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  • Research Interests

    My research interests are mainly linked with Bioinformatics and Computational Biology.

    My past research includes works related to Strucutural Bioinformatics, Trimming Procedures for EST sequencing projects and study of Genome Rearrangement Problems.

    Currently, I am involved on the study of methods for detecting genomic rearrangement breakpoints, cophylogeny reconciliation and theoretical computer science problems related to distance between pairs of trees: rSPR (rooted Subtree Prune and Regraft) distance and its closely related problem MAF (Maximum Agreement Forest).

    Here you can access my Curriculum Vitae (full version in english or short version in french)

  • Background

    In December 2003, I received my Engineer degree in Computer Engineering from the University of Campinas (Unicamp).

    During my studies, from January 2002 to June 2003, I had the opportunity of working as programmer at the Computational Biology Research Group located at Embrapa Informática Agropecuária. In this group, I actively participated on the implementation of several softwares, for visualization of protein parameters, which form the suite STING.

    In July 2003, I was recruited as Analyst Developer at Scylla Bioinformatics, one of the first private companies strictly linked to the Bioinformatics area
    in Brazil. Working with all aspects of the development cycle (analysis of user requirements, design of system and database, code implementation, test, documentation and maintenance) I was responsible for the development of systems for:

    - EST Sequecing Project Management
    - Whole Genome Sequecing Project Management
    - Marker Assisted Selection System

    My contract with Scylla Bioinformatics ended in January 2009.

    In 2004, I joined the Computer Science Master program of the Institute of Computing at the University of Campinas. My master dissertation involved the EST trimming procedure developed at Scylla Bioinformatics for the EST Sequencing Project Management system. In December 2006, I presented my dissertation before a jury to obtain my Master Degree.

    In 2006, I joined the Computer Science PhD program in the same
    institute. The research developed during my thesis involved two genome rearrangement problems:

    - Enumeration of Traces for the Sorting by Signed Reversals Problem
    - Detection of genomic rearrangement breakpoints.

    Part of this work was developed during a PhD Sandwich program, which was funded by the Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES), a Brazilian governmental institution. The program started in March 2009 and ended in May 2010 and took place at the UMR CNRS 5558 Laboratoire de Biométrie et Biologie Évolutive (LBBE) with the Baobab-Bamboo team, a CNRS-INRIA-UCBL team.

    To obtain my PhD degree, I presented my thesis before a jury in December 2010.

    After obtaining my PhD degree, I rejoined the Baobab-Bamboo team in a Post-doc position that started at January 2011. Since then, I’m working with three main topics:

    - Detection of genome rearrangement breakpoints
    - Algorithms for cophylogeny reconciliation
    - Phylogenetic tree distances