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Data from: NEMBASE4: the nematode transcriptome resource

When using this data, please cite the original article:

Elsworth B, Wasmuth J, Blaxter M (2011) NEMBASE4: the nematode transcriptome resource. International Journal for Parasitology 41(8): 881-894. doi:10.1016/j.ijpara.2011.03.009

Additionally, please cite the Dryad data package:

Blaxter ML, Wasmuth J, Elsworth B (2011) Data from: NEMBASE4: the nematode transcriptome resource. Dryad Digital Repository. doi:10.5061/dryad.b22430s2
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Dryad Package Identifier doi:10.5061/dryad.b22430s2    150 views  
Abstract Nematode parasites are of major importance in human health and agriculture, and free-living species deliver essential ecosystem services. The genomics revolution has resulted in the production of many datasets of expressed sequence tags (ESTs) from a phylogenetically wide range of nematode species, but these are not easily compared. NEMBASE4 presents a single portal onto extensively functionally annotated, EST-derived transcriptomes from over sixty species of nematodes, including plant and animal parasites and free-living taxa. Using the PartiGene suite of tools, we have assembled the ESTs publicly available for each species into a high-quality set of putative transcripts. These transcripts have been translated to produce a protein sequence resource, and each annotated with functional information derived from comparison to well-studied nematode species such as Caenorhabditis elegans and also other non-nematode resources. By cross-comparing the sequences within NEMBASE4, we have also generated a protein family assignment for each translation. The data are presented in an openly-accessible, interactive database. To demonstrate the utility of NEMBASE4, we have used the database to examine the uniqueness of the transcriptomes of major clades of parasitic nematodes, identifying lineage-restricted genes that may underpin particular parasitic phenotypes, possible viral pathogens of nematodes, and nematode-unique protein families that may be developed as drug targets.
Keywords nematode, transcriptome, genome, expressed sequence tag, database, PartiGene,
Date Deposited 2011-10-31T18:30:36Z
Scientific Names Nematoda
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Supplementary_Information    44 views   73 downloads View File Details
Supplementary information (alignments) for analyses reported in the manuscript
Download: README.txt ( 872bytes )
Download: Supplementary_Information.zip ( 204.8Kb )
To the extent possible under law, the authors have waived all copyright and related or neighboring rights to this data.  


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