K
Ken Fukuda
Researcher at National Institute of Advanced Industrial Science and Technology
Publications - 33
Citations - 1648
Ken Fukuda is an academic researcher from National Institute of Advanced Industrial Science and Technology. The author has contributed to research in topics: Service (business) & BioPAX : Biological Pathways Exchange. The author has an hindex of 10, co-authored 33 publications receiving 1536 citations. Previous affiliations of Ken Fukuda include University of Tokyo.
Papers
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Journal ArticleDOI
The BioPAX community standard for pathway data sharing
Emek Demir,Emek Demir,Michael P. Cary,Suzanne M. Paley,Ken Fukuda,Christian Lemer,Imre Vastrik,Guanming Wu,Peter D'Eustachio,Carl F. Schaefer,Joanne S. Luciano,Frank Schacherer,Irma Martínez-Flores,Zhenjun Hu,Verónica Jiménez-Jacinto,Geeta Joshi-Tope,Kumaran Kandasamy,Alejandra López-Fuentes,Huaiyu Mi,Elgar Pichler,Igor Rodchenkov,Andrea Splendiani,Andrea Splendiani,Sasha Tkachev,Jeremy Zucker,Gopal R. Gopinath,Harsha Rajasimha,Harsha Rajasimha,Ranjani Ramakrishnan,Imran Shah,Mustafa H Syed,Nadia Anwar,Özgün Babur,Özgün Babur,Michael L. Blinov,Erik Brauner,Dan Corwin,Sylva L. Donaldson,Frank Gibbons,Robert N. Goldberg,Peter Hornbeck,Augustin Luna,Peter Murray-Rust,Eric K. Neumann,Oliver Reubenacker,Matthias Samwald,Matthias Samwald,Martijn P. van Iersel,Sarala M. Wimalaratne,Keith Allen,Burk Braun,Michelle Whirl-Carrillo,Kei-Hoi Cheung,Kam D. Dahlquist,Andrew Finney,Marc Gillespie,Elizabeth M. Glass,Li Gong,Robin Haw,Michael Honig,Olivier Hubaut,David W. Kane,Shiva Krupa,Martina Kutmon,Julie Leonard,Debbie Marks,David Merberg,Victoria Petri,Alexander R. Pico,Dean Ravenscroft,Liya Ren,Nigam H. Shah,Margot Sunshine,Rebecca Tang,Ryan Whaley,Stan Letovksy,Kenneth H. Buetow,Andrey Rzhetsky,Vincent Schächter,Bruno S. Sobral,Ugur Dogrusoz,Shannon K. McWeeney,Mirit I. Aladjem,Ewan Birney,Julio Collado-Vides,Susumu Goto,Michael Hucka,Nicolas Le Novère,Natalia Maltsev,Akhilesh Pandey,Paul Thomas,Edgar Wingender,Peter D. Karp,Chris Sander,Gary D. Bader +94 more
TL;DR: Thousands of interactions, organized into thousands of pathways, from many organisms are available from a growing number of databases, and this large amount of pathway data in a computable form will support visualization, analysis and biological discovery.
Proceedings Article
Toward information extraction: identifying protein names from biological papers.
TL;DR: A new method of extracting material names, PROPER, using surface clue on character strings is proposed, which extracts material names in the sentence with 94.70% precision and 98.84% recall, regardless of whether it is already known or newly defined.
Book ChapterDOI
An upper ontology for event classifications and relations
TL;DR: This paper proposes to establish an upper event-ontology in order-sorted logic as an infrastructure for event knowledge bases and contains a classification of event entities and event relationships.
Journal ArticleDOI
INOH: ontology-based highly structured database of signal transduction pathways
TL;DR: The Similarity Search using the combination of a compound graph and hierarchical ontologies was developed and is to be a good resource for many users who want to analyze a large protein network.
Journal ArticleDOI
Using Biological Pathway Data with Paxtools
Emek Demir,Özgün Babur,Igor Rodchenkov,Bulent Arman Aksoy,Ken Fukuda,Benjamin Gross,Onur Sumer,Gary D. Bader,Chris Sander +8 more
TL;DR: Paxtools is a Java library that contains algorithms, software components and converters for biological pathways represented in the standard BioPAX language that allows scientists to focus on their scientific problem by removing technical barriers to access and analyse pathway information.