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
Franzosa EA, Huang K, Meadow JF, et al. Identifying personal microbiomes using metagenomic codes. Proc Natl Acad Sci U S A. 2015;112(22):E2930-8. doi:10.1073/pnas.1423854112
Korem T, Zeevi D, Suez J, et al. Growth dynamics of gut microbiota in health and disease inferred from single metagenomic samples. Science. 2015;349(6252):1101-6. doi:10.1126/science.aac4812
Luo C, Knight R, Siljander H, Knip M, Xavier RJ, Gevers D. ConStrains identifies microbial strains in metagenomic datasets. Nat Biotechnol. 2015;33(10):1045-52. doi:10.1038/nbt.3319
Cleary B, Brito IL, Huang K, et al. Detection of low-abundance bacterial strains in metagenomic datasets by eigengenome partitioning. Nat Biotechnol. 2015;33(10):1053-60. doi:10.1038/nbt.3329
Blekhman R, Goodrich JK, Huang K, et al. Host genetic variation impacts microbiome composition across human body sites. Genome Biol. 2015;16:191. doi:10.1186/s13059-015-0759-1
Spencer SJ, Tamminen MV, Preheim SP, et al. Massively parallel sequencing of single cells by epicPCR links functional genes with phylogenetic markers. ISME J. 2016;10(2):427-36. doi:10.1038/ismej.2015.124
Truong DT, Franzosa EA, Tickle TL, et al. MetaPhlAn2 for enhanced metagenomic taxonomic profiling. Nat Methods. 2015;12(10):902-3. doi:10.1038/nmeth.3589
Schirmer M, D’Amore R, Ijaz UZ, Hall N, Quince C. Illumina error profiles: resolving fine-scale variation in metagenomic sequencing data. BMC Bioinformatics. 2016;17:125. doi:10.1186/s12859-016-0976-y
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