Schwager E, Mallick H, Ventz S, Huttenhower C. A Bayesian method for detecting pairwise associations in compositional data. PLoS Comput Biol. 2017;13(11):e1005852. doi:10.1371/journal.pcbi.1005852
Thompson LR, Sanders JG, McDonald D, et al. A communal catalogue reveals Earth’s multiscale microbial diversity. Nature. 2017;551(7681):457-463. doi:10.1038/nature24621
Pasolli E, Schiffer L, Manghi P, et al. Accessible, curated metagenomic data through ExperimentHub. Nat Methods. 2017;14(11):1023-1024. doi:10.1038/nmeth.4468
Atarashi K, Suda W, Luo C, et al. Ectopic colonization of oral bacteria in the intestine drives T1 cell induction and inflammation. Science. 2017;358(6361):359-365. doi:10.1126/science.aan4526
Kolde R, Franzosa EA, Rahnavard G, et al. Host genetic variation and its microbiome interactions within the Human Microbiome Project. Genome Med. 2018;10(1):6. doi:10.1186/s13073-018-0515-8
Walker MA, Pedamallu CS, Ojesina AI, et al. GATK PathSeq: a customizable computational tool for the discovery and identification of microbial sequences in libraries from eukaryotic hosts. Bioinformatics. 2018;34(24):4287-4289. doi:10.1093/bioinformatics/bty501
Song M, Chan AT. Environmental Factors, Gut Microbiota, and Colorectal Cancer Prevention. Clin Gastroenterol Hepatol. 2019;17(2):275-289. doi:10.1016/j.cgh.2018.07.012
Ogino S, Nowak JA, Hamada T, Milner DA, Nishihara R. Insights into Pathogenic Interactions Among Environment, Host, and Tumor at the Crossroads of Molecular Pathology and Epidemiology. Annu Rev Pathol. 2019;14:83-103. doi:10.1146/annurev-pathmechdis-012418-012818
Bullman S, Pedamallu CS, Sicinska E, et al. Analysis of persistence and antibiotic response in colorectal cancer. Science. 2017;358(6369):1443-1448. doi:10.1126/science.aal5240
Lloyd-Price J, Mahurkar A, Rahnavard G, et al. Strains, functions and dynamics in the expanded Human Microbiome Project. Nature. 2017;550(7674):61-66. doi:10.1038/nature23889