C
Cecilia Nakamura
Researcher at California Institute of Technology
Publications - 11
Citations - 2575
Cecilia Nakamura is an academic researcher from California Institute of Technology. The author has contributed to research in topics: WormBase & WormBook. The author has an hindex of 10, co-authored 10 publications receiving 2288 citations. Previous affiliations of Cecilia Nakamura include Washington University in St. Louis.
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Journal ArticleDOI
WormBase: a multi‐species resource for nematode biology and genomics
Todd W. Harris,Nansheng Chen,Fiona Cunningham,Marcela K. Tello-Ruiz,Igor Antoshechkin,Carol Bastiani,Tamberlyn Bieri,Darin Blasiar,Keith Bradnam,Juancarlos Chan,Chao-Kung Chen,Wen J. Chen,Paul H. Davis,Eimear E. Kenny,Ranjana Kishore,Daniel Lawson,Raymond Lee,Hans-Michael Müller,Cecilia Nakamura,Philip Ozersky,Andrei Petcherski,Anthony Rogers,Aniko Sabo,Erich M. Schwarz,Kimberly Van Auken,Qinghua Wang,Richard Durbin,John Spieth,Paul W. Sternberg,Lincoln Stein +29 more
TL;DR: The nearly complete genomic sequence and comparative analyses of the closely related species Caenorhabditis briggsae have been integrated into WormBase, including gene predictions, ortholog assignments and a new synteny viewer to display the relationships between the two species.
Journal ArticleDOI
WormBase: a comprehensive resource for nematode research
Todd W. Harris,Igor Antoshechkin,Tamberlyn Bieri,Darin Blasiar,Juancarlos Chan,Wen J. Chen,Norie De La Cruz,Paul H. Davis,Margaret Duesbury,Ruihua Fang,Jolene Fernandes,Michael Han,Ranjana Kishore,Raymond Lee,Hans-Michael Müller,Cecilia Nakamura,Philip Ozersky,Andrei Petcherski,Arun Rangarajan,Anthony Rogers,Gary Schindelman,Erich M. Schwarz,Mary Ann Tuli,Kimberly Van Auken,Daniel Wang,Xiaodong Wang,Gary Williams,Karen Yook,Richard Durbin,Lincoln Stein,John Spieth,Paul W. Sternberg +31 more
TL;DR: New species and data types now available at WormBase are described and enhancements to the curatorial pipeline and website infrastructure are detail to accommodate new genomes and an extensive user base.
Journal ArticleDOI
WormBase 2016: expanding to enable helminth genomic research
Kevin L. Howe,Bruce J. Bolt,Scott Cain,Juancarlos Chan,Wen J. Chen,Paul Davis,James Done,Thomas A. Down,Sibyl Gao,Christian A. Grove,Todd W. Harris,Ranjana Kishore,Raymond Lee,Jane Lomax,Yuling Li,Hans-Michael Müller,Cecilia Nakamura,Paulo A. S. Nuin,Michael Paulini,Daniela Raciti,Gary Schindelman,Eleanor J Stanley,Mary Ann Tuli,Kimberly Van Auken,Daniel Wang,Xiaodong Wang,Gary Williams,Adam Wright,Karen Yook,Matthew Berriman,Paul J. Kersey,Tim Schedl,Lincoln Stein,Paul W. Sternberg +33 more
TL;DR: WormBase (www.wormbase.org) is a central repository for research data on the biology, genetics and genomics of Caenorhabditis elegans and other nematodes, and has made a number of improvements to its main website, including new tools for browsing genomic features and ontology annotations.
Journal ArticleDOI
WormBase: a modern Model Organism Information Resource.
Todd W. Harris,Valerio Arnaboldi,Scott Cain,Juancarlos Chan,Wen J. Chen,Jaehyoung Cho,Paul Davis,Sibyl Gao,Christian A. Grove,Ranjana Kishore,Raymond Lee,Hans-Michael Müller,Cecilia Nakamura,Paulo A. S. Nuin,Michael Paulini,Daniela Raciti,Faye H. Rodgers,Matthew Russell,Gary Schindelman,Kimberly Van Auken,Qinghua Wang,Gary Williams,Adam Wright,Karen Yook,Kevin L. Howe,Tim Schedl,Lincoln Stein,Paul W. Sternberg +27 more
TL;DR: This update discusses the status of literature curation and recently added data, detail new features of the web interface and options for users wishing to conduct data mining workflows, and discusses the efforts to build a robust and scalable architecture by leveraging commercial cloud offerings.
Journal ArticleDOI
WormBase: a comprehensive data resource for Caenorhabditis biology and genomics
Nansheng Chen,Todd W. Harris,Igor Antoshechkin,Carol Bastiani,Tamberlyn Bieri,Darin Blasiar,Keith Bradnam,Payan Canaran,Juancarlos Chan,Chao-Kung Chen,Wen J. Chen,Fiona Cunningham,Paul H. Davis,Eimear E. Kenny,Ranjana Kishore,Daniel Lawson,Raymond Lee,Hans-Michael Müller,Cecilia Nakamura,Shraddha Pai,Philip Ozersky,Andrei Petcherski,Anthony Rogers,Aniko Sabo,Erich M. Schwarz,Kimberly Van Auken,Qinghua Wang,Richard Durbin,John Spieth,Paul W. Sternberg,Lincoln Stein +30 more
TL;DR: Internally, the database models are restructured to rationalize the representation of genes and to prepare the system to accept the genome sequences of three additional Caenorhabditis species over the coming year.