Robert Edgar at #UCDavis 3/30 “Sequence analysis for marker gene metagenomics”

University of California, Davis

Department of Microbiology & Molecular Genetics

College of Biological Sciences

MIC 291: Selected Topics in Microbiology

Work-in-Progress Seminars

Dr. Robert Edgar

(Independent scientist and consultant in fields of computational biology and bioinformatics)

Sequence analysis for marker gene metagenomics

Wednesday, March 30, 2016


1022 Life Sciences

Abstract: Microbial community studies using marker genes such as 16S and ITS present challenging sequence analysis problems due to sparse coverage in reference databases and the difficulty in distinguishing experimental error from true biological variation. I will show that several popular algorithms for taxonomy prediction and for creating de novo clusters (OTUs) have high error rates, and describe new algorithms with greatly improved accuracy.

Dr. Edgar is best known for developing the widely-used MUSCLE and USEARCH programs, which have been cited by thousands of published papers. He also works as a consultant and looks for opportunities to leverage his unique combination of business and scientific skills by helping start-up companies.

Host: Prof. Mitch Singer (mhsinger)

Department of Microbiology & Molecular Genetics

(note – title uses a definition of metagenomics that I do not endorse …)

Edgar 3-30-16.doc

Author: Jonathan Eisen

I am an evolutionary biologist and a Professor at U. C. Davis. (see my lab site here). My research focuses on the origin of novelty (how new processes and functions originate). To study this I focus on sequencing and analyzing genomes of organisms, especially microbes and using phylogenomic analysis

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