Difference between revisions of "WormBase Literature Curation Workflow"
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|Chromosomal rearrangements||Nomenclature, genetic boundaries|| ?? which SVM ??||Manual curation||Gene||Worm Phenotype Ontology | |Chromosomal rearrangements||Nomenclature, genetic boundaries|| ?? which SVM ??||Manual curation||Gene||Worm Phenotype Ontology | ||
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| − | |Antibodies | + | |Antibodies -''C. elegans'' proteins||Non-commercial antibodies generated against ''C. elegans'' antigens||Textpresso (cats or script?)||Manual curation||Gene, Laboratory|| |
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|Transgenes||Genomic constructs used as reporters to mark tissues and subcellular structures||Textpresso (cats or script?)||Manual curation||Gene, strain|| | |Transgenes||Genomic constructs used as reporters to mark tissues and subcellular structures||Textpresso (cats or script?)||Manual curation||Gene, strain|| | ||
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Revision as of 21:33, 16 December 2011
WormBase Data Types Curated and Curation Methods
| Data Types Curated from the Literature | Data Type Description | Paper Flagging Methods (triage) | Extraction Methods | Entities Involved | Ontologies or Controlled Vocabularies Used |
| Genes studied | Genes for which experimental results are reported are linked to the publication | n/a - applies to all publications | Perl script (abstract only), Manual curation | Genes, CGC (Caenorhabditis Genetics Center) names, Sequence names, Other names (synonyms) | |
| Genes cloned | Molecular characterization of a locus | SVM (variation sequence change), Manual curation | Manual curation | WormBase Gene IDs, CGC (Caenorhabditis Genetics Center) names, Sequence names, Other names (synonyms) | |
| Variations: Allele | Mutations identified in forward or reverse genetic screens | Textpresso (cats or script?) | Textpresso (cats or script?) | Variations, Genes, CDS's, Transcripts | |
| Strains | Laboratory and natural isolates of nematode strains | Manual curation | Manual curation | Gene, Variation | |
| Genetic mapping | 2- and 3-factor mapping data, chromosomal deficiency breakpoints | ?? which SVM ?? | Manual curation | Gene, Variation | Are any deficiences annotated with phenotypes? |
| Chromosomal rearrangements | Nomenclature, genetic boundaries | ?? which SVM ?? | Manual curation | Gene | Worm Phenotype Ontology |
| Antibodies -C. elegans proteins | Non-commercial antibodies generated against C. elegans antigens | Textpresso (cats or script?) | Manual curation | Gene, Laboratory | |
| Transgenes | Genomic constructs used as reporters to mark tissues and subcellular structures | Textpresso (cats or script?) | Manual curation | Gene, strain |
