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Specimen Image Database (SID) Vince Smith*, Simon Rycroft & Rod Page University of Glasgow, Glasgow, UK *Present Address: Illinois Natural History Survey,

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Presentation on theme: "Specimen Image Database (SID) Vince Smith*, Simon Rycroft & Rod Page University of Glasgow, Glasgow, UK *Present Address: Illinois Natural History Survey,"— Presentation transcript:

1 Specimen Image Database (SID) Vince Smith*, Simon Rycroft & Rod Page University of Glasgow, Glasgow, UK *Present Address: Illinois Natural History Survey, USA

2 Design Requirements Distributed Cross Platform Generic (any taxa) Intuitive ? Free Web based Add user incentives?

3 Upload Annotate Label Edit Browse Search RSS Feeds Web Service Add/delete users Set preferences Browse Search RSS Feeds Web Service Upload Annotate Label Edit Entity Relationships DatabaseScriptWeb PagesImage Processing Image Files Text Processing Browse Search RSS Feeds Web Service Image Server Registered UsersAdministrator Unregistered Users Web Pages Image Files Database Script Web Pages Image Processing Text Processing Taxonomy Name Server /~rpage/MyToL/www/ Rod Page - Univ. of Glasgow

4 Database Script Web Pages Image Processing Image Files Text Processing Image Server Database Script Web Pages Image Processing Image Files Text Processing Image Server Database Script Web Pages Image Processing Image Files Text Processing Image Server Database Script Web Pages Image Processing Image Files Text Processing Image Server Centralized Taxonomy Taxon X Taxon Y Taxon Z Taxon … Taxonomy Name Server /~rpage/MyToL/www/ Rod Page - Univ. of Glasgow

5 Centralized TNS Advantages - Maintains data quality - Common vocab. for searches via TNS - Minimizes data redundancy - Centralized taxonomy updates TNS Disadvantages - Taxonomy must be in TNS - User chooses which taxonomy - TNS must be on-line Database Script Web Pages Image Processing Image Files Text Processing Image Server Database Script Web Pages Image Processing Image Files Text Processing Image Server Database Script Web Pages Image Processing Image Files Text Processing Image Server Database Script Web Pages Image Processing Image Files Text Processing Image Server Taxon X Taxon Y Taxon Z Taxon … Taxonomy Name Server rpage/MyToL/www/ Rod Page - Univ. of Glasgow Taxonomic Ontology

6 Rapid Annotation Quick upload Group images Bulk annotation Apply keywords Re-annotate later

7 Copyrights & wrongs Respect restrictions of image provider Prevent copying of main image Optionally prevent access to original image Dynamic generation of copyright holder on main image

8 Cool Features Exemplar images - Define taxon type images - Useful for web-services On-line image labeling - Add labels to overlay image - 3 step process within web browser Alias addressing - Rapidly cite/locate images - (not a proper GUID)

9 Image Discovery Standard search options Taxonomy search via TNS Extensive browse options - Taxon, keyword, type image, label Two RSS feeds - Recent taxa/images - e.g., for taxon type images Web service access

10 Future Developments? Common image portal? Keyword ontologies - Generic anatomical vocabularies with ontologies Add proper image GUIDs - Unique identifiers for each image (LSIDs?) e.g. urn:lsid:pdb.org:1AFT:1 Improved integration with TNS - Access other TNS? Better web service support - Retrieve any image/information, WSDL files?

11 Database Script Web Pages Image Processing Image Files Text Processing Image Server Database Script Web Pages Image Processing Image Files Text Processing Image Server Database Script Web Pages Image Processing Image Files Text Processing Image Server Database Script Web Pages Image Processing Image Files Text Processing Image Server Taxon X Taxon Y Taxon Z Taxon … Taxonomy Name Server rpage/MyToL/www/ Rod Page - Univ. of Glasgow Image Portal?

12 BioCorder? ( B i o l o g i c a l R e c o r d e r) Web based Distributed Specimen DB Cross platform Free Modular David Reed et al Submitted to NSF July, 04

13 Acknowledgements Wellcome Trust


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