The genomic standards consortium: bringing standards to life for microbial ecology.
作者信息
Yilmaz Pelin, Gilbert Jack A, Knight Rob, Amaral-Zettler Linda, Karsch-Mizrachi Ilene, Cochrane Guy, Nakamura Yasukazu, Sansone Susanna-Assunta, Glöckner Frank Oliver, Field Dawn
机构信息
Microbial Genomics and Bioinformatics Group, Max Planck Institute for Marine Microbiology, Bremen, Germany.
出版信息
ISME J. 2011 Oct;5(10):1565-7. doi: 10.1038/ismej.2011.39. Epub 2011 Apr 7.
Abstract
摘要
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PLoS One. 2010 Nov 29;5(11):e15545. doi: 10.1371/journal.pone.0015545.
3
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