News

Nature paper picked up in news outlets

The Nature Translational Psychiatry paper has been picked up by a number of news outlets, including KTVZ (Oregon News Channel 21) and Reddit!

http://today.oregonstate.edu/news/schizophrenics%E2%80%99-blood-has-more-genetic-material-microbes

Transcriptome analysis in whole blood reveals increased microbial diversity in schizophrenia

Along with collaborators at UCLA, we were able to detect a small, but significant amount of microbes in blood This is surprising since it's typically assumed that the immune system typically removes any microbial presence from human blood. I used a reference-free microbial community algorithm, called EMDeBruijn, to help corroborate the patterns we saw which included an increase in microbial diversity in schizophrenia patients. EMDeBruijn is a metric based on the Wasserstein metric (aka the Earth Mover's Distance) and a de Bruijn graph induced by the k-mers in a metagenomic DNA sample.

Featured article in OSU iMPACT

My recent work with the CAMI project was featured in the OSU iMPACT magazine. The article summarizes the results of the most recent CAMI challenge in which performed a large scale comparison of metagenomic analysis tools (and discovered that many do not perform as well as advertised).

NIH NCATS grant award

I'm pleased to announce that we've recently been funded by the NIH National Center for Advancing Translational Sciences (NCATS) along with Steve Ramsey (Oregon State). Co-PI subawardees include Eric Deutsch (ISB), and Arnab Nandi (Ohio State).

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Improving Min Hash for Metagenomic Classification

A presentation about work with Hooman Zabeti that used probabilistic data analysis to analyze metagenomic communities.

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