Difference between revisions of "Project Plan"
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Paula Mabee (talk | contribs) (→3. Homology reasoning (Paula, Hilmar to fill in)) |
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=1. Scalable workflow= | =1. Scalable workflow= | ||
| − | Much of the schedule is based on the [[MEDIA:Dryad.proj.descr.07.pdf|2007 NSF grant]], with amendments by the Dryad Consortium Management Board and subsequent grant commitments. For Dryad project developers and associates, a (private) [[WG:Detailed Development Plan|detailed development plan]] is available. | + | Much of the schedule is based on the [[MEDIA:Dryad.proj.descr.07.pdf|2007 NSF grant]], with amendments by the Dryad Consortium Management Board and subsequent grant commitments. For Dryad project developers and associates, a (private) [[WG:Detailed Development Plan|detailed development plan]] is available. |
==NLP work to generate potential ontology terms and candidate EQs in Phenex== | ==NLP work to generate potential ontology terms and candidate EQs in Phenex== | ||
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=== Target milestone: Fourth quarter:July 1, 2012 === | === Target milestone: Fourth quarter:July 1, 2012 === | ||
| − | =2. | + | =2. Ontology development and coordination (Wasila to fill in)= |
| + | ==Anatomy ontologies== | ||
| + | ==Taxonomy ontologies== | ||
| + | =3. Phenotype annotation= | ||
| + | ==Evolutionary phenotypes== | ||
| + | ==Model organism phenotypes== | ||
| − | = | + | =4. Homology (Paula to fill in and check with Hilmar)= |
| + | ==Homology reasoning== | ||
| + | ==Homology assertions== | ||
| − | = | + | =5. Phenoblast and OBD/OWL (Todd, Jim? to fill in)= |
| + | |||
| + | =6. Knowledgebase reasoning and development | ||
| + | |||
| + | =7. Capstone= | ||
| + | ==component 1== | ||
[[Category:Project Management]] | [[Category:Project Management]] | ||
[[Category:Software]] | [[Category:Software]] | ||
Revision as of 16:04, 11 August 2011
Contents
- 1 1. Scalable workflow
- 2 2. Ontology development and coordination (Wasila to fill in)
- 3 3. Phenotype annotation
- 4 4. Homology (Paula to fill in and check with Hilmar)
- 5 5. Phenoblast and OBD/OWL (Todd, Jim? to fill in)
- 6 7. Capstone
1. Scalable workflow
Much of the schedule is based on the 2007 NSF grant, with amendments by the Dryad Consortium Management Board and subsequent grant commitments. For Dryad project developers and associates, a (private) detailed development plan is available.
NLP work to generate potential ontology terms and candidate EQs in Phenex
Primary personnel: Hong Cui, Jim, Todd, UNC postdoc, MS student Overall objective:
Target milestone: First quarter: October 1, 2011
Objective: Develop NLP to generate potential ontology terms and candidate EQ's in Phenex
- Generate list of terms to be added to ontologies (Hong)
- Evaluate accuracy of automated EQs on 50 character test set, refine testing set and methodology, begin development of Phenex ‘EQ suggestion’ interface requirements/specifications
- Identify corpus of publications, extract character descriptions
- Generate entities and qualities that can be identified, with frequency and ontology match
Action items:
- Wasila to send Hong the PDFs containing characters from the 50 char list - done
- Action item: Wasila to send Paul a curated pub
- Action Item: Jim will send Hong full database report with character text and EQ assignments
- Jim: to enumerate pros and cons for MX (web-based) and Phenex for first phone call, estimate development time
- Hong: Hire MS student at AZ
- Todd: Hire UNC postdoc
Target milestone: Second quarter: January 1, 2012
Target milestone: Third quarter: April 1, 2012
Target milestone: Fourth quarter:July 1, 2012
Term broker (collab with NCBO)
Target milestone: First quarter: October 1, 2011
Target milestone: Second quarter: January 1, 2012
Target milestone: Third quarter: April 1, 2012
Target milestone: Fourth quarter:July 1, 2012
2. Ontology development and coordination (Wasila to fill in)
Anatomy ontologies
Taxonomy ontologies
3. Phenotype annotation
Evolutionary phenotypes
Model organism phenotypes
4. Homology (Paula to fill in and check with Hilmar)
Homology reasoning
Homology assertions
5. Phenoblast and OBD/OWL (Todd, Jim? to fill in)
=6. Knowledgebase reasoning and development
