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Journal of Microbiology & Biology Education|April 6, 2016
Turning Participatory Microbiome Research into Usable Data: Lessons from the American Gut ProjectJustine W Debelius, Yoshiki Vázquez-Baeza, Daniel McDonald, et al.
Proceedings of the National Academy of Sciences of the United States of America|March 17, 2010
Forensic identification using skin bacterial communitiesNoah Fierer, Christian L Lauber, Nick Zhou, et al.
Frontiers in Bioinformatics|October 28, 2022
Applications and Comparison of Dimensionality Reduction Methods for Microbiome DataGeorge Armstrong, Gibraan Rahman, Cameron Martino, et al.
Molecular Ecology Resources|April 24, 2026
SPrUCE: Utilizing Ultraconserved Elements of DNA for Population-Level Genetic Diversity EstimationDaira Melendez, Ali Osman Berk Şapcı, Vineet Bafna, et al.
Plos One|August 23, 2019
TreeCluster: Clustering biological sequences using phylogenetic treesMetin Balaban, Niema Moshiri, Uyen Mai, et al.
Genome Biology|June 17, 2015
Ultra-large alignments using phylogeny-aware profilesNam-Phuong D Nguyen, Siavash Mirarab, Keerthana Kumar, et al.
Molecular Ecology|June 17, 2020
Beyond DNA barcoding: The unrealized potential of genome skim data in sample identificationKristine Bohmann, Siavash Mirarab, Vineet Bafna, et al.
Biorxiv : the Preprint Server for Biology|June 12, 2026
DipSkmer: Reference-free population genomics with diploid genome skimsEduardo Charvel, Homėre J Alves Monteiro, Siavash Mirarab, et al.
Bioinformatics (Oxford, England)|November 6, 2018
FAVITES: simultaneous simulation of transmission networks, phylogenetic trees and sequencesNiema Moshiri, Manon Ragonnet-Cronin, Joel O Wertheim, et al.
BMC Bioinformatics|December 3, 2008
Comparison of methods for estimating the nucleotide substitution matrixMaribeth Oscamou, Daniel McDonald, Von Bing Yap, et al.
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