Literature DB >> 20363364

A set of ontologies to drive tools for the control of vector-borne diseases.

Pantelis Topalis1, Emmanuel Dialynas, Elvira Mitraka, Elena Deligianni, Inga Siden-Kiamos, Christos Louis.   

Abstract

We are developing a set of ontologies dealing with vector-borne diseases as well as the arthropod vectors that transmit them. After building ontologies for mosquito and tick anatomy we continued this project with an ontology of insecticide resistance followed by a series of ontologies that describe malaria as well as physiological processes of mosquitoes that are relevant to, and involved in, disease transmission. These will later be expanded to encompass other vector-borne diseases as well as non-mosquito vectors. The aim of the whole undertaking, which is worked out in the frame of the international IDO (Infectious Disease Ontology) project, is to provide the community with a set of ontological tools that can be used both in the development of specific databases and, most importantly, in the construction of decision support systems (DSS) to control these diseases.
Copyright © 2010 Elsevier Inc. All rights reserved.

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Year:  2010        PMID: 20363364      PMCID: PMC2953594          DOI: 10.1016/j.jbi.2010.03.012

Source DB:  PubMed          Journal:  J Biomed Inform        ISSN: 1532-0464            Impact factor:   6.317


  34 in total

1.  The Gene Ontology (GO) database and informatics resource.

Authors:  M A Harris; J Clark; A Ireland; J Lomax; M Ashburner; R Foulger; K Eilbeck; S Lewis; B Marshall; C Mungall; J Richter; G M Rubin; J A Blake; C Bult; M Dolan; H Drabkin; J T Eppig; D P Hill; L Ni; M Ringwald; R Balakrishnan; J M Cherry; K R Christie; M C Costanzo; S S Dwight; S Engel; D G Fisk; J E Hirschman; E L Hong; R S Nash; A Sethuraman; C L Theesfeld; D Botstein; K Dolinski; B Feierbach; T Berardini; S Mundodi; S Y Rhee; R Apweiler; D Barrell; E Camon; E Dimmer; V Lee; R Chisholm; P Gaudet; W Kibbe; R Kishore; E M Schwarz; P Sternberg; M Gwinn; L Hannick; J Wortman; M Berriman; V Wood; N de la Cruz; P Tonellato; P Jaiswal; T Seigfried; R White
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

2.  Formal ontology for natural language processing and the integration of biomedical databases.

Authors:  Jonathan Simon; Mariana Dos Santos; James Fielding; Barry Smith
Journal:  Int J Med Inform       Date:  2005-09-08       Impact factor: 4.046

Review 3.  Tick, fly, and mosquito control--lessons from the past, solutions for the future.

Authors:  R J Peter; P Van den Bossche; B L Penzhorn; B Sharp
Journal:  Vet Parasitol       Date:  2005-09-30       Impact factor: 2.738

4.  DDT: a polluted debate in malaria control.

Authors:  Allan Schapira
Journal:  Lancet       Date:  2006-12-16       Impact factor: 79.321

Review 5.  Control to elimination: implications for malaria research.

Authors:  Brian M Greenwood
Journal:  Trends Parasitol       Date:  2008-08-27

Review 6.  Insecticide-treated nets.

Authors:  Jenny Hill; Jo Lines; Mark Rowland
Journal:  Adv Parasitol       Date:  2006       Impact factor: 3.870

7.  The genome sequence of the malaria mosquito Anopheles gambiae.

Authors:  Robert A Holt; G Mani Subramanian; Aaron Halpern; Granger G Sutton; Rosane Charlab; Deborah R Nusskern; Patrick Wincker; Andrew G Clark; José M C Ribeiro; Ron Wides; Steven L Salzberg; Brendan Loftus; Mark Yandell; William H Majoros; Douglas B Rusch; Zhongwu Lai; Cheryl L Kraft; Josep F Abril; Veronique Anthouard; Peter Arensburger; Peter W Atkinson; Holly Baden; Veronique de Berardinis; Danita Baldwin; Vladimir Benes; Jim Biedler; Claudia Blass; Randall Bolanos; Didier Boscus; Mary Barnstead; Shuang Cai; Angela Center; Kabir Chaturverdi; George K Christophides; Mathew A Chrystal; Michele Clamp; Anibal Cravchik; Val Curwen; Ali Dana; Art Delcher; Ian Dew; Cheryl A Evans; Michael Flanigan; Anne Grundschober-Freimoser; Lisa Friedli; Zhiping Gu; Ping Guan; Roderic Guigo; Maureen E Hillenmeyer; Susanne L Hladun; James R Hogan; Young S Hong; Jeffrey Hoover; Olivier Jaillon; Zhaoxi Ke; Chinnappa Kodira; Elena Kokoza; Anastasios Koutsos; Ivica Letunic; Alex Levitsky; Yong Liang; Jhy-Jhu Lin; Neil F Lobo; John R Lopez; Joel A Malek; Tina C McIntosh; Stephan Meister; Jason Miller; Clark Mobarry; Emmanuel Mongin; Sean D Murphy; David A O'Brochta; Cynthia Pfannkoch; Rong Qi; Megan A Regier; Karin Remington; Hongguang Shao; Maria V Sharakhova; Cynthia D Sitter; Jyoti Shetty; Thomas J Smith; Renee Strong; Jingtao Sun; Dana Thomasova; Lucas Q Ton; Pantelis Topalis; Zhijian Tu; Maria F Unger; Brian Walenz; Aihui Wang; Jian Wang; Mei Wang; Xuelan Wang; Kerry J Woodford; Jennifer R Wortman; Martin Wu; Alison Yao; Evgeny M Zdobnov; Hongyu Zhang; Qi Zhao; Shaying Zhao; Shiaoping C Zhu; Igor Zhimulev; Mario Coluzzi; Alessandra della Torre; Charles W Roth; Christos Louis; Francis Kalush; Richard J Mural; Eugene W Myers; Mark D Adams; Hamilton O Smith; Samuel Broder; Malcolm J Gardner; Claire M Fraser; Ewan Birney; Peer Bork; Paul T Brey; J Craig Venter; Jean Weissenbach; Fotis C Kafatos; Frank H Collins; Stephen L Hoffman
Journal:  Science       Date:  2002-10-04       Impact factor: 47.728

Review 8.  Yellow fever vaccine: past, present and future.

Authors:  Anna H Roukens; Leo G Visser
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9.  FlyBase: enhancing Drosophila Gene Ontology annotations.

Authors:  Susan Tweedie; Michael Ashburner; Kathleen Falls; Paul Leyland; Peter McQuilton; Steven Marygold; Gillian Millburn; David Osumi-Sutherland; Andrew Schroeder; Ruth Seal; Haiyan Zhang
Journal:  Nucleic Acids Res       Date:  2008-10-23       Impact factor: 16.971

10.  VectorBase: a data resource for invertebrate vector genomics.

Authors:  Daniel Lawson; Peter Arensburger; Peter Atkinson; Nora J Besansky; Robert V Bruggner; Ryan Butler; Kathryn S Campbell; George K Christophides; Scott Christley; Emmanuel Dialynas; Martin Hammond; Catherine A Hill; Nathan Konopinski; Neil F Lobo; Robert M MacCallum; Greg Madey; Karine Megy; Jason Meyer; Seth Redmond; David W Severson; Eric O Stinson; Pantelis Topalis; Ewan Birney; William M Gelbart; Fotis C Kafatos; Christos Louis; Frank H Collins
Journal:  Nucleic Acids Res       Date:  2008-11-21       Impact factor: 16.971

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  14 in total

1.  Ontological realism: A methodology for coordinated evolution of scientific ontologies.

Authors:  Barry Smith; Werner Ceusters
Journal:  Appl Ontol       Date:  2010-11-15       Impact factor: 1.115

2.  A common layer of interoperability for biomedical ontologies based on OWL EL.

Authors:  Robert Hoehndorf; Michel Dumontier; Anika Oellrich; Sarala Wimalaratne; Dietrich Rebholz-Schuhmann; Paul Schofield; Georgios V Gkoutos
Journal:  Bioinformatics       Date:  2011-02-21       Impact factor: 6.937

3.  Ontologies for clinical and translational research: Introduction.

Authors:  Barry Smith; Richard H Scheuermann
Journal:  J Biomed Inform       Date:  2011-01-15       Impact factor: 6.317

4.  Ontology for vector surveillance and management.

Authors:  Saul Lozano-Fuentes; Aritra Bandyopadhyay; Lindsay G Cowell; Albert Goldfain; Lars Eisen
Journal:  J Med Entomol       Date:  2013-01       Impact factor: 2.278

5.  Relations as patterns: bridging the gap between OBO and OWL.

Authors:  Robert Hoehndorf; Anika Oellrich; Michel Dumontier; Janet Kelso; Dietrich Rebholz-Schuhmann; Heinrich Herre
Journal:  BMC Bioinformatics       Date:  2010-08-31       Impact factor: 3.169

6.  IDOMAL: an ontology for malaria.

Authors:  Pantelis Topalis; Elvira Mitraka; Ioana Bujila; Elena Deligianni; Emmanuel Dialynas; Inga Siden-Kiamos; Marita Troye-Blomberg; Christos Louis
Journal:  Malar J       Date:  2010-08-10       Impact factor: 2.979

7.  Ontology patterns for tabular representations of biomedical knowledge on neglected tropical diseases.

Authors:  Filipe Santana; Daniel Schober; Zulma Medeiros; Fred Freitas; Stefan Schulz
Journal:  Bioinformatics       Date:  2011-07-01       Impact factor: 6.937

8.  Describing the breakbone fever: IDODEN, an ontology for dengue fever.

Authors:  Elvira Mitraka; Pantelis Topalis; Vicky Dritsou; Emmanuel Dialynas; Christos Louis
Journal:  PLoS Negl Trop Dis       Date:  2015-02-03

9.  IDOMAL: the malaria ontology revisited.

Authors:  Pantelis Topalis; Elvira Mitraka; Vicky Dritsou; Emmanuel Dialynas; Christos Louis
Journal:  J Biomed Semantics       Date:  2013-09-13

10.  RNAi in Arthropods: Insight into the Machinery and Applications for Understanding the Pathogen-Vector Interface.

Authors:  Annette-Christi Barnard; Ard M Nijhof; Wilma Fick; Christian Stutzer; Christine Maritz-Olivier
Journal:  Genes (Basel)       Date:  2012-11-06       Impact factor: 4.096

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