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Nematode.net Data Download - Retrieve data referenced in publication and/or other generally useful resources

Species Publication Description Data
Acanthocheilonema viteae Endosymbiont DNA in Endobacteria-Free Filarial Nematodes Indicates Ancient Horizontal Genetic Transfer Wolbachia endosymbiont data files link

Ancylostoma caninum   Gene annotations (10-16-2006) link
Ancylostoma caninum   Ancylostoma caninum genome newbler assembly June 2010 link
Ancylostoma caninum   Sanger EST contigs & clusters link
Ancylostoma caninum   Transcript assembly link
Ancylostoma caninum NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Ancylostoma caninum Identification and characterization of alternative splicing in parasitic nematode transcriptomes Transcriptome assembly translation and annotation link

Ancylostoma ceylanicum   Sanger EST contigs & clusters link
Ancylostoma ceylanicum NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link

Aphelenchoides besseyi   Transcript assembly fasta sequence link

Ascaris suum Gene expression analysis distinguishes tissue-specific and gender-related functions among adult Ascaris suum tissues Active module files for A.suum microarray data by cytoscape link
Ascaris suum Silencing of Germline-Expressed Genes by DNA Elimination in Somatic Cells Data files (genome & cDNA) link
Ascaris suum Small RNAs from the Germline and Embryos of Ascaris Reveal their Conservation, Divergence, and Surprising Early Expression in Nematodes Data files (genome & cDNA) link
Ascaris suum   Database of bacterial genomes from GenBank (Jan.2012) plus an Ascaris suum genomic assembly link
Ascaris suum   Geneset CDS fasta (as of 11-1-2012) link
Ascaris suum NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Ascaris suum   Sanger EST contigs & clusters link
Ascaris suum   Whole Genome Shotgun data (11-7-2006) link

Brugia malayi Targeting protein-protein interactions for parasite control Chokepoint data files link
Brugia malayi   Geneset CDS fasta (WS230) link
Brugia malayi NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Brugia malayi   Sanger EST contigs & clusters link
Brugia malayi Effects of Doxycycline on Gene Expression in Wolbachia and Brugia malayi Adult Female Worms In Vivo Wolbachia doxycycline study link
Brugia malayi Brugia malayi Excreted/Secreted Proteins at the Host/Parasite Interface: Stage- and Gender-Specific Proteomic Profiling Mass-spec confirmed protein products link
Brugia malayi The secretome of the filarial parasite, Brugia malayi: Proteomic profile of adult excretory-secretory products Mass-spec confirmed protein products link
Brugia malayi The secretome of the filarial parasite, Brugia malayi: Proteomic profile of adult excretory-secretory products Mass-spec confirmed nucleotide sequence link
Brugia malayi Stage- and Gender-specific Proteomic Analysis of Brugia malayi Excretory-Secretory Products Mass-spec confirmed protein products link
Brugia malayi Stage- and Gender-specific Proteomic Analysis of Brugia malayi Excretory-Secretory Products Mass-spec confirmed nucleotide sequence link

Bursaphelenchus xylophilus   Geneset CDS fasta (WS230) link

Caenorhabditis brenneri Targeting protein-protein interactions for parasite control Chokepoint data files link

Caenorhabditis briggsae Targeting protein-protein interactions for parasite control Chokepoint data files link

Caenorhabditis elegans Targeting protein-protein interactions for parasite control Chokepoint data files link
Caenorhabditis elegans   Geneset CDS fasta (WS230) link
Caenorhabditis elegans NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Caenorhabditis elegans   Pyrosequencing data files (5-12-2011) link

Caenorhabditis japonica Targeting protein-protein interactions for parasite control Chokepoint data files link

Caenorhabditis remanei Targeting protein-protein interactions for parasite control Chokepoint data files link
Caenorhabditis remanei   Sanger EST contigs & clusters link

Cooperia oncophora   Transcript assembly link
Cooperia oncophora Identification and characterization of alternative splicing in parasitic nematode transcriptomes Transcriptome assembly translation and annotation link
Cooperia oncophora In-Depth Proteomic and Glycomic Analysis of the Adult-Stage Cooperia oncophora Excretome/Secretome Paper summary & mass spec identification link

Dirofilaria immitis First analysis of the secretome of the canine heartworm, Dirofilaria immitis Mass-spec confirmed protein products link
Dirofilaria immitis NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Dirofilaria immitis   Sanger EST contigs & clusters link

Dictyocaulus viviparus   Transcript assembly link
Dictyocaulus viviparus Identification and characterization of alternative splicing in parasitic nematode transcriptomes Transcriptome assembly translation and annotation link

Ditylenchus africanus NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Ditylenchus africanus   Sanger EST contigs & clusters link

Globodera pallida NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Globodera pallida   Sanger EST contigs & clusters link

Globodera rostochiensis NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Globodera rostochiensis   Sanger EST contigs & clusters link

Haemonchus contortus NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Haemonchus contortus   Sanger EST contigs & clusters link

Heterodera glycines NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Heterodera glycines   Sanger EST contigs & clusters link

Heterodera schachtii NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Heterodera schachtii   Sanger EST contigs & clusters link

Heterorhabditis bacteriophora   Transcript assembly link

Homo sapiens   Geneset CDS fasta (GRCh37.66) link

Loa loa   Geneset CDS fasta (as of 11-1-2012) link

Meloidogyne arenaria NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Meloidogyne arenaria   Sanger EST contigs & clusters link

Meloidogyne chitwoodi NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Meloidogyne chitwoodi   Sanger EST contigs & clusters link

Meloidogyne hapla Targeting protein-protein interactions for parasite control Chokepoint data files link
Meloidogyne hapla   Geneset CDS fasta (WS230) link
Meloidogyne hapla NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Meloidogyne hapla   Sanger EST contigs & clusters link

Meloidogyne incognita Targeting protein-protein interactions for parasite control Chokepoint data files link
Meloidogyne incognita NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Meloidogyne incognita   Sanger EST contigs & clusters link

Meloidogyne javanica NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Meloidogyne javanica   Sanger EST contigs & clusters link

Meloidogyne paranaensis NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Meloidogyne paranaensis   Sanger EST contigs & clusters link

Nacobbus aberrans   Nacobbus aberrans project page (de novo transcript assembly available) link

Necator americanus   Transcript assembly link
Necator americanus   Repeat library (fasta file) link
Necator americanus   Differential expression between IL3 & Adult stages of N.americanus link
Necator americanus Identification and characterization of alternative splicing in parasitic nematode transcriptomes Transcriptome assembly translation and annotation link

Nippostrongylus brasiliensis NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Nippostrongylus brasiliensis   Sanger EST contigs & clusters link
Nippostrongylus brasiliensis Secreted proteomes of different developmental stages of the gastrointestinal nematode Nippostrongylus brasiliensis Mass spec confirmed N.brasiliensis proteins link

Oesophagostomum dentatum   Transcript assembly link
Oesophagostomum dentatum Identification and characterization of alternative splicing in parasitic nematode transcriptomes Transcriptome assembly translation and annotation link
Oesophagostomum dentatum Proteomic analysis of Oesophagostomum dentatum (Nematoda) during larval transition, and the effects of hydrolase inhibitors on development Identification of 22 unique proteins link
Oesophagostomum dentatum Proteomics elucidates key molecules involved in exsheathment in vitro in Oesophagostomum dentatum Identification of 11 proteins using mass-spec link

Onchocerca flexuosa NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Onchocerca flexuosa   Sanger EST contigs & clusters link
Onchocerca flexuosa   Transcriptome and protein files link
Onchocerca flexuosa Endosymbiont DNA in Endobacteria-Free Filarial Nematodes Indicates Ancient Horizontal Genetic Transfer Wolbachia endosymbiont data files link
Onchocerca flexuosa Identification and characterization of alternative splicing in parasitic nematode transcriptomes Transcriptome assembly translation and annotation link

Onchocerca volvulus Identification of in vivo released products of Onchocerca with diagnostic potential, and characterization of a dominant member, the OV1CF intermediate filament Mass-spec confirmed protein products link

Ostertagia ostertagi NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Ostertagia ostertagi   Sanger EST contigs & clusters link
Ostertagia ostertagi   Transcript assembly link
Ostertagia ostertagi Identification and characterization of alternative splicing in parasitic nematode transcriptomes Transcriptome assembly translation and annotation link

Parastrongyloides trichosuri NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Parastrongyloides trichosuri   Sanger EST contigs & clusters link

Pratylenchus penetrans NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Pratylenchus penetrans   Sanger EST contigs & clusters link

Pristionchus pacificus Targeting protein-protein interactions for parasite control Chokepoint data files link
Pristionchus pacificus NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Pristionchus pacificus   Sanger EST contigs & clusters link

Radopholus similis NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Radopholus similis   Sanger EST contigs & clusters link

Schistosoma japonicum   Geneset CDS fasta (as of 11-1-2012) link

Schistosoma mansoni   Geneset CDS fasta (as of 11-1-2012) link

Strongyloides ratti NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Strongyloides ratti   Sanger EST contigs & clusters link
Strongyloides ratti Life cycle stage-resolved proteomic analysis of the excretome/secretome from Strongyloides ratti--identification of stage-specific proteases Identification of stage-specific proteases in S.ratti link
Strongyloides ratti Stage-specific excretory-secretory small heat shock proteins from the parasitic nematode Strongyloides ratti--putative links to host's intestinal mucosal defense system Excretory-secretory products from parasitic female worms were separated with 1-D gel electrophoresis. An 18-19kDa gel band was excised and proteins were identified by LC-MS/MS. Identified proteins included homologs of the C. elegans heat shock proteins HSP17.1 and HSP17.2. The linked file is supplemental data for the publication. link

Strongyloides stercoralis NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Strongyloides stercoralis   Sanger EST contigs & clusters link

Toxocara canis NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Toxocara canis   Sanger EST contigs & clusters link

Teladorsagia circumcincta   Transcript assembly link
Teladorsagia circumcincta Identification and characterization of alternative splicing in parasitic nematode transcriptomes Transcriptome assembly translation and annotation link

Trichostrongylus colubriformis   Transcript assembly link
Trichostrongylus colubriformis Identification and characterization of alternative splicing in parasitic nematode transcriptomes Transcriptome assembly translation and annotation link

Trichuris muris NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Trichuris muris   Sanger EST contigs & clusters link

Trichinella spiralis Targeting protein-protein interactions for parasite control Chokepoint data files link
Trichinella spiralis   Geneset CDS fasta (as of 11-1-2012) link
Trichinella spiralis NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Trichinella spiralis   Sanger EST contigs & clusters link

Xiphinema index NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Xiphinema index   Sanger EST contigs & clusters link

Zeldia punctata NemaPath: online exploration of KEGG-based metabolic pathways for nematodes NemaPath KEGG mappings (KEGG v46) link
Zeldia punctata   Sanger EST contigs & clusters link



Sanger EST trace FTP:

The easiest way to access the EST trace FTP is through your browser using these links:

Download traces
Download traces (HTTP link for users behind firewalls)

Alternatively, you may ftp to our ftp site and pick up traces in this manner:

ftp genome.wustl.edu
login: anonymous
passwd: (your_e-mail_adress)
cd /pub/est/pnp
bin
get (trace tarball containing your traces of interest)

So, using kp01a05.y1 as an example, we will walk through downloading the files associated with this EST:


ftp genome.wustl.edu Enter command from a UNIX prompt to access the FTP site.
login: anonymous Login anonymously.
passwd: janedoe@address.com Enter your email address at the password prompt.
bin Sets system to binary mode.
cd /pub/est/pnp Change directory to the pnp repository.
ls -al This command will list the contents of whatever directory you are in.
get kp.tar.gz Download the set of traces starting with the prefix kp.
help Help displays a list of FTP commands - help (command) reveals more information.
tar zxvf kp.tar.gz Extract the downloaded tarball which will expand into a directory structure organized by the first few characters of the name.

 
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