M
Marek S. Skrzypek
Researcher at Stanford University
Publications - 51
Citations - 11672
Marek S. Skrzypek is an academic researcher from Stanford University. The author has contributed to research in topics: Genome & Gene. The author has an hindex of 28, co-authored 47 publications receiving 9214 citations. Previous affiliations of Marek S. Skrzypek include Princeton University & University of California, San Francisco.
Papers
More filters
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
Evolution of pathogenicity and sexual reproduction in eight Candida genomes.
Geraldine Butler,Matthew D. Rasmussen,Michael F. Lin,Michael F. Lin,Manuel A. S. Santos,Sharadha Sakthikumar,Carol A. Munro,Esther Rheinbay,Esther Rheinbay,Manfred Grabherr,Anja Forche,Jennifer L. Reedy,Ino Agrafioti,Martha B. Arnaud,Steven Bates,Alistair J. P. Brown,Sascha Brunke,Maria C. Costanzo,David A. Fitzpatrick,Piet W. J. de Groot,David Harris,Lois L. Hoyer,Bernhard Hube,Frans M. Klis,Chinnappa D. Kodira,Nicola Lennard,Mary E. Logue,Ronny Martin,Aaron M. Neiman,Elissavet Nikolaou,Michael A. Quail,Janet Quinn,Maria C. Santos,Florian F. Schmitzberger,Gavin Sherlock,Prachi Shah,Kevin A. T. Silverstein,Marek S. Skrzypek,David R. Soll,Rodney Staggs,Ian Stansfield,Michael P. H. Stumpf,Peter E. Sudbery,Thyagarajan Srikantha,Qiandong Zeng,Judith Berman,Matthew Berriman,Joseph Heitman,Neil A. R. Gow,Michael C. Lorenz,Bruce W. Birren,Manolis Kellis,Manolis Kellis,Christina A. Cuomo +53 more
TL;DR: There are significant expansions of cell wall, secreted and transporter gene families in pathogenic species, suggesting adaptations associated with virulence in Candida albicans species.
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.