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From phenoscape

2009 Grant Renewal Workshop	26feb07	ASIH09 workshop
Acknowledgments	Agenda	Ambiguous specimen information: annotating phenotypes for specimens or species
Amphibanat Phenex downloads	Anatomy Ontology Conf calls	Anatomy Ontology Development Plan
Anatomy Tree Display	Annotation Experiment	Annotation status
Announcements	Author Guide	BBOP OBD visit
BBOP OBD visit/Chris notes	Calendar	Categories
Challenges in developing multi-species anatomy ontologies	Change And Correlation	CoF schema
Cof schema	Collaborative Phenotype Annotation	Collaborative phenotype annotation
Complex Query Specification	Conceptual Model of Data Warehouse	Conceptual schema
Conceptual schema of the Phenoscape data warehouse	Contact	Contributors
Correlation and Disjoint Qualities	Creating Taxon Lists	Creating Tree Files
Creating and Editing Character Lists	Current queries	Data Jamboree 1
Data Jamboree 1/Agenda	Data Jamboree 1/Annotation Experiment	Data Jamboree 1 Agenda
Data Jamboree 2	Data Jamboree 2/Agenda	Data Jamboree 2/Annotation Experiment
Data Jamboree 2/Notes	Data Jamboree 2/Preparation	Data Jamboree 2/Prototype
Data Jamboree 2/Taxonomy	Data Jamboree 2/agenda	Data Repository Access Instructions
Data Repository and Data Services	Data Services	Data access API
Database Roadmap	Discussion about the Absence of Phenotypes issue	Documenting taxon concepts used in a publication
Documents	Driving Research Questions	EQ Editor
EQ Editor requirements draft 1	EQ for character matrices	EQ shortcuts (temporary)
Entities with taxonomic context	FMNH 2010 Workshop	Fish Evolution Working Group
Forum	Front end user interface tools	Guide to Character Annotation
Hypodigm	Incubator	Informatics
Information	Jamboree 1/Agenda/Project Personnel	Jamboree 1 Agenda/Project Personnel
Jamboree 1 Agenda -- Project Personnel	Jimallman:AjaxBlocks.css	KB-OWL
KB data integrity checks	Knowledgebase/Ideas for the future	Knowledgebase:File formats (for data downloads)
Knowledgebase:Inferred annotations	Knowledgebase:Phenotypes	Knowledgebase Reports
Knowledgebase mockups	Knowledgebase mockups (Nov 2009)	Linking Evolution to Genomics Using Phenotype Ontologies
Links	Lists	Logic and Reasoning Challenges
Logo	MX for phenotype annotation	Main Page
Map Annotations on Tree	Map Multiple Phenotypes on Tree	Map Qualities on Tree
Matching Phenotypes	Matrix annotation workflow	Mesquite
Modeling Absence of Phenotypes	MultiEntity TreeView	MultiEntity Tree View
NAW Correlation Break-out	NAW Phylogeny Break-out	Needs Analysis Workshop
Needs Analysis Workshop/Breakout group 1	Needs Analysis Workshop/Breakout group 2	Needs Analysis Workshop/Chalk talks
Needs Analysis Workshop/Correlation Breakout	Needs Analysis Workshop/Phylogeny Breakout	Needs Analysis Workshop/Prioritization
Needs Analysis Workshop/Report-out Day1	Needs Analysis Workshop/Report-out Day2	Needs Analysis Workshop/Semantics Breakout
Needs Analysis Workshop/Summary	Neglected items	Notes from participants
Novel reasoning strategies	OBD API Documentation	OBD Java API
OBD Reasoner	ORB TERM REQUEST PROTOTYPE	ORB term request prototype
OWL modeling of EQ phenotypes	Ontologies	Ontology Data Service API
Ontology Service API Break-out Group	OpenID	OpenURL
PI Meeting 26feb07	Participants	Phenex
Phenex term filter	Phenoscape 1 Curated Publications	Phenoscape Grant Renewal Workshop
Phenoscape Grant Renewal Workshop/Notes	Phenoscape I	Phenoscape data loader
Phenoscape data policy	Phenoscape data repository	Phenoscape use cases
Phenoscape web UI	Phenoscape web UI planning	Phenote
Phenote:Phylogeny-based Selector	Phenote:Phylogeny Chooser	Phenote:Specimen List
Phenote User Guide	Phenotype Ontology Coordination Workshop	Problem Log Format
Project Plan	Publications and Posters	Queries
Queries and Query Execution Plans	Queries for Phenoscape UI demo'ed at SICB, Boston in Jan 2009	Queries to be implemented in the future
Query execution speed-up: The investigation	Query strategy performance	Reasoning over homology statements
Relating taxa to phenotypes	Resources for curators	Roadmap for first iteration
Semantics of phenotype annotations	ShibAuth	SingleEntity TreeView
Skeletal Anatomy Jamboree	Software roadmap	Storing publication reference information
Student Instructions	SummerTraining2009	Synchronization Tool
TTOUpdate tool	TTO Changes	Taxonomic Rank Ontology
Taxonomic Rank Vocabulary	Taxonomic Ranks	Taxonomy ontology
Taxonomy ontology: ranks, unknown/unnamed species,	Taxonomy ontology: ranks, unknown/unnamed species, & related issues	Technical issues to be resolved in the reasoner and relation semantics
Teleost Anatomy Ontology	Teleost Taxonomy Ontology	Term Definitions and References
Term Requests	Terminology	The Balhoff rule
The exhibits relation conundrum	Tool support for Instances	Tracker email processing
Training and Workshops	Transitive homology	Update Taxon Lists
User testing - February 2010	VTO Taxonomy Resources	WebHints
Web UI first iteration	Web UI mockups	Web application use cases
ZFIN anatomy annotation counts

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