Difference between revisions of "General specifications"
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source files for curatable sentences - supplied by Textpresso team, stored on tazendra | source files for curatable sentences - supplied by Textpresso team, stored on tazendra | ||
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Revision as of 18:45, 17 November 2011
General specifications for Textpresso-based CCC Curation
Input
location of files on Textpresso for retrieving paper titles and abstracts
Arabidopsis: /data2/data-processing/data/arabidopsis/Data/processedfiles/title/ /data2/data-processing/data/arabidopsis/Data/processedfiles/abstract/
source files for curatable sentences - supplied by Textpresso team, stored on tazendra
Arabidopsis: /home/acedb/kimberly/ccc_tair/tair_ccc_datafiles/
gene name to gene identifier mapping file - update schedule?
Arabidopsis: /home/acedb/kimberly/ccc_tair/tair_ccc_datafiles
Curation
web-based curation form
Arabidopsis: http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/tair/tair_ccc.cg
postgres table for storing curation
Arabidopsis: ccc_tair_gene_comp_go
Output - three-column or GAF
gene name to gene identifier mapping file
Arabidopsis: /home/acedb/kimberly/ccc_tair/tair_ccc_datafiles
GO term - GO ID mappings
All implementations: http://www.geneontology.org/ontology/obo_format_1_2/gene_ontology_ext.obo
paper identifier mapping file
Arabidopsis: /data2/data-processing/data/arabidopsis/Data/processedfiles/accession/
NCBI taxon ID
Arabidopsis: 3702
dictyBase: 44689
FlyBase: 7227
