Publications

* Data Parallelism in Bioinformatics Workflows Using Hydra [http://salsahpc.indiana.edu/ECMLS2010/program.html SALSA workshop]

* G-orthomcl: grid-based OrthoMCL for the identification of orthologous genes [http://lgmb.fmrp.usp.br/xmeeting2009/abstractbook/pages/182.pdf X-meeting 2009]

* ARPA: Automatic reconstruction of phylogenomic analysis [http://lgmb.fmrp.usp.br/xmeeting2009/abstractbook/pages/259.pdf X-meeting 2009]

* Exploring PKS domains diversity present in environmental database using hmm profiles [http://lgmb.fmrp.usp.br/xmeeting2009/abstractbook/pages/231.pdf X-meeting 2009]

* Preliminar study and mining of chitinases in environmental metagenome [http://lgmb.fmrp.usp.br/xmeeting2009/abstractbook/pages/251.pdf X-meetig 2009]

* An integrated system for the genotyping of parasitic protozoan based on universal orthologous genes [http://lgmb.fmrp.usp.br/xmeeting2009/abstractbook/pages/255.pdf X-meeting 2009]

* Faceweb: a platform to support the execution and monitoring of workflows on the web [http://lgmb.fmrp.usp.br/xmeeting2009/abstractbook/pages/265.pdf X-meeting 2009]

* ProtozoaDB: Towards a Knowledgebase Approach for a Systems Biology Database. [http://www.icsb-2009.org/schedule_details.php?ID=275 The 10th International Conference on Systems Biology, Stanford, CA, 2009]

* Detecting Distant Homologies on Protozoans metabolic pathways using scientific workflows. International Journal of Data Mining and Bioinformatics, 2009. [http://www.ncbi.nlm.nih.gov/pubmed/20681479 Int J Data Min Bioinform. 2010;4(3):256-80]

* Transcriptome analysis of Taenia solium cysticerci using Open Reading Frame ESTs (ORESTES). Parasit Vectors. 2009 Jul 31;2(1):35. [http://www.ncbi.nlm.nih.gov/pubmed/19646239 PubMed]

* EST sequencing of blood-fed and Leishmania-infected midgut of Lutzomyia longipalpis, the principal visceral leishmaniasis vector in the Americas. Mol Genet Genomics. 2009 Sep;282(3):307-17. [http://www.ncbi.nlm.nih.gov/pubmed/19565270 PubMed]

* OrthoSearch: a scientific workflow approach to detect distant homologies on protozoans – [http://portal.acm.org/citation.cfm?id=1363983 ACM/SAC08 ACM/SAC08 ]

* ProtozoaDB: dynamic visualization and exploration of protozoan genomes. Nucleic Acids Res. 2008 Jan;36(Database issue):D547-52. [http://www.ncbi.nlm.nih.gov/pubmed/17981844 PubMed]

* Improving model construction of profile HMMs for remote homology detection through structural alignment. BMC Bioinformatics. 2007 Nov 9;8:435. [http://www.ncbi.nlm.nih.gov/pubmed/17999748 PubMed ]

* Comparative genomics to uncover the secrets of tsetse and livestock-infective trypanosomes. Trends Parasitol. 2003, 19(10):436-9. [http://www.ncbi.nlm.nih.gov/pubmed/14519579 PubMed]

* Bioinformatics in developing countries: how many tools are needed? 7th Internet World Congress for Biomedical Sciences, INABIS 2002

* Response to Hertz-Fowler and Berriman: Continuing tsetse and Trypanosoma genome sequencing projects

* Trypanosoma rangeli Transcriptome Project: Generation and analysis of expressed sequence tags. Kinetoplastid Biol Dis. 2004; 3(1):1. [http://www.ncbi.nlm.nih.gov/pubmed/15142279 PubMed]

* Report of a consultation on prioritites and strategies for analysis and exploitation of the genomes of Trypanosoma vivax, T. congolense and tse-tse

* Tropical diseases, pathogens, and vectors biodiversity in developing countries: need for development of genomics and bioinformatics approaches. Ann N Y Acad Sci. 2004, 1026:41-6. [http://www.ncbi.nlm.nih.gov/pubmed/15604468 PubMed]

* Exploring the genome of Trypanosoma vivax through GSS and in silico comparative analysis. OMICS. 2005 Spring;9(1):116-28. [http://www.ncbi.nlm.nih.gov/pubmed/15805782 PubMed]]

* GARSA: genomic analysis resources for sequence annotation. Bioinformatics. 2005 Dec 1;21(23):4302-3. Epub 2005 Oct 6. [http://www.ncbi.nlm.nih.gov/pubmed/16210424 PubMed]

* An Agent-oriented Notification System for Sequence (Re) Annotation in Genomic Databases. WTDBD. 2005. [http://www.sbbd-sbes2005.ufu.br/arquivos/9939.pdf WTDBD2005]

* Intermediate Data Management for In-Silico Workflows Using Web Services. WTDBD. 2005. [http://www.sbbd-sbes2005.ufu.br/arquivos/9940.pdf WTDBD2005]

* Managing Annotation Notification and Scientific Workflow Execution in Genomic Databases. IWGD. 2005. [http://www.biowebdb.org/iwgd/2005/posters/annotation-identification-almeida-cavalcanti.pdf IWGD2005]