BioPAX – A community standard for pathway data sharing

Biological Pathway Exchange (BioPAX) is a standard language to represent biological pathways at the molecular and cellular level and to facilitate the exchange of pathway data. The rapid growth of the volume of pathway data has spurred the development of databases and computational tools to aid interpretation; however, use of these data is hampered by the current fragmentation of pathway information across many databases with incompatible formats. BioPAX, which was created through a community process, solves this problem by making pathway data substantially easier to collect, index, interpret and share. BioPAX can represent metabolic and signaling pathways, molecular and genetic interactions and gene regulation networks. Using BioPAX, millions of interactions, organized into thousands of pathways, from many organisms are available from a growing number of databases. This large amount of pathway data in a computable form will support visualization, analysis and biological discovery.

Kei-Hoi Cheung | Frank Schacherer | Edgar Wingender | Huaiyu Mi | Shannon McWeeney | Chris Sander | Paul Thomas | Gary D Bader | Ugur Dogrusoz | Nicolas Le Novère | Michael Hucka | Zhenjun Hu | Kenneth H Buetow | Emek Demir | Ken Fukuda | Christian Lemer | Imre Vastrik | Guanming Wu | Kumaran Kandasamy | Igor Rodchenkov | Andrea Splendiani | Sasha Tkachev | Harsha Rajasimha | Ranjani Ramakrishnan | Imran Shah | Nadia Anwar | Özgün Babur | Erik Brauner | Dan Corwin | Peter Hornbeck | Augustin Luna | Eric Neumann | Matthias Samwald | Keith Allen | Burk Braun | Marc Gillespie | Li Gong | Robin Haw | Olivier Hubaut | Shiva Krupa | Martina Kutmon | David Merberg | Victoria Petri | Dean Ravenscroft | Liya Ren | Margot Sunshine | Rebecca Tang | Ryan Whaley | Stan Letovksy | Andrey Rzhetsky | Susumu Goto | Natalia Maltsev | Akhilesh Pandey | Ewan Birney | Oliver Ruebenacker | Andrew Finney | Jeremy Zucker | Elizabeth Glass | Carl Schaefer | Peter D Karp | Sylva Donaldson | Mustafa Syed | Nigam Shah | Vincent Schachter | Michael Honig | Suzanne Paley | Michael P Cary | Peter D'Eustachio | Joanne Luciano | Irma Martinez-Flores | Veronica Jimenez-Jacinto | Geeta Joshi-Tope | Alejandra C Lopez-Fuentes | Elgar Pichler | Gopal Gopinath | Michael Blinov | Frank Gibbons | Robert Goldberg | Peter Murray-Rust | Martijn van Iersel | Sarala Wimalaratne | Michelle Whirl-Carrillo | Kam Dahlquist | David Kane | Julie Leonard | Debbie Marks | Alex Pico | Bruno S Sobral | Mirit Aladjem | Julio Collado-Vides

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