S
Stacia R. Engel
Researcher at Stanford University
Publications - 49
Citations - 13349
Stacia R. Engel is an academic researcher from Stanford University. The author has contributed to research in topics: Genome & Reference genome. The author has an hindex of 25, co-authored 46 publications receiving 10320 citations. Previous affiliations of Stacia R. Engel include Wellcome Trust.
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Journal ArticleDOI
The Gene Ontology (GO) database and informatics resource.
Midori A. Harris,Jennifer I. Clark,Ireland A,Jane Lomax,Michael Ashburner,Michael Ashburner,R. Foulger,R. Foulger,Karen Eilbeck,Karen Eilbeck,Suzanna E. Lewis,Suzanna E. Lewis,B. Marshall,B. Marshall,Christopher J. Mungall,Christopher J. Mungall,J. Richter,J. Richter,Gerald M. Rubin,Gerald M. Rubin,Judith A. Blake,Carol J. Bult,Dolan M,Drabkin H,Janan T. Eppig,Hill Dp,L. Ni,Ringwald M,Rama Balakrishnan,Rama Balakrishnan,J. M. Cherry,J. M. Cherry,Karen R. Christie,Karen R. Christie,Maria C. Costanzo,Maria C. Costanzo,Selina S. Dwight,Selina S. Dwight,Stacia R. Engel,Stacia R. Engel,Dianna G. Fisk,Dianna G. Fisk,Jodi E. Hirschman,Jodi E. Hirschman,Eurie L. Hong,Eurie L. Hong,Robert S. Nash,Robert S. Nash,Anand Sethuraman,Anand Sethuraman,Chandra L. Theesfeld,Chandra L. Theesfeld,David Botstein,David Botstein,Kara Dolinski,Kara Dolinski,Becket Feierbach,Becket Feierbach,Tanya Z. Berardini,Tanya Z. Berardini,S. Mundodi,S. Mundodi,Seung Y. Rhee,Seung Y. Rhee,Rolf Apweiler,Daniel Barrell,Camon E,E. Dimmer,Lee,Rex L. Chisholm,Pascale Gaudet,Pascale Gaudet,Warren A. Kibbe,Warren A. Kibbe,Ranjana Kishore,Ranjana Kishore,Erich M. Schwarz,Erich M. Schwarz,Paul W. Sternberg,Paul W. Sternberg,M. Gwinn,Hannick L,Wortman J,Matthew Berriman,Matthew Berriman,Wood,Wood,de la Cruz N,de la Cruz N,Peter J. Tonellato,Peter J. Tonellato,Pankaj Jaiswal,Pankaj Jaiswal,Seigfried T,Seigfried T,White R,White R +96 more
TL;DR: The Gene Ontology (GO) project as discussed by the authors provides structured, controlled vocabularies and classifications that cover several domains of molecular and cellular biology and are freely available for community use in the annotation of genes, gene products and sequences.
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
The Gene Ontology resource: enriching a GOld mine
Seth Carbon,Eric Douglass,Benjamin M. Good,Deepak Unni,Nomi L. Harris,Christopher J. Mungall,Siddartha Basu,Rex L. Chisholm,Robert J. Dodson,Eric Hartline,Petra Fey,Paul Thomas,Laurent-Philippe Albou,Dustin Ebert,Michael J Kesling,Huaiyu Mi,Anushya Muruganujan,Xiaosong Huang,Tremayne Mushayahama,Sandra A. LaBonte,Deborah A. Siegele,Giulia Antonazzo,Helen Attrill,Nicholas H. Brown,Phani V. Garapati,Steven J Marygold,Vítor Trovisco,Gil dos Santos,Kathleen Falls,Christopher J. Tabone,Pinglei Zhou,Joshua L. Goodman,Victor B. Strelets,Jim Thurmond,Penelope Garmiri,Rizwan Ishtiaq,Milagros Rodríguez-López,Marcio Luis Acencio,Martin Kuiper,Astrid Lægreid,Colin Logie,Ruth C. Lovering,Barbara Kramarz,Shirin C C Saverimuttu,Sandra M Pinheiro,Heather Gunn,Renzhi Su,Katherine E Thurlow,Marcus C. Chibucos,Michelle G. Giglio,Suvarna Nadendla,James B. Munro,Rebecca C. Jackson,Margaret Duesbury,Noemi del-Toro,Birgit H M Meldal,Kalpana Paneerselvam,Livia Perfetto,Pablo Porras,Sandra Orchard,Anjali Shrivastava,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,Harold J. Drabkin,David P. Hill,Li Ni,D. Sitnikov,Midori A. Harris,Stephen G. Oliver,Kim Rutherford,Valerie Wood,Jaqueline Hayles,Jürg Bähler,Elizabeth R Bolton,Jeffery L De Pons,Melinda R. Dwinell,G. Thomas Hayman,Mary L. Kaldunski,Anne E. Kwitek,Stanley J. F. Laulederkind,Cody Plasterer,Marek Tutaj,Mahima Vedi,Shur-Jen Wang,Peter D'Eustachio,Lisa Matthews,James P. Balhoff,Suzi Aleksander,Michael J Alexander,J. Michael Cherry,Stacia R. Engel,Felix Gondwe,Kalpana Karra,Stuart R. Miyasato,Robert S. Nash,Matt Simison,Marek S. Skrzypek,Shuai Weng,Edith D. Wong,Marc Feuermann,Pascale Gaudet,Anne Morgat,Erica Bakker,Tanya Z. Berardini,Leonore Reiser,Shabari Subramaniam,Eva Huala,Cecilia N. Arighi,Andrea H. Auchincloss,Kristian B. Axelsen,Ghislaine Argoud-Puy,Alex Bateman,Marie-Claude Blatter,Emmanuel Boutet,Emily H. Bowler,Lionel Breuza,Alan Bridge,Ramona Britto,Hema Bye-A-Jee,Cristina Casals Casas,Elisabeth Coudert,Paul Denny,Anne Estreicher,Maria Livia Famiglietti,George Georghiou,Arnaud Gos,Nadine Gruaz-Gumowski,Emma Hatton-Ellis,Chantal Hulo,Alexandr Ignatchenko,Florence Jungo,Kati Laiho,Philippe Le Mercier,Damien Lieberherr,Antonia Lock,Yvonne Lussi,Alistair MacDougall,Michele Magrane,Maria Jesus Martin,Patrick Masson,Darren A. Natale,Nevila Hyka-Nouspikel,Ivo Pedruzzi,Lucille Pourcel,Sylvain Poux,Sangya Pundir,Catherine Rivoire,Elena Speretta,Shyamala Sundaram,Nidhi Tyagi,Kate Warner,Rossana Zaru,Cathy H. Wu,Alexander D. Diehl,Juancarlos Chan,Christian A. Grove,Raymond Lee,Hans-Michael Müller,Daniela Raciti,Kimberly Van Auken,Paul W. Sternberg,Matthew Berriman,Michael Paulini,Kevin L. Howe,Sibyl Gao,Adam Wright,Lincoln Stein,Douglas G. Howe,Sabrina Toro,Monte Westerfield,Pankaj Jaiswal,Laurel Cooper,Justin Elser +179 more
TL;DR: A historical archive covering the past 15 years of GO data with a consistent format and file structure for both the ontology and annotations is made available to maintain consistency with other ontologies.
Journal ArticleDOI
Saccharomyces Genome Database: the genomics resource of budding yeast
J. Michael Cherry,Eurie L. Hong,Craig Amundsen,Rama Balakrishnan,Gail Binkley,Esther T. Chan,Karen R. Christie,Maria C. Costanzo,Selina S. Dwight,Stacia R. Engel,Dianna G. Fisk,Jodi E. Hirschman,Benjamin C. Hitz,Kalpana Karra,Cynthia J. Krieger,Stuart R. Miyasato,Robert S. Nash,Julie Park,Marek S. Skrzypek,Matt Simison,Shuai Weng,Edith D. Wong +21 more
TL;DR: The Saccharomyces Genome Database is an encyclopedia of the yeast genome, its chromosomal features, their functions and interactions, and public access to these data is provided to researchers and educators via web pages designed for optimal ease of use.
Journal ArticleDOI
The Gene Ontology project in 2008
Midori A. Harris,Jennifer I. Deegan,Amelia Ireland,Jane Lomax,Michael Ashburner,Susan Tweedie,Seth Carbon,Suzanna E. Lewis,Christopher J. Mungall,John Day Richter,Karen Eilbeck,Judith A. Blake,Carol J. Bult,Alexander D. Diehl,Mary E. Dolan,Harold J. Drabkin,Janan T. Eppig,David P. Hill,Ni Li,Martin Ringwald,Rama Balakrishnan,Gail Binkley,J. Michael Cherry,Karen R. Christie,Maria C. Costanzo,Qing Dong,Stacia R. Engel,Dianna G. Fisk,Jodi E. Hirschman,Benjamin C. Hitz,Eurie L. Hong,Cynthia J. Krieger,Stuart R. Miyasato,Robert S. Nash,Julie Park,Marek S. Skrzypek,Shuai Weng,Edith D. Wong,Kathy K. Zhu,David Botstein,Kara Dolinski,Michael S. Livstone,Rose Oughtred,Tanya Z. Berardini,Li Donghui,Seung Y. Rhee,Rolf Apweiler,Daniel Barrell,Evelyn Camon,Emily Dimmer,Rachael P. Huntley,Nicola Mulder,Varsha K. Khodiyar,Ruth C. Lovering,Sue Povey,Rex L. Chisholm,Petra Fey,Pascale Gaudet,Warren A. Kibbe,Ranjana Kishore,Erich M. Schwarz,Paul W. Sternberg,Kimberly Van Auken,Michelle G. Giglio,Linda Hannick,Jennifer R. Wortman,Martin Aslett,Matthew Berriman,Valerie Wood,Howard J. Jacob,Stan Laulederkind,Victoria Petri,Mary Shimoyama,Jennifer L. Smith,Simon N. Twigger,Pankaj Jaiswal,Trent E. Seigfried,Doug Howe,Monte Westerfield,Candace Collmer,Trudy Torto Alalibo,Erika Feltrin,Giorgio Valle,Susan Bromberg,Shane C. Burgess,Fiona M. McCarthy +85 more
TL;DR: The GO Consortium has launched a focused effort to provide comprehensive and detailed annotation of orthologous genes across a number of ‘reference’ genomes, including human and several key model organisms.