Metagenomics Clustering Lab Meeting
From Biowiki
Wednesday 5/23/2007, noon, 425 Hearst Mining Building. See Lab Meeting.
Review of phylogenetic & taxonomic approaches to metagenomics datasets.
- Pachter et al review (Avinash)
- Focus on the section titled "Phylogeny and Community Diversity"
- Chen & Pachter: Bioinformatics for whole-genome shotgun sequencing of microbial communities. PLoS Comput. Biol. 2005;1:106-12.
- Sorcerer (Andrew)
- Focus on the section titled "Taxonomic Diversity"
- Rusch et al.: The Sorcerer II Global Ocean Sampling expedition: northwest Atlantic through eastern tropical Pacific. PLoS Biol. 2007;5:e77.
- Edwards et al: Prediction of physiology, metabolism, and ecology from metagenomes (Rob)
- Rodriguez-Brito et al.: An application of statistics to comparative metagenomics. BMC Bioinformatics 2006;7:162.
- MEGAN (Mitch)
- Huson et al.: MEGAN analysis of metagenomic data. Genome Res. 2007;17:377-86.
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Future papers to consider:
- More from the Sorcerer expedition
- Yooseph et al.: The Sorcerer II Global Ocean Sampling expedition: expanding the universe of protein families. PLoS Biol. 2007;5:e16.
- PLoS Biology special issue 2007
- Paleogenomics & metagenomics
- Noonan et al.: Sequencing and analysis of Neanderthal genomic DNA. Science 2006;314:1113-8.
- Steven Brenner lab
- Darren Platt & JGI
- List of publications here
- Steve Jones
- HIV metagenomics
- Marcin Joachimiak -- suggestions?
- Adam Arkin lab
- Jay Keasling lab
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Potentially useful context:
