Yang X, Zola J, Aluru S. Large-scale metagenomic sequence clustering on map-reduce clusters. J Bioinform Comput Biol. 2013;11(1):1340001. doi:10.1142/S0219720013400015
Zhernakova A, Kurilshikov A, Bonder MJ, et al. Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity. Science. 2016;352(6285):565-9. doi:10.1126/science.aad3369
Tickle TL, Segata N, Waldron L, Weingart U, Huttenhower C. Two-stage microbial community experimental design. ISME J. 2013;7(12):2330-9. doi:10.1038/ismej.2013.139
Thomas JC, Godfrey PA, Feldgarden M, Robinson A. Candidate targets of balancing selection in the genome of Staphylococcus aureus. Mol Biol Evol. 2012;29(4):1175-86. doi:10.1093/molbev/msr286
Huang K, Brady A, Mahurkar A, et al. MetaRef: a pan-genomic database for comparative and community microbial genomics. Nucleic Acids Res. 2014;42(Database issue):D617-24. doi:10.1093/nar/gkt1078
Morgan XC, Huttenhower C. Meta’omic analytic techniques for studying the intestinal microbiome. Gastroenterology. 2014;146(6):1437-1448.e1. doi:10.1053/j.gastro.2014.01.049
Kostic AD, Xavier RJ, Gevers D. The microbiome in inflammatory bowel disease: current status and the future ahead. Gastroenterology. 2014;146(6):1489-99. doi:10.1053/j.gastro.2014.02.009
Human Microbiome Project Consortium. Structure, function and diversity of the healthy human microbiome. Nature. 2012;486(7402):207-14. doi:10.1038/nature11234
Joice R, Yasuda K, Shafquat A, Morgan XC, Huttenhower C. Determining microbial products and identifying molecular targets in the human microbiome. Cell Metab. 2014;20(5):731-41. doi:10.1016/j.cmet.2014.10.003
Franzosa EA, Hsu T, Sirota-Madi A, et al. Sequencing and beyond: integrating molecular ’omics’ for microbial community profiling. Nat Rev Microbiol. 2015;13(6):360-72. doi:10.1038/nrmicro3451