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Performance-based selection of likelihood models for phylogeny estimation.
Phylogenetic estimation has largely come to rely on explicitly model-based methods. This approach requires that a model be chosen and that that choice be justified. To date, justification has largely… Expand
Statistical methods for characterizing diversity of microbial communities by analysis of terminal restriction fragment length polymorphisms of 16S rRNA genes.
- Z. Abdo, Ursel M E Schüette, S. Bent, C. J. Williams, L. Forney, P. Joyce
- Biology, Medicine
- Environmental microbiology
- 1 May 2006
The analysis of terminal restriction fragment length polymorphisms (T-RFLP) of 16S rRNA genes has proven to be a facile means to compare microbial communities and presumptively identify abundant… Expand
Advances in the use of terminal restriction fragment length polymorphism (T-RFLP) analysis of 16S rRNA genes to characterize microbial communities
- Ursel M. E. Schütte, Z. Abdo, +4 authors L. Forney
- Biology, Medicine
- Applied Microbiology and Biotechnology
- 22 July 2008
Terminal restriction fragment length polymorphism (T-RFLP) analysis is a popular high-throughput fingerprinting technique used to monitor changes in the structure and composition of microbial… Expand
MEGARes: an antimicrobial resistance database for high throughput sequencing
- Steven M. Lakin, Christopher J. Dean, +10 authors C. Boucher
- Computer Science, Biology
- Nucleic Acids Res.
- 24 November 2016
We present MEGARes, a hand-curated antimicrobial resistance database and annotation structure that provides a foundation for the development of high throughput acyclical classifiers and hierarchical statistical analysis of big data. Expand
Molecular characterization of mucosal adherent bacteria and associations with colorectal adenomas
The human large bowel is colonized by complex and diverse bacterial communities. However, the relationship between commensal bowel bacteria and adenomas (colorectal cancer precursors) is unclear.… Expand
Microbiota of the seminal fluid from healthy and infertile men.
OBJECTIVE To explore potential causes of male infertility by determining the composition and structure of commensal bacterial communities in seminal fluids. DESIGN Microscopy of Gram-stained semen… Expand
Bacterial succession in a glacier foreland of the High Arctic
Succession is defined as changes in biological communities over time. It has been extensively studied in plant communities, but little is known about bacterial succession, in particular in… Expand
A step toward barcoding life: a model-based, decision-theoretic method to assign genes to preexisting species groups.
A major part of the barcoding of life problem is assigning newly sequenced or sampled individuals to existing groups that are preidentified externally (by a taxonomist, for example). This problem… Expand
Bacterial diversity in a glacier foreland of the high Arctic
Over the past 100 years, Arctic temperatures have increased at almost twice the global average rate. One consequence is the acceleration of glacier retreat, exposing new habitats that are colonized… Expand
Increased rectal microbial richness is associated with the presence of colorectal adenomas in humans
Differences in the composition of the gut microbial community have been associated with diseases such as obesity, Crohn’s disease, ulcerative colitis and colorectal cancer (CRC). We used 454 titanium… Expand