Deciphering microbial interactions and detecting keystone species with co-occurrence networks
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Acinas, 2004, Divergence and redundancy of 16S rRNA sequences in genomes with multiple rrn operons, J. Bacteriol, 186, 2629, 10.1128/JB.186.9.2629-2635.2004
Aitchison, 2003, A concise guide to compositional data analysis, 2nd Compositional Data Analysis Workshop
Baker, 2003, Microbial communities in acid mine drainage, FEMS Microbiol. Rev, 44, 139, 10.1016/S0168-6496(03)00028-X
Barabasi, 1999, Emergence of scaling in random networks, Science, 286, 509, 10.1126/science.286.5439.509
Barberán, 2012, Using network analysis to explore co-occurrence patterns in soil microbial communities, ISME J, 6, 343, 10.1038/ismej.2011.119
Benjamini, 1995, Controlling the false discovery rate: a practical and powerful approach to multiple testing, J. R. Stat. Soc. [Ser. B], 57, 289, 10.2307/2346101
Bent, 2008, The tragedy of the uncommon: understanding limitations in the analysis of microbial diversity, ISME J, 2, 689, 10.1038/ismej.2008.44
Berry, 2011, Barcoded primers used in multiplex amplicon pyrosequencing bias amplification, Appl. Environ. Microbiol, 77, 7846, 10.1128/AEM.05220-11
Berry, 2013, Host-compound foraging by intestinal microbiota revealed by single-cell stable isotope probing, Proc. Natl. Acad. Sci. U.S.A, 110, 4720, 10.1073/pnas.1219247110
Bowers, 2009, Characterization of airborne microbial communities at a high-elevation site and their potential to act as atmospheric ice nuclei, Appl. Environ. Microbiol, 75, 5121, 10.1128/AEM.00447-09
Briones, 2003, Diversity and dynamics of microbial communities in engineered environments and their implications for process stability, Curr. Opin. Biotechnol, 14, 270, 10.1016/S0958-1669(03)00065-X
Caporaso, 2011, Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample, Proc. Natl. Acad. Sci. U.S.A, 108, 4516, 10.1073/pnas.1000080107
Case, 2000, An Illustrated Guide to Theoretical Ecology
Chandler, 1997, Effect of PCR template concentration on the composition and distribution of total community 16S rDNA clone libraries, Mol. Ecol, 6, 475, 10.1046/j.1365-294X.1997.00205.x
Cody, 1975, Ecology and Evolution of Communities