1. JISC MIRAGE 2011: Repository Enrichment from Archiving to Creation Dr. Xiaohhong (Sharon) Gao Middlesex University London NW4 4BT x.gao@mdx.ac.uk Repository @ http://image.mdx.ac.uk/vin/demo.php.http://image.mdx.ac.uk/vin/demo.php

2. JISC Contents Background Project aims & objectives Project plan Summary

3. JISC Background (1)  Built on MIRAGE –  Middlesex medical Image Repository with a CBIR ArchivinG Environment.  Strand : Start-up Repository  Between April 2009- Sept. 2010.  Accommodating: 100,000 2D images and 100 3D images

4. JISC Background (2) – MIRAGE Phase1 Web page

5. JISC Background (3) – Repository -- connection

6. JISC Background (3) – Repository-- interface

7. JISC Background (3) – Query Query

8. JISC Background (3) – Retrieved results

9. JISC Background (3) – Limitations (1) 1. Viewing of 3D images in 2D way – brain images Computed Tomography Magnetic Resonance Positron Emission tomography (CT)(MR)(PET)

10. JISC Background (3) – Limitations (1) 1. At Repository interface Montage

11. JISC Background (3) – Limitations (2) 2. Uploading image

12. JISC MRIAGE 2011 – Aims MRIAGE Phase 1 – from Creation to Archiving (Done ) MIRAGE 2011 – from Archiving to Creation Aim To enrich the current repository MIRAGE with two necessities to meet users’ needs, leading to a sustainable, usable and flexible model of data management.

13. JISC MIRAGE 2011 –Objectives Objectives A review report on the feasibility of enrichment of MIRAGE. Embedding Visualization Toolkit Development of a plug-in for uploading queries Evaluation report Six-monthly interim reports

14. JISC MIRAGE 2011 –Objective - 1 Embedding Visualization Toolkit At server side, visual content extraction will be performed and will be included into the existing feature database. At client side, 3D viewer built on VTK is expected to be incorporated to display 3D (or higher) images.

15. JISC MIRAGE 2011 –Objective -1 Embedding Visualization Toolkit – An Example

16. JISC MIRAGE 2011 –Objective -2 Development of a plug-in for uploading queries Will integrate various types of textual metadata and ontology in addition to image data. C:\\myfile\brain.jpg Brain tumour Upload images Text search

17. JISC MIRAGE 2011 – Project Plan  WP1: Literature review (2 months).  WP2: 3D Viewer embedding from server side (1 month).  WP3: 3D Viewer embedding from client side (2 months).  WP4: Enabling uploading facility (2 months)  WP5: System evaluation (1 month).  WP6: Dissemination.  WP7: Management

18. JISC MIRAGE 2011 – Project Plan – WP1  WP1: Literature review (2 months). The state of the art web technologies (e.g., RDF metadata, SPARQl-to-SQL translation, OWL, DL, XML, Java3D). Standards and applications in relation to management of images with a focus on higher dimensional (>2D). Interfacing with one of the existing open source software for visualization and analysis tools, such as ImageJ, 3D Slicer, MIPAV, ParaView and Amira is anticipated.

19. JISC MIRAGE 2011 – Project Plan – WP2  WP2: 3D Viewer embedding from server side (1 month). Visualization Tool Kit (VTK) will be embedded into GIFT server side On the other hand, GIFT provides a PluginMaker directory including Accessor plug-in and Query processor plug-in that can be filled with in-house code to create an extended/modified query engine, which boils down to writing classes in C++ language.

20. JISC MIRAGE 2011 – Project Plan – WP3  WP3: 3D Viewer embedding from client side (2 months). By providing JavaScript objects to communicate with remote web interfaces, allowing users to perform complex remote visualization processing in the server side while viewing the results locally. Coding PHP client within GIFT framework.

21. JISC MIRAGE 2011 – Project Plan – WP3 –by Amira

22. JISC MIRAGE 2011 – Project Plan – WP4  WP4: Enabling uploading facility (2 months) Using the client-server communication protocol MRML. Drawn from XML, MRML protocol with a formal editable specification DTD (document type definition) can be adopted by GIFT with a certain degree of extension.

23. JISC MIRAGE 2011 – Project Plan – WP5  WP4: System evaluation (1 month). The statistic methods structured surveys workshops presentations.

24. JISC MIRAGE 2011 – Project Plan – WP6 & WP7  WP6: Dissemination. Web site Publications Presentation.  WP7: Management Will be the responsibility of EIS.

25. JISC Summary  The role a successful repository plays serves two ways, which is from creation to archive and back.  It is anticipated that MIRAGE 2011 will enrich the repository to live up to its full potentials.  Repository @ http://image.mdx.ac.uk/vin/demo.php. http://image.mdx.ac.uk/vin/demo.php

26. JISC Thanks ! Questions ?