Nematode.net

General Information

Nematode.net is the home page of the parasitic nematode EST project at The Genome Institute at Washington University in St. Louis. The site was established in 2000 as a component of the NIH-NIAID grant "A Genomic Approach to Parasites from the Phylum Nematoda". While Nematode.net started as a project site, over the years it became a community resource dedicated to the study of parasitic nematodes.

Homepage http://nematode.net

Developed in United States

Created in 2000

Taxonomic range

Ancylostoma caninum

Ancylostoma ceylanicum

Ancylostoma duodenale

Ascaris suum

Brugia malayi

Caenorhabditis brenneri

Caenorhabditis briggsae

Caenorhabditis elegans

Caenorhabditis japonica

Caenorhabditis remanei

Cooperia oncophora

Dictyocaulus viviparus

Dirofilaria immitis

Ditylenchus africanus

Globodera pallida

Globodera rostochiensis

Haemonchus contortus

Heterodera schachtii

Heterorhabditis bacteriophora

Meloidogyne chitwoodi

Meloidogyne hapla

Meloidogyne incognita

Meloidogyne javanica

Meloidogyne paranaensis

Necator americanus

Oesophagostomum dentatum

Onchocerca flexuosa

Ostertagia ostertagi

Parastrongyloides trichosuri

Pristionchus pacificus

Radopholus similus

Steinernema carpocapsae

Strongyloides ratti

Strongyloides stercoralis

Teladorsagia circumcincta

Toxocara canis

Trichinella spiralis

Trichostrongylus colubriformis

Scope and data types

Gene Ontology (GO) enrichment

Gene expression data

Genomic assembly

Life Science

Molecular interaction

Parasite

Prediction and recognition

Protein

Protein interactions

Secondary protein structure

Transcript

How to cite this record FAIRsharing.org: Nematode.net; Nematode.net; DOI: https://doi.org/10.25504/FAIRsharing.dyfcen; Last edited: Feb. 22, 2018, 2:45 p.m.; Last accessed: Oct 18 2018 5:53 p.m.

Record updated: Jan. 12, 2018, 2:40 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.dyfcen' by 'The FAIRsharing Team' at 09:57, 18 Aug 2016 (approved):

	'description' has been modified:
		Before: The challenges to improve control of parasitic nematode infections are multi-fold and no single category of information will meet them all. However, new information, such as nematode genomics, functional genomics and proteomics, can strengthen basic and applied biological research aimed at developing improvements. Our MISSION is through integrated approaches to accelerate progress towards developing more efficient and sustainable parasitic nematode control programs. 
		After: Nematode.net is the home page of the parasitic nematode EST project at The Genome Institute at Washington University in St. Louis. The site was established in 2000 as a component of the NIH-NIAID grant "A Genomic Approach to Parasites from the Phylum Nematoda". While Nematode.net started as a project site, over the years it became a community resource dedicated to the study of parasitic nematodes.

Edits to 'https://fairsharing.org/FAIRsharing.dyfcen' by 'The FAIRsharing Team' at 14:14, 17 Aug 2016 (approved):

	'description' has been modified:
		Before: Parasitic nematode sequencing project
		After: The challenges to improve control of parasitic nematode infections are multi-fold and no single category of information will meet them all. However, new information, such as nematode genomics, functional genomics and proteomics, can strengthen basic and applied biological research aimed at developing improvements. Our MISSION is through integrated approaches to accelerate progress towards developing more efficient and sustainable parasitic nematode control programs.  Domain list has changed:  Previous values: Chemoinformatics|| Codon usage bias tables|| Collaborator and Grant listing|| Drugbank|| Gene Ontology annotation|x| Gene Orthologies (via OrthoMCL)|| Genomic assemblies|| Interpro|| KEGG pathway annotation|x| Literature citation|| Microarray data|material|http://purl.obolibrary.org/obo/OBI_0400147 Nematode gene family domain structure (NemFam)|| Nematode species general information|| PDB files|| Predicted protein|| Protein-protein Interaction|| Secondary structure|| Transcript|material|http://purl.org/obo/owl/SO#SO_0000673 New values:  Chemoinformatics|| Codon usage bias tables|| Collaborator and Grant listing|| Drugbank|| Gene Ontology annotation|x| Gene Orthologies (via OrthoMCL)|| Genomic assemblies|| Interpro|| KEGG pathway annotation|x| Literature citation|| Microarray data|material|http://purl.obolibrary.org/obo/OBI_0400147 Nematode gene family domain structure (NemFam)|| Nematode species general information|| PDB files|| Predicted protein|| Protein-protein Interaction|| Secondary structure|| Transcript|material|http://purl.org/obo/owl/SO#SO_0000673 Life Science|domain| Support links have changed:  Previous values: New values:  https://groups.google.com/forum/#!forum/nematodenet-forum @nematodenet http://nematode.net/NN3_frontpage.cgi?navbar_selection=home&subnav_selection=faq http://nematode.net/NN3_frontpage.cgi?navbar_selection=nemagene&subnav_selection=nemagene_faq http://nematode.net/NN3_frontpage.cgi?navbar_selection=nemagene&subnav_selection=helmcop_faq Data processes have changed:  Previous values: ad-hoc release weekly release quarterly release manual curation no versioning policy access to historical files available for most resources web interface file download(tab-delimited) ftp New values:  ad-hoc release weekly release quarterly release manual curation no versioning policy access to historical files available for most resources search file download(tab-delimited) ftp Licenses have changed:  Previous values: New values:  Copyright Statement Related databases have changed:  Previous values: New values:  biodbcore-000441: Gene Expression Omnibus

Support

General

FAQ	http://nematode.net/NN3_frontpage.cgi?na ...
FAQ	http://nematode.net/NN3_frontpage.cgi?na ...
FAQ	http://nematode.net/NN3_frontpage.cgi?na ...
forum	https://groups.google.com/forum/#!forum/ ...
online documentation	http://nematode.net/NN3_frontpage.cgi?na ...
twitter	@nematodenet
wikipedia	https://en.wikipedia.org/wiki/Nematode.n ...

Tools

http://nematode.net/NN3_frontpage.cgi?navbar_selection=nemagene&subnav ...

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Nematode.net Copyright Statement

Data Versioning

access to historical files available for most resources	No link recorded
no versioning policy	No link recorded

Data Curation

manual curation

No link recorded

Data Access

ftp	ftp://genome.wustl.edu/pub/est/pnp
file download(tab-delimited)	No link recorded

Data Release

ad-hoc release

No link recorded

Publications

Nematode.net: a tool for navigating sequences from parasitic and free-living nematodes.

Wylie T., Martin JC., Dante M., Mitreva MD., Clifton SW., Chinwalla A., Waterston RH., Wilson RK., McCarter JP.,
Nucleic Acids Res. 2004

View Paper (PubMed) View Publication

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

Martin J., Abubucker S., Wylie T., Yin Y., Wang Z., Mitreva M.,
Nucleic Acids Res. 2009

View Paper (PubMed) View Publication

HelmCoP: an online resource for helminth functional genomics and drug and vaccine targets prioritization.

Abubucker S., Martin J., Taylor CM., Mitreva M.,
PLoS ONE 2011

View Paper (PubMed) View Publication

NemaPath: online exploration of KEGG-based metabolic pathways for nematodes.

Wylie T., Martin J., Abubucker S., Yin Y., Messina D., Wang Z., McCarter JP., Mitreva M.,
BMC Genomics 2008

View Paper (PubMed) View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

Gene Ontology

Models and Formats

Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

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Funds

Bioinformatics Resource Centers, National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH), Bethesda, MD, USA

Maintains

Nematode.net

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