selected publications
-
academic article
- Associations between sexual habits, menstrual hygiene practices, demographics and the vaginal microbiome as revealed by Bayesian network analysis. PLOS ONE. 13:e0191625. 2018
- Associations between sexual habits, menstrual hygiene practices, demographics and the vaginal microbiome as revealed by Bayesian network analysis.. PLOS ONE. 13:e0191625. 2018
- Determining the distribution of fitness effects using a generalized Beta-Burr distribution. Theoretical Population Biology. 122:88-96. 2018
- Effects of tampons and menses on the composition and diversity of vaginal microbial communities over time. BJOG: an International Journal of Obstetrics and Gynaecology. 120:695-706. 2013
- The role of clonal interference in the evolutionary dynamics of plasmid-host adaptation. MBio. 3:e00077. 2012
- mcaGUI: microbial community analysis R-Graphical User Interface (GUI).. Bioinformatics. 28. 2012
- Temporal dynamics of the human vaginal microbiota. Science Translational Medicine. 4. 2012
- Association Between Trichomonas vaginalis and Vaginal Bacterial Community Composition Among Reproductive-Age Women. Sexually Transmitted Diseases. 39:807-812. 2012
- Evaluation of methods for the extraction and purification of DNA from the human microbiome. PLOS ONE. 7. 2012
- Vaginal microbiome of reproductive-age women. Proceedings of the National Academy of Sciences of the United States of America. 108:4680-4687. 2011
- Caring about trees in the forest: incorporating frailty in risk analysis for personalized medicine. Personalized Medicine. 8:681-688. 2011
- Characterization of the diversity and temporal stability of bacterial communities in human milk. PLOS ONE. 6:e21313. 2011
- Bacterial diversity in a glacier foreland of the high Arctic.. Molecular Ecology. 19 Suppl 1. 2010
- Effects of parameter estimation on maximum-likelihood bootstrap analysis. Molecular Phylogenetics and Evolution. 56:642-648. 2010
- Shifts in the host range of a promiscuous plasmid through parallel evolution of its replication initiation protein. The ISME (International Society for Microbial Ecology) Journal. 4:1568-1580. 2010
- Bacterial succession in a glacier foreland of the High Arctic. The ISME (International Society for Microbial Ecology) Journal. 3:1258-1268. 2009
- Estimation of Selection Intensity under Overdominance by Bayesian Methods. Statistical Applications In Genetics and Molecular Biology. 8. 2009
- The Genetics of Adaptation For Eight Microvirid Bacteriophages. Journal of Molecular Evolution. 69:229-239. 2009
- Advances in the use of terminal restriction fragment length polymorphism (T-RFLP) analysis of 16S rRNA genes to characterize microbial communities. Applied Microbiology and Biotechnology. 80:365-380. 2008
- Differences in the composition of vaginal microbial communities found in healthy Caucasian and black women.. The ISME (International Society for Microbial Ecology) Journal. 1:121-133. 2007
- Statistical methods for characterizing diversity of microbial communities by analysis of terminal restriction fragment length polymorphisms of 16S rRNA genes. Environmental Microbiology. 8:929-938. 2006
- Accounting for uncertainty in the tree topology has little effect on the decision-theoretic approach to model selection in phylogeny estimation. Molecular Biology and Evolution. 22:691-703. 2005
- Evaluating the performance of a successive-approximations approach to parameter optimization in maximum-likelihood phylogeny estimation. Molecular Biology and Evolution. 22:1386-1392. 2005
- Modeling the impact of periodic bottlenecks, unidirectional mutation, and observational error in experimental evolution.. Journal of Mathematical Biology. 50:645-662. 2005
- Combining mathematical models and statistical methods to understand and predict the dynamics of antibiotic-sensitive mutants in a population of resistant bacteria during experimental evolution. Genetics. 168:1131-1144. 2004
- Evaluating the performance of likelihood methods for detecting population structure and migration. Molecular Ecology. 13:837-851. 2004
- Performance-based selection of likelihood models for phylogeny estimation. Systematic Biology. 52:674-683. 2003
- Efficient use of animal manure on cropland - economic analysis. Bioresource Technology. 79:179-191. 2001
-
chapter
- A bird's eye view of microbial community dynamics. Microbial Ecological Theory: Current Perspectives. 57-70. 2012