Structure, function and diversity of the healthy human microbiome
Studies of the human microbiome have revealed that even healthy individuals differ remarkably in the microbes that occupy habitats such as the gut, skin and vagina. Much of this...
Publications
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729 publications
Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
ABSTRACT A 16S rRNA gene database ( http://greengenes.lbl.gov ) addresses limitations of public repositories by providing chimera screening, standard alignment, and taxonomic cl...
Significance analysis of microarrays applied to the ionizing radiation response
Microarrays can measure the expression of thousands of genes to identify changes in expression between different biological states. Methods are needed to determine the significa...
Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation
Abstract The Interactive Tree Of Life (https://itol.embl.de) is an online tool for the display, manipulation and annotation of phylogenetic and other trees. It is freely availab...
jModelTest: Phylogenetic Model Averaging
jModelTest is a new program for the statistical selection of models of nucleotide substitution based on "Phyml" (Guindon and Gascuel 2003. A simple, fast, and accurate algorithm...
node2vec
Prediction tasks over nodes and edges in networks require careful effort in engineering features used by learning algorithms. Recent research in the broader field of representat...
Minimal information for studies of extracellular vesicles 2018 (MISEV2018): a position statement of the International Society for Extracellular Vesicles and update of the MISEV2014 guidelines
ABSTRACT The last decade has seen a sharp increase in the number of scientific publications describing physiological and pathological functions of extracellular vesicles (EVs), ...
Jalview Version 2—a multiple sequence alignment editor and analysis workbench
Abstract Summary: Jalview Version 2 is a system for interactive WYSIWYG editing, analysis and annotation of multiple sequence alignments. Core features include keyboard and mous...
Prospective identification of tumorigenic breast cancer cells
Breast cancer is the most common malignancy in United States women, accounting for >40,000 deaths each year. These breast tumors are comprised of phenotypically diverse popul...
Efficacy and Safety of the mRNA-1273 SARS-CoV-2 Vaccine
The mRNA-1273 vaccine showed 94.1% efficacy at preventing Covid-19 illness, including severe disease. Aside from transient local and systemic reactions, no safety concerns were ...
NCBI GEO: archive for functional genomics data sets—update
The Gene Expression Omnibus (GEO, http://www.ncbi.nlm.nih.gov/geo/) is an international public repository for high-throughput microarray and next-generation sequence functional ...