K
K. Van Auken
Researcher at California Institute of Technology
Publications - 6
Citations - 6889
K. Van Auken is an academic researcher from California Institute of Technology. The author has contributed to research in topics: Ontology (information science) & Open Biomedical Ontologies. The author has an hindex of 6, co-authored 6 publications receiving 6190 citations.
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Journal ArticleDOI
Gene Ontology Consortium: going forward
Judith A. Blake,Juancarlos Chan,Ranjana Kishore,Paul W. Sternberg,K. Van Auken,Hans-Michael Müller,James Done,Yanpeng Li +7 more
TL;DR: Improvements and expansions to several branches of the Gene Ontology, as well as updates that have allowed us to more efficiently disseminate the GO and capture feedback from the research community are described.
Journal ArticleDOI
The Gene Ontology Resource: 20 years and still GOing strong
Seth Carbon,Eric Douglass,Nathan Dunn,Benjamin M. Good,Nomi L. Harris,Suzanna E. Lewis,Christopher J. Mungall,S. Basu,Rex L. Chisholm,Robert J. Dodson,E. Hartline,Petra Fey,Paul Thomas,Laurent-Philippe Albou,Dustin Ebert,M. J. Kesling,Huaiyu Mi,Anushya Muruganujan,Xiaosong Huang,S. Poudel,Tremayne Mushayahama,James C. Hu,Sandra A. LaBonte,Deborah A. Siegele,Giulia Antonazzo,Helen Attrill,Nicholas H. Brown,S. Fexova,Phani V. Garapati,T. E.M. Jones,Steven J Marygold,Gillian Millburn,Alix J. Rey,Vítor Trovisco,G. Dos Santos,David B. Emmert,Kathleen Falls,Pinglei Zhou,Joshua L. Goodman,Victor B. Strelets,Jim Thurmond,Mélanie Courtot,D. S. Osumi,Helen Parkinson,Paola Roncaglia,Marcio Luis Acencio,Martin Kuiper,A. Lreid,Colin Logie,Ruth C. Lovering,Rachael P. Huntley,Paul Denny,Nancy H. Campbell,Barbara Kramarz,Vanessa Acquaah,S. H. Ahmad,H. Chen,J. H. Rawson,Marcus C. Chibucos,Michelle G. Giglio,Suvarna Nadendla,Rebecca Tauber,Margaret Duesbury,N. T. Del,Birgit H M Meldal,Livia Perfetto,Pablo Porras,Sandra Orchard,Anjali Shrivastava,Z. Xie,Hsin-Yu Chang,Robert D. Finn,Alex L. Mitchell,Neil D. Rawlings,Lorna Richardson,Amaia Sangrador-Vegas,Judith A. Blake,Karen R. Christie,Mary E. Dolan,H. Drabkin,David P. Hill,Li Ni,D. Sitnikov,Midori A. Harris,Stephen G. Oliver,Kim Rutherford,Valerie Wood,Jacqueline Hayles,Jürg Bähler,Antonia Lock,Elizabeth R Bolton,J L De Pons,Melinda R. Dwinell,G. T. Hayman,Stan Laulederkind,Mary Shimoyama,Marek Tutaj,Shur-Jen Wang,Peter D'Eustachio,Lisa Matthews,James P. Balhoff,Suzi Aleksander,Gail Binkley,B. L. Dunn,J. M. Cherry,Stacia R. Engel,Felix Gondwe,Kalpana Karra,Kevin A. MacPherson,Stuart R. Miyasato,Robert S. Nash,P. C. Ng,Travis K. Sheppard,A. Shrivatsav Vp,Matt Simison,Marek S. Skrzypek,Shuai Weng,Edith D. Wong,Marc Feuermann,Pascale Gaudet,E. Bakker,Tanya Z. Berardini,Leonore Reiser,Shankar Subramaniam,Eva Huala,C. Arighi,A. Auchincloss,K. Axelsen,G. P. Argoud,Alex Bateman,B. Bely,M. C. Blatter,E. Boutet,L. Breuza,A. Bridge,R. Britto,H. Bye-A-Jee,C. Casals-Casas,E. Coudert,A. Estreicher,L. Famiglietti,P. Garmiri,George Georghiou,A. Gos,N. Gruaz-Gumowski,E. Hatton-Ellis,U. Hinz,C. Hulo,A. Ignatchenko,F. Jungo,G. Keller,K. Laiho,P. Lemercier,D. Lieberherr,Y. Lussi,A. Mac-Dougall,M. Magrane,Maria Jesus Martin,P. Masson,D. A. Natale,N. N. Hyka,I. Pedruzzi,K. Pichler,S. Poux,C. Rivoire,M. Rodriguez-Lopez,T. Sawford,Elena Speretta,A. Shypitsyna,A. Stutz,S. Sundaram,M. Tognolli,N. Tyagi,Kate Warner,Rossana Zaru,C. Wu,Juancarlos Chan,J. Cho,Sibyl Gao,Christian A. Grove,M. C. Harrison,Kevin L. Howe,Raymond Lee,Jane E. Mendel,Hans-Michael Müller,Daniela Raciti,K. Van Auken,Matthew Berriman,Lincoln Stein,Paul W. Sternberg,Doug Howe,Sabrina Toro,Monte Westerfield +192 more
TL;DR: GO-CAM, a new framework for representing gene function that is more expressive than standard GO annotations, has been released, and users can now explore the growing repository of these models.
Journal ArticleDOI
Expansion of the Gene Ontology knowledgebase and resources
Seth Carbon,J. Chan,R. Kishore,Raymond Lee,Hans-Michael Müller,D. Raciti,K. Van Auken,Paul W. Sternberg +7 more
TL;DR: The current contents of the GO knowledgebase are summarized, several new features and improvements that have been made to the ontology, the annotations and the tools are presented, and extensions to the resource are extended, increasing support for descriptions of causal models of biological systems and network biology.
The Gene Ontology in 2010: extensions and refinements The Gene Ontology Consortium
Tanya Z. Berardini,Dong Li,Eva Huala,Susan M. Bridges,Shane C. Burgess,Fiona M. McCarthy,Seth Carbon,Suzanna E. Lewis,Christopher J. Mungall,A Abdulla,Wood,Erika Feltrin,Giorgio Valle,Rex L. Chisholm,Petra Fey,P Gaudet,Warren A. Kibbe,S. Basu,Y Bushmanova,Karen Eilbeck,Deborah A. Siegele,B. K. McIntosh,Daniel P. Renfro,Adrienne E. Zweifel,James C. Hu,Michael Ashburner,Susan Tweedie,Yasmin Alam-Faruque,Rolf Apweiler,A. Auchinchloss,A Bairoch,Daniel Barrell,David Binns,M. C. Blatter,Lydie Bougueleret,Emmanuel Boutet,Lionel Breuza,Alan Bridge,Paul Browne,W. M. Chan,Elisabeth Coudert,L Daugherty,E. Dimmer,Ruth Y. Eberhardt,Anne Estreicher,L Famiglietti,S. Ferro-Rojas,M Feuermann,Rebecca E. Foulger,Nadine Gruaz-Gumowski,Ursula Hinz,Rachael P. Huntley,S. Jimenez,Florence Jungo,Guillaume Keller,Kati Laiho,Duncan Legge,P Lemercier,Damien Lieberherr,Michele Magrane,Claire O'Donovan,Ivo Pedruzzi,Sylvain Poux,Catherine Rivoire,Bernd Roechert,Tony Sawford,Maria Victoria Schneider,Eleanor J Stanley,Andre Stutz,Shyamala Sundaram,Michael Tognolli,Ioannis Xenarios,Midori A. Harris,Jennifer I. Deegan,Amelia Ireland,Jane Lomax,Pankaj Jaiswal,Marcus C. Chibucos,Michelle G. Giglio,Jennifer R. Wortman,Linda Hannick,R Madupu,David Botstein,Kara Dolinski,Livstone,Rose Oughtred,Judith A. Blake,Carol J. Bult,Alexander D. Diehl,Mary E. Dolan,H. Drabkin,Janan T. Eppig,David P. Hill,L. Ni,Martin Ringwald,D. Sitnikov,C Collmer,T Torto-Alalibo,Stan Laulederkind,Mary Shimoyama,Simon N. Twigger,P D'Eustachio,Lisa Matthews,Rama Balakrishnan,Gail Binkley,J. M. Cherry,Karen R. Christie,Maria C. Costanzo,Engel,Dianna G. Fisk,Jodi E. Hirschman,Benjamin C. Hitz,El Hong,Cynthia J. Krieger,Miyasato,Robert S. Nash,Julie Park,Skrzypek,Sa Weng,Edith D. Wong,Martin Aslett,Juancarlos Chan,Ranjana Kishore,Paul W. Sternberg,K. Van Auken,Varsha K. Khodiyar,Ruth C. Lovering,P.J. Talmud,Doug Howe,Monte Westerfield +129 more
TL;DR: The Gene Ontology (GO) Consortium continues to develop, maintain and use a set of structured, controlled vocabularies for the annotation of genes, gene products and sequences and several new relationship types have been introduced and used to create links between and within the GO domains.
Journal ArticleDOI
The Gene Ontology: Enhancements for 2011
Judith A. Blake,Mary E. Dolan,H. Drabkin,David P. Hill,L. Ni,D. Sitnikov,Shane C. Burgess,Teresia Buza,Cathy R. Gresham,Fiona M. McCarthy,Lakshmi Pillai,Hui Wang,Seth Carbon,Suzanna E. Lewis,Christopher J. Mungall,P Gaudet,Rex L. Chisholm,Petra Fey,Warren A. Kibbe,S. Basu,Deborah A. Siegele,B. K. McIntosh,Daniel P. Renfro,Adrienne E. Zweifel,James C. Hu,Nicholas H. Brown,Susan Tweedie,Yasmin Alam-Faruque,Rolf Apweiler,A. Auchinchloss,Kristian B. Axelsen,Ghislaine Argoud-Puy,Benoit Bely,M. C. Blatter,Lydie Bougueleret,Emmanuel Boutet,S. Branconi-Quintaje,Lionel Breuza,Alan Bridge,Paul Browne,W. M. Chan,Elisabeth Coudert,Isabelle Cusin,E. Dimmer,P. Duek-Roggli,Ruth Y. Eberhardt,Anne Estreicher,L Famiglietti,S. Ferro-Rojas,M Feuermann,Malcolm J. Gardner,Arnaud Gos,Nadine Gruaz-Gumowski,Ursula Hinz,Chantal Hulo,Rachael P. Huntley,J. James,S. Jimenez,Florence Jungo,Guillaume Keller,Kati Laiho,Duncan Legge,P Lemercier,Damien Lieberherr,Michele Magrane,Maria Jesus Martin,Patrick Masson,M. Moinat,Claire O'Donovan,Ivo Pedruzzi,Klemens Pichler,Diego Poggioli,P. Porras Millán,Sylvain Poux,Catherine Rivoire,Bernd Roechert,Tony Sawford,Maria Victoria Schneider,H. Sehra,Eleanor J Stanley,Andre Stutz,Shyamala Sundaram,Michael Tognolli,Ioannis Xenarios,Rebecca E. Foulger,Jane Lomax,Paola Roncaglia,Evelyn Camon,Varsha K. Khodiyar,Ruth C. Lovering,Philippa J. Talmud,Marcus C. Chibucos,M. Gwinn Giglio,Kara Dolinski,Sven Heinicke,Michael S. Livstone,Ralf Stephan,Midori A. Harris,Stephen G. Oliver,Kim Rutherford,Valerie Wood,Jürg Bähler,Antonia Lock,Paul J. Kersey,Mark D. McDowall,Daniel M. Staines,Melinda R. Dwinell,Mary Shimoyama,Stan Laulederkind,Tom Hayman,Shur-Jen Wang,Victoria Petri,Timothy F. Lowry,P D'Eustachio,Lisa Matthews,C. D. Amundsen,Rama Balakrishnan,Gail Binkley,J. M. Cherry,Karen R. Christie,Maria C. Costanzo,Selina S. Dwight,Stacia R. Engel,Dianna G. Fisk,Jodi E. Hirschman,Benjamin C. Hitz,Eurie L. Hong,Kalpana Karra,Cynthia J. Krieger,Stuart R. Miyasato,Robert S. Nash,Julie Park,Marek S. Skrzypek,Shuai Weng,Edith D. Wong,Tanya Z. Berardini,Dong Li,Eva Huala,Donna K. Slonim,Heather C. Wick,Paul Thomas,Juancarlos Chan,Ranjana Kishore,Paul W. Sternberg,K. Van Auken,Douglas G. Howe,Monte Westerfield +146 more
TL;DR: The Gene Ontology (GO) is a community bioinformatics resource that represents gene product function through the use of structured, controlled vocabularies and continues to expand and improve as a result of targeted ontology development.