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Nematode.net update 2011: addition of data sets and tools featuring next-generation sequencing data
John Martin1, Sahar Abubucker, Esley Heizer
1The Genome Institute, Washington University School of Medicine, St Louis, MO 63108, USA.
Nucleic Acids Research
|December 6, 2011
Summary
Nematode.net has been updated with user-friendly navigation and next-generation sequencing data for over 56 nematode species. New tools like NemaSNP and HelmCoP enhance population genetics and helminth genome analysis for drug discovery.
Area of Science:
- Bioinformatics
- Genomics
- Parasitology
Background:
- Nematode.net is a long-standing public resource for nematode research.
- The rapid increase in next-generation sequencing data necessitates resource updates.
Purpose of the Study:
- To reorganize and enhance Nematode.net for improved user-friendliness and data accessibility.
- To integrate new features for advanced data analysis and comparative genomics.
Main Methods:
- Reorganization of the Nematode.net website for intuitive navigation.
- Incorporation of next-generation sequencing data into organism-centric portals.
- Development of new tools: NemaPath (metabolic pathway viewer), NemaSNP (population genetics), and HelmCoP (helminth genomics).
Main Results:
- Over 56 organism-centric portals with dynamically generated data are now available.
- NemaPath uses Kyoto Encyclopedia of Genes and Genomes (KEGG) Orthology (KO) for enhanced protein descriptions.
- NemaSNP facilitates population genetics studies using next-generation sequencing data.
- HelmCoP provides an integrated resource for helminth genome annotation and comparative genomics.
Conclusions:
- The updated Nematode.net offers a more user-friendly platform with expanded data and analysis tools.
- New features support population genetics, comparative genomics, and drug/vaccine target discovery for nematodes and helminths.
- Nematode.net continues to fulfill its mission of disseminating bioinformatic data and analysis tools to the scientific community.
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