1, 2016.
Carvalho, Luiz M. F. ; Santos, Leonardo B. L. ; Burke, Paulo E. P. ; Quiles, Marcos ; Silveira, Waldemir de C. . A geographically-aware complex network approach for foot-and-mouth disease phylodynamics. 6th International Conference on Nonlinear Science and Complexity, 2016.
Burke, Paulo E. P.; Pereira, Alisson R. ; Santos, Denilson P. S. dos . Modularity and Computational Performance of Genetic Algorithms. Brazilian Conference on Dynamics, Control and Applications, p. 266, 2011.
Awarded by ISCB with the covering of traveling expenses to attend the Intelligent Systems for Molecular Biology and the European Conference on Computational Biology 2019.
Awarded with "Best Presentation Award" in the Graduate Program on Bioinformatics' Workshop 2019 held at USP, São Paulo, Brazil.
Selected to continue working on the Whole-Cell model started in the first edition in March of the same year at the University of Utah, Salt Lake City, USA.
Granted with full expenses cover to participate on the implementation of a Whole-Cell model using Systems Biology standards such as SBML. Member of the team which performed the integration of the model's subsystems. The event was held at University of Rostock, Rostock, Germany.
Member of the winning team of the regional phase of the SBPC Programming Marathon. Classified for the national contest.
Currently, I’m a Ph.D. student at the University of São Paulo under the supervision of Professor Luciano da Fontoura Costa.
Degree achieved under the supervision of Professor Marcos G. Quiles and Prof. Claudia B. L. Campos. The dissertation is entitled "Whole-Cell Representation Using Complex Networks".
Three-year Interdisciplinary Bachelor at the Federal University of São Paulo concluded with one semester in advance. My final global score of 8.4/10 which made me the 4º student of 200 of my class. The interdisciplinary character of the course gave me good abilities in both physical and biological areas.
Worked on the development of a Complex Network Visualization Tool under the supervision of Professor Marcos G. Quiles at the Federal University of São Paulo.
Computational screening of inhibitors for CRISPR using Molecular Dynamics under the supervision of Professor Martin Wurtelle at the Federal University of São Paulo.
Heterogeneous protein expression and structural characterization of the CRISPR system from thermophilic organisms under the supervision of Professor Martin Wurtelle at the Federal University of São Paulo.
Atmospheric re-entrance of debris simulation under the supervision of Marcelo Lopes at the National Institute of Space Research.
Started Computer Engineering course at ETEP but changed for a better University with more opportunities in science.
Web Design technical course at ETEP.
Development of educational media for engineering courses at ETEP.
Production of graphic content and web developer at Amprimart.