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Nucleic Acids Research Advance Access published online on October 20, 2009
Nucleic Acids Research, doi:10.1093/nar/gkp851
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© The Author(s) 2009. Published by Oxford University Press.
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Database Issue

TriTrypDB: a functional genomic resource for the Trypanosomatidae

Martin Aslett1, Cristina Aurrecoechea2, Matthew Berriman1, John Brestelli3, Brian P. Brunk3, Mark Carrington4, Daniel P. Depledge1, Steve Fischer3, Bindu Gajria3, Xin Gao3, Malcolm J. Gardner5,6, Alan Gingle7, Greg Grant3, Omar S. Harb3,*, Mark Heiges2, Christiane Hertz-Fowler1,*, Robin Houston1, Frank Innamorato3, John Iodice3, Jessica C. Kissinger2,8, Eileen Kraemer9, Wei Li3, Flora J. Logan1, John A. Miller9, Siddhartha Mitra5, Peter J. Myler5,6,10, Vishal Nayak3, Cary Pennington2, Isabelle Phan5, Deborah F. Pinney3, Gowthaman Ramasamy5, Matthew B. Rogers1, David S. Roos11, Chris Ross2, Dhileep Sivam5, Deborah F. Smith12, Ganesh Srinivasamoorthy2, Christian J. Stoeckert, Jr3, Sandhya Subramanian5, Ryan Thibodeau2, Adrian Tivey1, Charles Treatman3, Giles Velarde1 and Haiming Wang2

1Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridgeshire CB10 1SA, UK, 2Center for Tropical and Emerging Global Diseases, University of Georgia, Athens, GA 30602, 3Penn Center for Bioinformatics, University of Pennsylvania, Philadelphia, PA 19104 USA, 4Department of Biochemistry, University of Cambridge, Cambridge CB2 1GA, UK, 5Seattle Biomedical Research Institute, Seattle, WA 98109, 6Department of Global Health, University of Washington, Seattle, WA 98195, 7Center for Applied Genetic Technologies, 8Department of Genetics, 9Department of Computer Science, University of Georgia, Athens, GA 30602, 10Department of Medical Education and Biomedical Informatics, University of Washington, Seattle, WA 98195, 11Department of Biology, University of Pennsylvania, Philadelphia, PA 19104 USA and 12Centre for Immunology and Infection, Department of Biology, University of York, Heslington, York YO10 5YW, UK

*To whom correspondence should be addressed. Tel: +1 215 746 7019; Fax: +1 215 573 3111; Email: oharb{at}pcbi.upenn.edu Correspondence may also be addressed to Christiane Hertz-Fowler. Tel: +44 (0)1223 834244; Fax: +44 (0)1223 494919; Email: chf{at}sanger.ac.uk

Received August 15, 2009. Accepted September 23, 2009.

TriTrypDB (http://tritrypdb.org) is an integrated database providing access to genome-scale datasets for kinetoplastid parasites, and supporting a variety of complex queries driven by research and development needs. TriTrypDB is a collaborative project, utilizing the GUS/WDK computational infrastructure developed by the Eukaryotic Pathogen Bioinformatics Resource Center (EuPathDB.org) to integrate genome annotation and analyses from GeneDB and elsewhere with a wide variety of functional genomics datasets made available by members of the global research community, often pre-publication. Currently, TriTrypDB integrates datasets from Leishmania braziliensis, L. infantum, L. major, L. tarentolae, Trypanosoma brucei and T. cruzi. Users may examine individual genes or chromosomal spans in their genomic context, including syntenic alignments with other kinetoplastid organisms. Data within TriTrypDB can be interrogated utilizing a sophisticated search strategy system that enables a user to construct complex queries combining multiple data types. All search strategies are stored, allowing future access and integrated searches. ‘User Comments’ may be added to any gene page, enhancing available annotation; such comments become immediately searchable via the text search, and are forwarded to curators for incorporation into the reference annotation when appropriate.


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