Dr. Matt Berriman
The Wellcome Trust Sanger Institute [1]
Prof. David Roos
University of Pennsylvania [2]
Prof. Deborah Smith
University of York [3]
Dr. Mark Carrington
University of Cambridge [4]
Who's Who at GeneDB
Grant holders
Curators
Leishmania species:
Dr. Matt Rogers
University of York, The Wellcome Trust Sanger Institute
Matt obtained his Ph.D. in Botany from the University of British Columbia in 2006 in Prof. Patrick Keeling's lab. He then relocated to the UK where he joined Dr. Mark van der Giezen as a Wellcome Trust post-doctoral fellow at Queen Mary, University of London and the University of Exeter. His work at the WTSI has focused on functional annotation of Leishmania genomes and assembly and annotation of the Leishmania mexicana genome. He is also interested in evolutionary protistology, gene family evolution, lateral gene transfer, and strong coffee.
Trypanosoma species:
Dr. Flora Logan-Klumpler
University of Cambridge, The Wellcome Trust Sanger Institute
Flora completed her Ph.D. in trypanosome vitamin C biosynthesis in Prof. John Kelly's group at the London School of Hygiene and Tropical Medicine in 2008. She then moved to the University of Georgia, Athens to work on Trypanosoma cruzi fatty acid metabolism, and T. cruzi specific ontology development in the Tarleton Research Group. She is now working on the curation and functional annotation of the Trypanosoma brucei genome and the development of a new phenotype curation tool utilising new and existing ontologies at WTSI. She is also involved in the Trypanocyc community annotation project.
Plasmodium species:
Dr. Ulrike Böhme
The Wellcome Trust Sanger Institute
Ulrike is curating and reannotating the Plasmodium falciparum genome database at WTSI, and has been involved in the analysis of a diverse collection of eukaryotic pathogens, including Toxoplasma gondii , Plasmodium knowlesi , and Plasmodium chabaudi .
Developers
Dr. Giles Velarde
University of Cambridge, University of York, The Wellcome Trust Sanger Institute
Giles trained originally as a biochemist at Manchester University, but over the course of his Ph.D. at UMIST, moved into bioinformatics and software engineering. Following his doctoral studies, he worked at the Sequence Analysis Group at Manchester Bioinformatics, followed by six years as part of the Bioanalytical Sciences Group at the Manchester Interdisciplinary Biocentre. As part of the WTSI Pathogen Genomics informatics team, he is focusing on the devlopment of new tools for GeneDB.
Dr. Jacqueline McQuillan
The Wellcome Trust Sanger Institute
Dr. Tina Eyre
The Wellcome Trust Sanger Institute
Dr. Nishadi De Silva
The Wellcome Trust Sanger Institute
Nishadi completed her PhD in Computer Science at the University of Southampton. After two years of postdoctoral research in the Dependable Systems and Software Engineering group at the University of Southampton, she joined the Wellcome Trust Sanger Institute in April 2009 where she works in the Pathogen Genomics Informatics team.
Dr. Tim Carver
The Wellcome Trust Sanger Institute
Martin Aslett
The Wellcome Trust Sanger Institute
Martin trained originally as a zoologist at Leeds University, moving into Bioinformatics via a Masters degree at York University. Following this, he worked for 2 years in the Department of Pathology at the University of Cambridge before a spell as a visiting worker (employed by Edinburgh University) at the European Bioinformatics Institute. Martin then moved across the Wellcome Trust Genome Campus to the WTSI Pathogen Genomics informatics team, where he currently has a role providing informatics support to the wider Pathogen Genomics group.
Past contributors
Dr. Christiane Hertz-Fowler
University of Liverpool
Dr. Christopher Peacock
University of Western Australia
Dr. Valerie Wood
University of Cambridge
Dr. Gary Dillon
Dr. Adrian Tivey
The Wellcome Trust Sanger Institute
Larry Oke
Dr. Robin Houston
Raeece Naeem
The Wellcome Trust Sanger Institute
Raeece is a computer science engineering graduate from India, and had worked for several commercial software development companies like TATA consultancy services. He moved to the Pathogens group in May 2009. Raeece plans to start his role as a Research engineer at the computational bioscience research center at KAUST Saudi Arabia in March 2011.
Kim Rutherford
University of Cambridge
Chinmay Patel
About GeneDB
The GeneDB project is a core part of the Sanger Institute's Pathogen Genomics activities. Its primary goals are:
» to provide reliable access to the latest sequence data and annotation/curation for the whole range of organisms sequenced by the Pathogen group.
» to develop the website and other tools to aid the community in accessing and obtaining the maximum value from these data.
GeneDB currently provides access to more than 40 genomes, at various stages of completion, from early access to partial genomes with automatic annotation through to complete genomes with extensive manual curation.