Nematode.net update 2008: improvements enabling more efficient data mining and comparative nematode genomics .

Martin, John and Abubucker, Sahar and Wylie, Todd and Yin, Yong and Wang, Zhengyuan and Mitreva, Makedonka (2009) Nematode.net update 2008: improvements enabling more efficient data mining and comparative nematode genomics . Nucleic Acids Research, 37. D571-D578.

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Abstract

Nematode.net (http://nematode.net) is a publicly available resource dedicated to the study of para- sitic nematodes. In 2000, the Genome Center at Washington University (GC) joined a consortium including the Nematode Genomics group in Edinburgh, and the Pathogen Sequencing Unit of the Sanger Institute to generate expressed seq- uence tags (ESTs) as an inexpensive and efficient solution for gene discovery in parasitic nematodes. As of 2008 the GC, sampling key parasites of humans, animals and plants, has generated over 500 000 ESTs and 1.2 million genome survey seq- uences from more than 30 non-Caenorhabditis ele- gans nematodes. Nematode.net was implemented to offer user-friendly access to data produced by this project. In addition to sequence data, the site hosts: assembled NemaGene clusters in GBrowse views characterizing composition and protein homology, functional Gene Ontology annotations presented via the AmiGO browser, KEGG-based graphical display of NemaGene clusters mapped to metabolic pathways, codon usage tables, NemFam protein families which represent conserved nematode-restricted coding sequences not found in public protein databases, a web-based WU-BLAST search tool that allows complex query- ing and other assorted resources. The primary aim of Nematode.net is the dissemination of this diverse collection of information to the broader scientific community in a way that is useful, consistent, cen- tralized and enduring.

Item Type: Article
Subjects: Medical and Health Sciences > Basic medicine
Divisions: Faculty of Medical Science
Depositing User: Mirjana Kocaleva
Date Deposited: 30 Nov 2012 10:34
Last Modified: 30 Nov 2012 10:34
URI: http://eprints.ugd.edu.mk/id/eprint/2574

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