Inferring Correlation Networks from Genomic Survey Data
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[1] Susan M. Huse,et al. Ironing out the wrinkles in the rare biosphere through improved OTU clustering , 2010, Environmental microbiology.
[2] Patrick D. Schloss,et al. Reducing the Effects of PCR Amplification and Sequencing Artifacts on 16S rRNA-Based Studies , 2011, PloS one.
[3] V. Pawlowsky-Glahn,et al. Dealing with Zeros and Missing Values in Compositional Data Sets Using Nonparametric Imputation , 2003 .
[4] Julian Parkhill,et al. Microbiology in the post-genomic era , 2008, Nature Reviews Microbiology.
[5] V. Pawlowsky-Glahn,et al. Compositional data analysis : theory and applications , 2011 .
[6] Travis E. Oliphant,et al. Python for Scientific Computing , 2007, Computing in Science & Engineering.
[7] P. Filzmoser,et al. Correlation Analysis for Compositional Data , 2009 .
[8] R. M. Lark,et al. Compositional Data Analysis in the Geosciences: from Theory to Practice , 2008 .
[9] Donald A. Jackson. COMPOSITIONAL DATA IN COMMUNITY ECOLOGY: THE PARADIGM OR PERIL OF PROPORTIONS? , 1997 .
[10] John D. Hunter,et al. Matplotlib: A 2D Graphics Environment , 2007, Computing in Science & Engineering.
[11] Alan Agresti,et al. Bayesian inference for categorical data analysis , 2005, Stat. Methods Appl..
[12] John C. Butler,et al. Complete subcompositional independence testing of closed arrays , 1985 .
[13] Katherine H. Huang,et al. A framework for human microbiome research , 2012, Nature.
[14] R. Knight,et al. Microbial community resemblance methods differ in their ability to detect biologically relevant patterns , 2010, Nature Methods.
[15] David B. Dunson,et al. Bayesian Data Analysis , 2010 .
[16] A. Chao,et al. Nonparametric estimation of Shannon’s index of diversity when there are unseen species in sample , 2004, Environmental and Ecological Statistics.
[17] B. Haas,et al. Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons. , 2011, Genome research.
[18] K. Pearson. Mathematical contributions to the theory of evolution.—On a form of spurious correlation which may arise when indices are used in the measurement of organs , 1897, Proceedings of the Royal Society of London.
[19] J. Aitchison. A new approach to null correlations of proportions , 1981 .
[20] Korbinian Strimmer,et al. Entropy Inference and the James-Stein Estimator, with Application to Nonlinear Gene Association Networks , 2008, J. Mach. Learn. Res..
[21] J. Aitchison,et al. Compositional Data Analysis: Where Are We and Where Should We Be Heading? , 2003 .
[22] Josep Antoni Martín-Fernández,et al. Compositional VARIMA Time Series , 2011 .
[23] L. Forney,et al. The tragedy of the uncommon: understanding limitations in the analysis of microbial diversity , 2008, The ISME Journal.
[24] H. Ochman,et al. Illumina-based analysis of microbial community diversity , 2011, The ISME Journal.
[25] John Aitchison,et al. The Statistical Analysis of Compositional Data , 1986 .
[26] Jeremiah J. Faith,et al. Many Microbe Microarrays Database: uniformly normalized Affymetrix compendia with structured experimental metadata , 2007, Nucleic Acids Res..
[27] L. Jost. Entropy and diversity , 2006 .
[28] J. Aitchison. On criteria for measures of compositional difference , 1992 .
[29] Lynn K. Carmichael,et al. Evaluation of 16S rDNA-Based Community Profiling for Human Microbiome Research , 2012, PloS one.
[30] Aric Hagberg,et al. Exploring Network Structure, Dynamics, and Function using NetworkX , 2008 .