Bibliography

Aitchison, John. 1986. The Statistical Analysis of Compositional Data. Chapman; Hall London.

Arumugam, Manimozhiyan, Jeroen Raes, Eric Pelletier, Denis Le Paslier, Takuji Yamada, Daniel R Mende, Gabriel R Fernandes, et al. 2011. “Enterotypes of the Human Gut Microbiome.” Nature 473 (7346). Nature Publishing Group: 174.

Chapleur, Olivier, Céline Madigou, Raphaël Civade, Yohan Rodolphe, Laurent Mazéas, and Théodore Bouchez. 2016. “Increasing Concentrations of Phenol Progressively Affect Anaerobic Digestion of Cellulose and Associated Microbial Communities.” Biodegradation 27 (1). Springer: 15–27.

Gagnon-Bartsch, Johann A, Laurent Jacob, and Terence P Speed. 2013. “Removing Unwanted Variation from High Dimensional Data with Negative Controls.” Berkeley: Tech Reports from Dep Stat Univ California. Citeseer, 1–112.

Gibbons, Sean M, Claire Duvallet, and Eric J Alm. 2018. “Correcting for Batch Effects in Case-Control Microbiome Studies.” PLoS Computational Biology 14 (4). Public Library of Science: e1006102.

Kong, Geraldine, Kim-Anh Lê Cao, Louise M Judd, ShanShan Li, Thibault Renoir, and Anthony J Hannan. 2018. “Microbiome Profiling Reveals Gut Dysbiosis in a Transgenic Mouse Model of Huntington’s Disease.” Neurobiology of Disease. Elsevier.

Lin, Yingxin, Shila Ghazanfar, Kevin Wang, Johann A Gagnon-Bartsch, Kitty K Lo, Xianbin Su, Ze-Guang Han, et al. 2018. “scMerge: Integration of Multiple Single-Cell Transcriptomics Datasets Leveraging Stable Expression and Pseudo-Replication.” BioRxiv. Cold Spring Harbor Laboratory, 393280.

Sacristán-Soriano, Oriol, Bernard Banaigs, Emilio O Casamayor, and Mikel A Becerro. 2011. “Exploring the Links Between Natural Products and Bacterial Assemblages in the Sponge Aplysina Aerophoba.” Applied and Environmental Microbiology 77 (3). Am Soc Microbiol: 862–70.