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mycoCLAP, the database for characterized lignocellulose-active proteins of fungal origin: resource and text mining curation support.

Strasser K, McDonnell E, Nyaga C, Wu M, Wu S, Almeida H, Meurs MJ, Kosseim L, Powlowski J, Butler G, Tsang A - Database (Oxford) (2015)

Bottom Line: Fungi are prolific producers of these enzymes, spurring fungal genome sequencing efforts to identify and catalogue the genes that encode them.First implemented in 2011, and updated as described here, mycoCLAP is capable of ranking search results according to closest biochemically characterized homologues: this improves the quality of the annotation, and significantly decreases the time required to annotate novel sequences.The database is freely available to the scientific community, as are the open source applications based on natural language processing developed to support the manual curation of mycoCLAP.

View Article: PubMed Central - PubMed

Affiliation: Centre for Structural and Functional Genomics, Department of Computer Science and Software Engineering, Department of Chemistry and Biochemistry, and Department of Biology Concordia University, Montréal, QC, USA.

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The mycoCLAP homepage.
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bav008-F2: The mycoCLAP homepage.

Mentions: A web-based system named mycoCLAP (http://mycoclap.fungalgenomics.ca) has been implemented for users to access information on characterized lignocellulose-active enzymes in a user-friendly manner. Three major functions are provided including searching for characterized enzymes, data/sequence retrieval, and BLAST (13) to compare a query sequence to the mycoCLAP sequence collection. Users can find ‘Help’ pages describing the information contained in mycoCLAP on the website, including tips on how to search the database. A screenshot of mycoCLAP homepage is presented in Fig. 2.Figure 2.


mycoCLAP, the database for characterized lignocellulose-active proteins of fungal origin: resource and text mining curation support.

Strasser K, McDonnell E, Nyaga C, Wu M, Wu S, Almeida H, Meurs MJ, Kosseim L, Powlowski J, Butler G, Tsang A - Database (Oxford) (2015)

The mycoCLAP homepage.
© Copyright Policy - creative-commons
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC4352688&req=5

bav008-F2: The mycoCLAP homepage.
Mentions: A web-based system named mycoCLAP (http://mycoclap.fungalgenomics.ca) has been implemented for users to access information on characterized lignocellulose-active enzymes in a user-friendly manner. Three major functions are provided including searching for characterized enzymes, data/sequence retrieval, and BLAST (13) to compare a query sequence to the mycoCLAP sequence collection. Users can find ‘Help’ pages describing the information contained in mycoCLAP on the website, including tips on how to search the database. A screenshot of mycoCLAP homepage is presented in Fig. 2.Figure 2.

Bottom Line: Fungi are prolific producers of these enzymes, spurring fungal genome sequencing efforts to identify and catalogue the genes that encode them.First implemented in 2011, and updated as described here, mycoCLAP is capable of ranking search results according to closest biochemically characterized homologues: this improves the quality of the annotation, and significantly decreases the time required to annotate novel sequences.The database is freely available to the scientific community, as are the open source applications based on natural language processing developed to support the manual curation of mycoCLAP.

View Article: PubMed Central - PubMed

Affiliation: Centre for Structural and Functional Genomics, Department of Computer Science and Software Engineering, Department of Chemistry and Biochemistry, and Department of Biology Concordia University, Montréal, QC, USA.

Show MeSH