Publications by authors named "Alexandra A Tsigarida"

1 Publications

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PhyloToAST: Bioinformatics tools for species-level analysis and visualization of complex microbial datasets.

Sci Rep 2016 06 30;6:29123. Epub 2016 Jun 30.

Division of Periodontology, College of Dentistry, The Ohio State University, Columbus, Ohio, USA.

The 16S rRNA gene is widely used for taxonomic profiling of microbial ecosystems; and recent advances in sequencing chemistry have allowed extremely large numbers of sequences to be generated from minimal amounts of biological samples. Analysis speed and resolution of data to species-level taxa are two important factors in large-scale explorations of complex microbiomes using 16S sequencing. We present here new software, Phylogenetic Tools for Analysis of Species-level Taxa (PhyloToAST), that completely integrates with the QIIME pipeline to improve analysis speed, reduce primer bias (requiring two sequencing primers), enhance species-level analysis, and add new visualization tools. The code is free and open source, and can be accessed at http://phylotoast.org.
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http://dx.doi.org/10.1038/srep29123DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4928119PMC
June 2016