Connecting Specimens, Images and Vocabulary Specify, Morphbank, Morphster Beach, Noble, Spears – KU Mast, Riccardi – FSU Miranker, Tirmizi UT.

Connecting Specimens, Images and VocabularySpecify, Morphbank, MorphsterBeach, Noble, Spears – KU Mast, Riccardi – FSUMiranker, Tirmizi UT

Vision: a work process enhanced by online systems Collect and digitize specimens Catalog metadata and images

Add to online digital repositories ASAP Protect digital information from outsiders

Create phenome descriptions Extend ontology Annotate images and anatomy

Share online among collaborators

Specify specimen management Desktop tool for specimen metadata management

Morphbank Image Repository Web presence for collaboration and publication

Morphster and Ontobrowser Ontology Management for Phylogenetics Extension of ontology to incorporate phenotypes and

annotations Integration of Specify, Morphster and Morphbank

Searching for images using ontology terms Linking images and other digital objects to ontology

terms Access to information from any user interface

Illustrate a key for legumes of the southeast

Project: Repository and Tool Integration

Ontobrowser with Morphbank Keyword Search

CTOL Images

Apparent workprocess Collect Image Annotate

CTOL in Morphbank

Illustration of Ontology

• Associate feature that can be seen in an image with ontology terms that describe the image– Area of interest in the image– Terms that describe anatomy, shape, etc.

• Replace– The (un) controlled vocabulary of Morphbank – With the controlled vocabulary of Morphster

• Resulting system is– Better for users because it is illustrated– Better for harvesters because it is precise

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Ontobrowser

API

API

API

API

Specify

Morphbank Morphster

Publish images and annotations

A TODO list ofimages and taxa

Image retrieval

Image deposit

Ontology-based image

search

Retrieval of image annotations

Our Cyber-Infrastructure

Retrieval of Annotations

Morphster Image lookup from Morphbank

Currently: keyword based Later: ontology-based, taxon, specimen,

character … Ontology-based creation of character

statements Currently: EQ (EAV) model Later: Tirmizi’s taxonomy of character types

Image annotation: anatomical entities and phenotypes Export to Ontobrowser

Image search strategies Expanding scope

Ask for ‘wrist’, if no match, ask for ‘forearm’, ‘hand’, etc.

Harvest and

Morphster: Image Lookup

Creating Characters and Character States

Creating Characters and Character States