Difference between revisions of "WormBase Literature Curation Workflow"
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| align="center" style="background:#f0f0f0;"|'''Extraction Methods''' | | align="center" style="background:#f0f0f0;"|'''Extraction Methods''' | ||
| align="center" style="background:#f0f0f0;"|'''Entities Involved''' | | align="center" style="background:#f0f0f0;"|'''Entities Involved''' | ||
| − | | align="center" style="background:#f0f0f0;"|'''Ontologies | + | | align="center" style="background:#f0f0f0;"|'''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 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||WormBase Gene IDs, 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 | + | |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||Variations, Genes, CDS's, Transcripts | |Variations: Allele||Mutations identified in forward or reverse genetic screens ||Textpresso (cats or script?)||Textpresso (cats or script?)|| Variations, Genes, CDS's, Transcripts||Variations, Genes, CDS's, Transcripts | ||
Revision as of 20:11, 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 | WormBase Gene IDs, 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 | Variations, Genes, CDS's, Transcripts |
| Strains | Laboratory and natural isolates of nematode strains | Manual curation | Manual curation | Gene, Variation | Gene, Variation |
