Difference between revisions of "User Guide for Curators"
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| − | User Guide for Textpresso for CCC Form | + | =User Guide for Textpresso for CCC Form= |
==Where to Find the Form== | ==Where to Find the Form== | ||
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*A gpi (gene product information) file as specified by the GOC: [http://wiki.geneontology.org/index.php/Final_GPAD_and_GPI_file_format gpad and gpi file format specifications]. This allows us to map all gene products mentions in a paper to a MOD identifier and to a UniProtKB identifier so we can send annotations via web services to UniProt's Protein2GO tool. | *A gpi (gene product information) file as specified by the GOC: [http://wiki.geneontology.org/index.php/Final_GPAD_and_GPI_file_format gpad and gpi file format specifications]. This allows us to map all gene products mentions in a paper to a MOD identifier and to a UniProtKB identifier so we can send annotations via web services to UniProt's Protein2GO tool. | ||
| + | |||
| + | ==Logging In== | ||
| + | |||
| + | *Each curator can login to the form from http://mangolassi.caltech.edu/~azurebrd/cgi-bin/forms/ccc/ccc.cgi | ||
| + | |||
| + | *Select your first name from the list of curators and click on login | ||
| + | |||
| + | *The login page also has a button that displays the list of Textpresso Cellular Component category terms and their mapping, based on previous curation, to a GO term and GO ID. | ||
| + | *Previously entered GO terms that don't map to any existing GO term as highlighted in red. Note that this index is based on some old curation data while the new form uses an autocomplete to add GO terms; this should avoid any future errors in GO term entry. | ||
Revision as of 21:13, 8 August 2013
Contents
User Guide for Textpresso for CCC Form
Where to Find the Form
- The form is currently located at:
http://mangolassi.caltech.edu/~azurebrd/cgi-bin/forms/ccc/ccc.cgi
- Once we've finished initial testing, the form will be transferred over the our production server.
What We Need from Groups Using the Form
- Instructions on what papers to run through the CCC search and how often to search
- Any filtering steps, e.g. filter against current GAF, filter after Support Vector Machine data type classification
- A gpi (gene product information) file as specified by the GOC: gpad and gpi file format specifications. This allows us to map all gene products mentions in a paper to a MOD identifier and to a UniProtKB identifier so we can send annotations via web services to UniProt's Protein2GO tool.
Logging In
- Each curator can login to the form from http://mangolassi.caltech.edu/~azurebrd/cgi-bin/forms/ccc/ccc.cgi
- Select your first name from the list of curators and click on login
- The login page also has a button that displays the list of Textpresso Cellular Component category terms and their mapping, based on previous curation, to a GO term and GO ID.
- Previously entered GO terms that don't map to any existing GO term as highlighted in red. Note that this index is based on some old curation data while the new form uses an autocomplete to add GO terms; this should avoid any future errors in GO term entry.
