KBase: The United States department of energy systems biology knowledgebase

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

doi:10.1038/nbt.4163

KBase: The United States department of energy systems biology knowledgebase

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

Research output: Contribution to journal › Letter › peer-review

871 Scopus citations

Original language	English
Pages (from-to)	566-569
Number of pages	4
Journal	Nature Biotechnology
Volume	36
Issue number	7
DOIs	https://doi.org/10.1038/nbt.4163
State	Published - Jul 6 2018

Funding

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. This work is supported by the Office of Biological and Environmental Research’s Genomic Science program within the US Department of Energy Office of Science, under award numbers DE-AC02-05CH11231, DE-AC02-06CH11357, DE-AC05-00OR22725, and DE-AC02-98CH10886.

Funders	Funder number
Anaconda Inc.
Office of Biological and Environmental Research
US Department of Energy Office of Science	DE-AC05-00OR22725, DE-AC02-05CH11231, DE-AC02-98CH10886, DE-AC02-06CH11357
National Science Foundation	1716285, 1715211
National Science Foundation
Microsoft
Google

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10.1038/nbt.4163

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Arkin, A. P., Cottingham, R. W., Henry, C. S., Harris, N. L., Stevens, R. L., Maslov, S., Dehal, P., Ware, D., Perez, F., Canon, S., Sneddon, M. W., Henderson, M. L., Riehl, W. J., Murphy-Olson, D., Chan, S. Y., Kamimura, R. T., Kumari, S., Drake, M. M., Brettin, T. S., ... Yu, D. (2018). KBase: The United States department of energy systems biology knowledgebase. Nature Biotechnology, 36(7), 566-569. https://doi.org/10.1038/nbt.4163

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Arkin, AP, Cottingham, RW, Henry, CS, Harris, NL, Stevens, RL, Maslov, S, Dehal, P, Ware, D, Perez, F, Canon, S, Sneddon, MW, Henderson, ML, Riehl, WJ, Murphy-Olson, D, Chan, SY, Kamimura, RT, Kumari, S, Drake, MM, Brettin, TS, Glass, EM, Chivian, D, Gunter, D, Weston, DJ , Allen, BH, Baumohl, J, Best, AA, Bowen, B, Brenner, SE, Bun, CC, Chandonia, JM, Chia, JM, Colasanti, R, Conrad, N, Davis, JJ, Davison, BH, Dejongh, M, Devoid, S, Dietrich, E, Dubchak, I, Edirisinghe, JN, Fang, G, Faria, JP, Frybarger, PM, Gerlach, W, Gerstein, M, Greiner, A, Gurtowski, J, Haun, HL, He, F, Jain, R, Joachimiak, MP, Keegan, KP, Kondo, S, Kumar, V, Land, ML, Meyer, F, Mills, M, Novichkov, PS, Oh, T, Olsen, GJ, Olson, R, Parrello, B, Pasternak, S, Pearson, E, Poon, SS, Price, GA, Ramakrishnan, S, Ranjan, P, Ronald, PC, Schatz, MC, Seaver, SMD, Shukla, M, Sutormin, RA, Syed, MH, Thomason, J, Tintle, NL, Wang, D, Xia, F, Yoo, H, Yoo, S & Yu, D 2018, 'KBase: The United States department of energy systems biology knowledgebase', Nature Biotechnology, vol. 36, no. 7, pp. 566-569. https://doi.org/10.1038/nbt.4163

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KBase: The United States department of energy systems biology knowledgebase

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The moderately defficient enzyme: Catalysis-related damage in vivo and its repair

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KBase: The United States department of energy systems biology knowledgebase

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The moderately defficient enzyme: Catalysis-related damage in vivo and its repair

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