Thomas J. Sharpton

TL;DR: The Human Microbiome Project Consortium reported the first results of their analysis of microbial communities from distinct, clinically relevant body habitats in a human cohort; the insights into the microbial communities of a healthy population lay foundations for future exploration of the epidemiology, ecology and translational applications of the human microbiome as discussed by the authors.

TL;DR: The Human Microbiome Project has analysed the largest cohort and set of distinct, clinically relevant body habitats so far, finding the diversity and abundance of each habitat’s signature microbes to vary widely even among healthy subjects, with strong niche specialization both within and among individuals.

TL;DR: The Human Microbiome Project (HMP) Consortium has established a population-scale framework which catalyzed significant development of metagenomic protocols resulting in a broad range of quality-controlled resources and data including standardized methods for creating, processing and interpreting distinct types of high-throughput metagenomics data available to the scientific community as mentioned in this paper.

TL;DR: This review describes the analytical strategies and specific tools that can be applied to metagenomic data and the considerations and caveats associated with their use and documents how metagenomes can be analyzed to quantify community structure and diversity.

TL;DR: Metacoder, an R package for easily parsing, manipulating, and graphing publication-ready plots of hierarchical data, designed for data from metabarcoding research, can easily be applied to any data that has a hierarchical component such as gene ontology or geographic location data.