Computational Biology and Bioinformatics
CoBRA is one of several special interest groups formed by members of the Algorithms and Complexity Laboratory whose focus is on research about algorithmics in computational biology and bioinformatics. CoBRA's active research areas include data mining and visualization of genetics and genomics data, bioinformatics algorithms, algorithms for systems biology, and parallelization in general purpose computation GPGPU using CUDA platform. In cooperation with the International Rice Research Institute - T.T. Chang Genetic Resources Center and the Philippine Genome Center - Core Facility for Bioinformatics, CoBRA is also involved in developing algorithmic methods for rice informatics. Members of the group also dabble in biological systems modeling using discrete models and structures, as well as application of natural computing models to simulate and analyze biological processes.
Regular Members
Professor, Lab Head
Email: hnadorna@dcs.upd.edu.ph
Research Expertise
Formal Models and Automata Theory
Algorithmics for Hard Problems
Computational Complexity
Natural Computing
Email: fccabarle@gmail.com
Research Expertise
Natural Computing
Parallel Algorithms
Computational Complexities
Assistant Professor
Email: jcyap@dcs.upd.edu.ph
Research Expertise
Computational (Systems) Biology
Rice Informatics
Data Mining
Process Algebra
Graduate Researchers
Darrwin Dearest Austria
M.S. Computer Science Student
Email: darrwinaustria@gmail.com
Research Expertise
Bioinformatics
Gene Co-Expression Analysis
Graph Theory
Ph.D. Candidate
Email: jhoiclemente@gmail.com, jbclemente@up.edu.ph
Research Expertise
Bioinformatics
Data Mining
Information Visualization
Parallel Algorithms
John Erol Evangelista
M.S. Computer Science Student
Email: jmevangelista@up.edu.ph
Research Expertise
Bioinformatics
Parallel Algorithms
Research Collaborators
Arturo Lluisma, Ph.D.
Core Facility for Bioinformatics
Philippine Genome Center
University of the Philippines
Ramil Mauleon, Ph.D.
T.T. Chang Genetic Resources Center
International Rice Research Institute
Raissa Relator
Institute of Mathematics
University of the Philippines Diliman
Graduate Alumni
Julie Ann Salido
M.S. Computer Science
Email: julieannsalido2@gmail.com
Research Expertise
Bioinformatics
Data Mining
Information Visualization
Scheduling Algorithms
Gerard Cabunducan
M.S. Computer Science
Email:gertics@gmail.com
Research Expertise
Pattern Matching
Data Mining and Visualization
Bioinformatics
Optimizations
Numerical Methods
Undergraduate Alumni
Darrwin Dearest Austria (AY 2014-2015)
Topic: Graph Theoretic Analysis of Gene Coexpression Networks
Corina Belenzo (AY 2014-2015)
Topic: Algorithms for Genomic Syntenic Distance
Carmelyne Salve Corpuz (AY 2014-2015)
Topic: Algorithms for Genomic Syntenic Distance
Grace Magno (AY 2014-2015)
Topic: Algorithmics for De-Bruijn Graph Construction in the SOAPDenovo2 Assembler
Lovely Santos (AY 2014-2015)
Topic: Algorithmics for De-Bruijn Graph Construction in the SOAPDenovo2 Assembler
Rovie Jerahmeel Doculan (AY 2013-2014)
Topic: Gene Co-expression Network Analysis of Rice Salt Tolerance
Rhosty Kit Maninit (AY 2013-2014)
Topic: Comparative Analysis of Biological Networks
Teresa Mari Mendez (AY 2013-2014)
Topic: Comparative Analysis of Biological Networks
Maria Rubylisa Santos (AY 2013-2014)
Topic: Gene Co-expression Network Analysis of Rice Salt Tolerance
Michael Kevin Calaranan (AY 2012-2013)
Topic: Data Preprocessing for Quantitative Trait Loci Mapping
Emery Dela Cruz (AY 2012-2013)
Topic: Parallel Algorithms for Gene Cluster Discovery Problem
Jet Lawrence Doctor (AY 2012-2013)
Topic: Data Preprocessing for Quantitative Trait Loci Mapping
John Philip Dorado (AY 2012-2013)
Topic: Gene Expression Modeling for Rice Salt Tolerance
John Erol Evangelista (AY 2012-2013)
Topic: Parallel Hashing on GPUs for Projection Algorithm
Arianne Francesca Libunao (AY 2012-2013)
Topic: Gene Expression Modeling for Rice Salt Tolerance
Nerissa Monica Tacata (AY 2012-2013)
Topic: Parallel Algorithms for Gene Cluster Discovery Problem
Jayvee Pascual (AY 2011-2012)
Topic: Parallel Algorithms for Motif Finding
Jan Frederic Bernabe (AY 2008-2009)
Topic: Algorithmics for Linear Model-Based Quantitative Trait Loci Mapping
Anna Katrina Michiko Ilano (AY 2008-2009)
Topic: Algorithmics for Linear Model-Based Quantitative Trait Loci Mapping
Stephanie Catabui (AY 2007-2008)
Topic: Pi-Calculus Model for Receptor-Mediated Apoptosis
Elaine Joy Coloma (AY 2007-2008)
Topic: Pi-Calculus Model for Receptor-Mediated Apoptosis
Irene Dare (AY 2007-2008)
Topic: Pi-Calculus Model for Receptor-Mediated Apoptosis