The advance of DNA sequencing technologies are rapidly changing the field of microbiology. In particularly, large amount of sequence data can be relatively easily produced these days. However, bioinformatics data analysis, i.e., making sense of those sequence data, remains a challenge especially for a typical biology laboratory that is not equipped or experienced to handle such large data set. Microbiota.org aims to collaborate with microbiologists to analyze metagenomic sequence data. Specifically, we provide comprehensive sequence analysis such as taxonomic annotation, phylotype diversity, identification of significantly biased bacteria, and clustering analysis. We also develop project-specific web sites for our collaborators. Currently, we are conducting a number of ongoing collaborative research projects. If you are interested in a collaboration us, please feel free to contact us.