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: https://eprints.ugd.edu.mk/id/eprint/2574

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