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2009 Grant Renewal Workshop	26feb07	API
ASIH09 workshop	Acknowledgments	Adding Taxa to PaleoDB
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	Annotator tutorial topics
Announcements	Author Guide	BBOP OBD visit
BBOP OBD visit/Chris notes	Categories	Challenges in developing multi-species anatomy ontologies
Change And Correlation	CharaParser	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	Curation workflow	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 and Data Services	Data Services	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
Issue trackers	Jamboree 1/Agenda/Project Personnel	Jamboree 1 Agenda/Project Personnel
Jamboree 1 Agenda -- Project Personnel	Jimallman:AjaxBlocks.css	Job Opportunities
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)
Knowledgebase tutorial	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 Request Broker
Ontology Service API Break-out Group	Ontology workflow	OpenID
OpenURL	PI Meeting 26feb07	Participants
Phenex	Phenex release history	Phenex term filter
Phenoscape 1 Curated Publications	Phenoscape Grant Renewal Workshop	Phenoscape Grant Renewal Workshop/Notes
Phenoscape I	Phenoscape KB	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	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	To Edit is Divine
Tool support for Instances	Tracker email processing	Training and Workshops
Transitive homology	Update Taxon Lists	User testing - February 2010
VTO Taxonomy Resources	Virtuoso	WebHints
Web UI first iteration	Web UI mockups	Web application use cases
ZFIN anatomy annotation counts

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