David Osumi-Sutherland

David Osumi-Sutherland

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David Osumi-Sutherland

David Osumi-Sutherland

Publications by authors named "David Osumi-Sutherland"

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23Publications

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SynGO: An Evidence-Based, Expert-Curated Knowledge Base for the Synapse.

Neuron 2019 Jul 3;103(2):217-234.e4. Epub 2019 Jun 3.

Department of Functional Genomics, CNCR, VU University and UMC Amsterdam, 1081 HV Amsterdam, the Netherlands. Electronic address:

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http://dx.doi.org/10.1016/j.neuron.2019.05.002DOI Listing
July 2019

Expansion of the Human Phenotype Ontology (HPO) knowledge base and resources.

Nucleic Acids Res 2019 Jan;47(D1):D1018-D1027

Monarch Initiative, monarchinitiative.org.

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https://academic.oup.com/nar/advance-article/doi/10.1093/nar
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http://dx.doi.org/10.1093/nar/gky1105DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6324074PMC
January 2019

Improving Interpretation of Cardiac Phenotypes and Enhancing Discovery With Expanded Knowledge in the Gene Ontology.

Circ Genom Precis Med 2018 02;11(2):e001813

From the Institute of Cardiovascular Science (R.C.L., V.K.K., R.E.F., N.H.C., R.P.H., P.J.T., P.D.L., P.M.E., L.C.) and Metabolism and Experimental Therapeutics, Division of Medicine (R.B.), University College London, United Kingdom; European Bioinformatics Institute (EMBL-EBI), European Molecular Biology Laboratory, Hinxton, United Kingdom (P.R., D.O.-S.); Gene Ontology Consortium (P.R., T.Z.B., D.O.-S., J.A.B., D.P.H.); The Zebrafish Model Organism Database, University of Oregon, Eugene (D.G.H.); Rat Genome Database, Human Molecular Genetics Center, Medical College of Wisconsin, Milwaukee (S.J.F.L.); Arabidopsis Information Resource, Phoenix Bioinformatics, Fremont, CA (T.Z.B.); FlyBase, University of Cambridge, United Kingdom (S.T.); Mouse Genome Informatics, The Jackson Laboratory, Bar Harbor, ME (J.A.B., D.P.H.); Oxbridge BHF Centre of Regenerative Medicine, Department of Physiology, Anatomy and Genetics, University of Oxford, United Kingdom (P.R.R.); and William Harvey Heart Centre, Barts and The London School of Medicine and Dentistry, Queen Mary University of London, United Kingdom (A.T.).

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http://dx.doi.org/10.1161/CIRCGEN.117.001813DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5821137PMC
February 2018

Using OWL reasoning to support the generation of novel gene sets for enrichment analysis.

J Biomed Semantics 2018 02 14;9(1):10. Epub 2018 Feb 14.

Roche Pharma Research and Early Development, Pharmaceutical Sciences, Roche Innovation Center Basel, F. Hoffmann-La Roche Ltd, Grenzacherstrasse 124, -4070, Basel, CH, Switzerland.

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http://dx.doi.org/10.1186/s13326-018-0175-zDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5813370PMC
February 2018

Cell ontology in an age of data-driven cell classification.

BMC Bioinformatics 2017 12 21;18(Suppl 17):558. Epub 2017 Dec 21.

European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Hinxton, CB10 1SD, UK.

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http://dx.doi.org/10.1186/s12859-017-1980-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5763290PMC
December 2017

Dead simple OWL design patterns.

J Biomed Semantics 2017 Jun 5;8(1):18. Epub 2017 Jun 5.

Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, 94720, CA, USA.

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http://dx.doi.org/10.1186/s13326-017-0126-0DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5460348PMC
June 2017

Bacterial Virus Ontology; Coordinating across Databases.

Viruses 2017 05 23;9(6). Epub 2017 May 23.

Swiss-Prot group, SIB Swiss Institute of Bioinformatics, CMU, University of Geneva Medical School, 1211 Geneva, Switzerland.

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http://dx.doi.org/10.3390/v9060126DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5490803PMC
May 2017

PhenoImageShare: an image annotation and query infrastructure.

J Biomed Semantics 2016 Jun 7;7:35. Epub 2016 Jun 7.

European Bioinformatics Institute (EMBL-EBI), European Molecular Biology Laboratory, Wellcome Trust Genome Campus, Hinxton, CB10 1SD, UK.

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http://dx.doi.org/10.1186/s13326-016-0072-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4896029PMC
June 2016

TermGenie - a web-application for pattern-based ontology class generation.

J Biomed Semantics 2014 11;5:48. Epub 2014 Dec 11.

Genomics Division, Lawrence Berkeley National Laboratory, 1 Cyclotron Road, Berkeley, CA 94720 USA.

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http://dx.doi.org/10.1186/2041-1480-5-48DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4417543PMC
May 2015

Finding our way through phenotypes.

PLoS Biol 2015 Jan 6;13(1):e1002033. Epub 2015 Jan 6.

Department of Biology, University of South Dakota, Vermillion, South Dakota, United States of America.

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http://dx.doi.org/10.1371/journal.pbio.1002033DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4285398PMC
January 2015

Virtual Fly Brain - Using OWL to support the mapping and genetic dissection of the brain.

CEUR Workshop Proc 2014 Oct;1265:85-96

Department of Genetics, University of Cambridge, Cambridge, UK.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5924869PMC
October 2014

Nose to tail, roots to shoots: spatial descriptors for phenotypic diversity in the Biological Spatial Ontology.

J Biomed Semantics 2014 11;5:34. Epub 2014 Aug 11.

Library and Department of Medical Informatics & Epidemiology, Oregon Health & Science University, Portland, OR, USA.

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http://dx.doi.org/10.1186/2041-1480-5-34DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4137724PMC
August 2014

Systematic analysis of experimental phenotype data reveals gene functions.

PLoS One 2013 16;8(4):e60847. Epub 2013 Apr 16.

Department of Physiology, Development and Neuroscience, University of Cambridge, Cambridge, United Kingdom.

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http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0060847PLOS
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3628905PMC
November 2013

The Drosophila phenotype ontology.

J Biomed Semantics 2013 Oct 18;4(1):30. Epub 2013 Oct 18.

FlyBase, Department of Genetics, University of Cambridge, Downing Street, Cambridge, UK.

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http://dx.doi.org/10.1186/2041-1480-4-30DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3816596PMC
October 2013

The Drosophila anatomy ontology.

J Biomed Semantics 2013 Oct 18;4(1):32. Epub 2013 Oct 18.

FlyBase, Department of Genetics, University of Cambridge, Downing Street, Cambridge, UK.

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http://dx.doi.org/10.1186/2041-1480-4-32DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4015547PMC
October 2013

A strategy for building neuroanatomy ontologies.

Bioinformatics 2012 May 7;28(9):1262-9. Epub 2012 Mar 7.

Department of Genetics, University of Cambridge, Cambridge, UK.

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http://dx.doi.org/10.1093/bioinformatics/bts113DOI Listing
May 2012

The Virtual Fly Brain browser and query interface.

Bioinformatics 2012 Feb 16;28(3):411-5. Epub 2011 Dec 16.

School of Informatics, University of Edinburgh, Edinburgh, UK.

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http://dx.doi.org/10.1093/bioinformatics/btr677DOI Listing
February 2012

FlyBase: enhancing Drosophila Gene Ontology annotations.

Nucleic Acids Res 2009 Jan 23;37(Database issue):D555-9. Epub 2008 Oct 23.

Department of Genetics, University of Cambridge, Downing Street, Cambridge CB2 3EH, UK.

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http://dx.doi.org/10.1093/nar/gkn788DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686450PMC
January 2009

Lab chiefs fear European rules will cost postdoc jobs.

Nature 2004 Sep;431(7004)

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http://dx.doi.org/10.1038/431006bDOI Listing
September 2004

Sick veterans pin hopes on Gulf War inquiry.

Nature 2004 Aug;430(7002):821

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http://dx.doi.org/10.1038/430821aDOI Listing
August 2004