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NemaGene : nemabrowser

 News
[June.7.2017]   
Bioinformatics Workshop for Helminth Genomics (2015) class materials now freely available!

[May.11.2017]   
NTDs get some well deserved coverage outside the usual channels: Financial Times Special Report: Neglected Tropical Diseases





NemaBrowse
NemaBrowse is a collection of nematode genomes annotated with gene predictions and displayed using the GBrowse interface. Gene names are those assigned by the various gene calling mechanisms employed during gene prediction and may be subject to change. Minimal annotation is made available in the gene list using either final gene product information as annotated by the BER pipeline, or information derived from WU-BLAST mappings to NR using a post-alignment cutoff of 35 bits + 55% identity.



Annotated genomes:
(last updated 6-7-17)
Project Reference Species information Gene prediction method GBrowse annotations
Ancylostoma caninum PMID:18082904 A.caninum TaxBrowser at NCBI MAKER with BER annotation Gene list
Ancylostoma ceylanicum PMID:25730766 A.ceylanicum TaxBrowser at NCBI MAKER with BER annotation Gene list
Ancylostoma duodenale unpublished (Assembly and annotations produced by MGI as part of the Helminth Genome Initiative) A.duodenale TaxBrowser at NCBI MAKER with BER annotation Gene list
Dictyocaulus viviparus PMID:26856411 D.viviparus TaxBrowser at NCBI MAKER with BER annotation Gene list
Necator americanus PMID:24441737 N.americanus TaxBrowser at NCBI MAKER with BER annotation Gene list
Oesophagostomum dentatum unpublished (Assembly and annotations produced by MGI as part of the Helminth Genome Initiative) O.dentatum TaxBrowser at NCBI MAKER with BER annotation Gene list
Onchocerca volvulus PMID:27869792 O.volvulus TaxBrowser at NCBI Genes annotated as part of the Helminth Genome Initiative Gene list
Teladorsagia circumcincta in press (PLOS Genetics, as of June 2017) T.circumcincta TaxBrowser at NCBI MAKER with BER annotation Gene list
Trichinella spiralis PMID:21336279 T.spiralis TaxBrowser at NCBI A modified version of the Ensembl Analysis Pipeline, eannot, fgenesh, and the SNAP denovo gene finder with BER annotation Gene list
Trichuris suis PMID:24929829 T.suis TaxBrowser at NCBI MAKER Gene list


 
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