The emerging area of metagenomics enables scientists to explore species diversity in a host of challenging environments, such as ocean water at a particular longitude, latitude and depth; copper-mine runoff that measures pH 1; and the human gut or mouth.
In collaboration with a customer at The Salk Institute, TimeLogic® provided access to an 8-card DeCypher® system for analysis of the Global Ocean Survey sequence data. After one month of test searching and two weeks of continuous analysis time, over 30 million sequences were compared to a battery of protein classification databases (Pfam, TIGRfam, and Superfamily) using Hidden Markov Model analysis methods.
Related Scientific Citations
Below is a short list of some recent DeCypher citations for Metagenomics. For the complete list, please vist our citations page here.
Analysis of 23S rRNA genes in metagenomes-A case study from the Global Ocean Sampling Expedition
Applying graph theoretic approaches to microbial metagenomes: ecological perspectives on function.
Metagenomic Analysis of Lysogeny in Tampa Bay: Implications for Prophage Gene Expression
Structural and Functional Diversity of the Microbial Kinome
The Sorcerer II Global Ocean Sampling Expedition: Expanding the Universe of Protein Families