FunGene: the functional gene pipeline and repository
作者： Jordan A. Fish , Benli Chai , Qiong Wang , Yanni Sun , C. Titus Brown
关键词:
摘要: … sequences from different functional gene families, we have developed a reconfigurable pipeline of tools with a specific configuration for each supported functional gene family. Workflow …
frontiersin.org
core.ac.uk
elsevier.com
osti.gov
researchgate.net 
sci-hub.se 参考文章(56)
Hikaru Suenaga, Targeted metagenomics: a high-resolution metagenomics approach for specific gene clusters in complex microbial communities. Environmental Microbiology. ,vol. 14, pp. 13- 22 ,(2012) , 10.1111/J.1462-2920.2011.02438.X
Sophie Wertz, Catherine E. Dandie, Claudia Goyer, Jack T. Trevors, Cheryl L. Patten, Diversity of nirK denitrifying genes and transcripts in an agricultural soil. Applied and Environmental Microbiology. ,vol. 75, pp. 7365- 7377 ,(2009) , 10.1128/AEM.01588-09
Franck Poly, Lucile Jocteur Monrozier, René Bally, Improvement in the RFLP procedure for studying the diversity of nifH genes in communities of nitrogen fixers in soil Research in Microbiology. ,vol. 152, pp. 95- 103 ,(2001) , 10.1016/S0923-2508(00)01172-4
Y. Loewenstein, E. Portugaly, M. Fromer, M. Linial, Efficient algorithms for accurate hierarchical clustering of huge datasets intelligent systems in molecular biology. ,vol. 24, pp. 41- 49 ,(2008) , 10.1093/BIOINFORMATICS/BTN174
Anne Chao, Robin L. Chazdon, Robert K. Colwell, Tsung-Jen Shen, Abundance-based similarity indices and their estimation when there are unseen species in samples. Biometrics. ,vol. 62, pp. 361- 371 ,(2006) , 10.1111/J.1541-0420.2005.00489.X
Qiong Wang, John F. Quensen, Jordan A. Fish, Tae Kwon Lee, Yanni Sun, James M. Tiedje, James R. Cole, Ecological Patterns of nifH Genes in Four Terrestrial Climatic Zones Explored with Targeted Metagenomics Using FrameBot, a New Informatics Tool Mbio. ,vol. 4, ,(2013) , 10.1128/MBIO.00592-13
Brian B Oakley, Franck Carbonero, Scot E Dowd, Robert J Hawkins, Kevin J Purdy, Contrasting patterns of niche partitioning between two anaerobic terminal oxidizers of organic matter. The ISME Journal. ,vol. 6, pp. 905- 914 ,(2012) , 10.1038/ISMEJ.2011.165
J. R. Cole, Q. Wang, E. Cardenas, J. Fish, B. Chai, R. J. Farris, A. S. Kulam-Syed-Mohideen, D. M. McGarrell, T. Marsh, G. M. Garrity, J. M. Tiedje, The Ribosomal Database Project: improved alignments and new tools for rRNA analysis Nucleic Acids Research. ,vol. 37, pp. 141- 145 ,(2009) , 10.1093/NAR/GKN879
Victor Kunin, Anna Engelbrektson, Howard Ochman, Philip Hugenholtz, Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates. Environmental Microbiology. ,vol. 12, pp. 118- 123 ,(2010) , 10.1111/J.1462-2920.2009.02051.X
Scott R. Santos, Howard Ochman, Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins. Environmental Microbiology. ,vol. 6, pp. 754- 759 ,(2004) , 10.1111/J.1462-2920.2004.00617.X