Nucleic Acids Research· 2012Q1
dbCAN: a web resource for automated carbohydrate-active enzyme annotation
- 1,974citations
- Q1SCImago
- 2012year
Short summary
dbCAN is a new web resource that automates the annotation of carbohydrate-active enzymes (CAZymes) using custom Hidden Markov Models (HMMs) for each CAZyme family.
AI-generated from the title and abstract; the full text is not read.
Key points
- dbCAN offers automated annotation of Carbohydrate-Active Enzymes (CAZymes).
- It utilizes custom Hidden Markov Models (HMMs) for each CAZyme family.
- HMMs are built from conserved domain database searches and literature curation.
- The resource can annotate CAZymes in any protein dataset, including genomes.
AI-generated from the title and abstract; the full text is not read.
Abstract
Carbohydrate-active enzymes (CAZymes) are very important to the biotech industry, particularly the emerging biofuel industry because CAZymes are responsible for the synthesis, degradation and modification of all the carbohydrates on Earth. We have developed a web resource, dbCAN (http://csbl.bmb.uga.edu/dbCAN/annotate.php), to provide a capability for automated CAZyme signature domain-based annotation for any given protein data set (e.g. proteins from a newly sequenced genome) submitted to our server. To accomplish this, we have explicitly defined a signature domain for every CAZyme family, derived based on the CDD (conserved domain database) search and literature curation. We have also constructed a hidden Markov model to represent the signature domain of each CAZyme family. These CAZyme family-specific HMMs are our key contribution and the foundation for the automated CAZyme annotation.
The authors' abstract, as published at the source. Nucleic Acids Research, 2012 · DOI ↗
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Field: Biomedical Engineering
Biomedical EngineeringEngineering