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. 2018 Jul 6;36(7):566-569.
doi: 10.1038/nbt.4163.

KBase: The United States Department of Energy Systems Biology Knowledgebase

Adam P Arkin  1   2 Robert W Cottingham  3 Christopher S Henry  4 Nomi L Harris  2 Rick L Stevens  5   6 Sergei Maslov  7   8 Paramvir Dehal  2 Doreen Ware  9 Fernando Perez  10   11   12   8 Shane Canon  13 Michael W Sneddon  2 Matthew L Henderson  2 William J Riehl  2 Dan Murphy-Olson  4 Stephen Y Chan  2 Roy T Kamimura  2 Sunita Kumari  9 Meghan M Drake  3 Thomas S Brettin  6 Elizabeth M Glass  4 Dylan Chivian  2 Dan Gunter  10 David J Weston  3 Benjamin H Allen  3 Jason Baumohl  2 Aaron A Best  14 Ben Bowen  2 Steven E Brenner  15 Christopher C Bun  4 John-Marc Chandonia  2 Jer-Ming Chia  9 Ric Colasanti  4 Neal Conrad  6 James J Davis  6 Brian H Davison  3 Matthew DeJongh  16 Scott Devoid  4 Emily Dietrich  6 Inna Dubchak  2 Janaka N Edirisinghe  4   17 Gang Fang  18   8 José P Faria  4 Paul M Frybarger  4 Wolfgang Gerlach  4 Mark Gerstein  18 Annette Greiner  13 James Gurtowski  9 Holly L Haun  3 Fei He  7   8 Rashmi Jain  19   20 Marcin P Joachimiak  2 Kevin P Keegan  4 Shinnosuke Kondo  16 Vivek Kumar  9 Miriam L Land  3 Folker Meyer  4 Marissa Mills  3 Pavel S Novichkov  2 Taeyun Oh  19   20   8 Gary J Olsen  21 Robert Olson  4 Bruce Parrello  4 Shiran Pasternak  9 Erik Pearson  2 Sarah S Poon  10 Gavin A Price  2 Srividya Ramakrishnan  9   8 Priya Ranjan  3   22 Pamela C Ronald  19   20 Michael C Schatz  9   8 Samuel M D Seaver  4 Maulik Shukla  6 Roman A Sutormin  2 Mustafa H Syed  3   8 James Thomason  9 Nathan L Tintle  23   8 Daifeng Wang  18   8 Fangfang Xia  6 Hyunseung Yoo  6 Shinjae Yoo  24 Dantong Yu  24   8
Affiliations
Free PMC article

KBase: The United States Department of Energy Systems Biology Knowledgebase

Adam P Arkin et al. Nat Biotechnol. .
Free PMC article

Conflict of interest statement

F.P. declares competing interest related to his work for Plot.ly and research funding from Microsoft, Google, and Anaconda Inc. S.E.B. receives funding and has a research collaboration with Tata Consultancy Service that is unrelated to the KBase project.

Figures

Figure 1
Figure 1. KBase Narratives.
A Narrative is an interactive, dynamic, and persistent document created by users that promotes open, reproducible, and collaborative science.
Figure 2
Figure 2. Major workflows and data types in KBase.
The unboxed labels represent data types, while each colored box represents a single app. The box colors signify the category of functionality, and the numbers in parentheses indicate the number of alternative apps that implement each function. Apps that require a genome data type as input are marked with a green 'G' icon. For more information see http://kbase.us/apps/.

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