Metagenomics

Metagenomics

• Metagenomics

• Tools for analyzing sequences

• Computational Challenges

• Does it work?

• How do you generate consistent and accurate annotations for metagenomes?

FIG developed the notion of Subsystem – a generalization of “pathway” as a collection of functional roles jointly involved in a biological process or complex

• FIG developed the notion of Subsystem – a generalization of “pathway” as a collection of functional roles jointly involved in a biological process or complex

• Extended subsystems into FIGfams – protein families that perform the same functions.

Automated user originated processing

• Automated user originated processing

• Takes 1-7 hours depending on size and complexity of the genome

• ~2,000 external submissions, including hundreds of genomes not yet publicly released.

• Reannotation of >500 genomes complete

• 1,000 users, 200 organizations, 25 countries.

~19 hours of compute per input megabyte

• ~19 hours of compute per input megabyte

• 986 metagenomes

• 79,417,238 sequences

• 17,306,834,870 bp (17 Gbp)

• Average: ~15-20 M bp per genome

• Compute time (on a single CPU):

• 328,814 hours = 13,700 days = 38 years

Free workshops on NMPDR, RAST, mg-RAST, SEED

• Free workshops on NMPDR, RAST, mg-RAST, SEED

• Contact Leslie McNeil

• [e-mail]

• or visit

• http://www.nmpdr.org/