DAS Writeback and its integration in Dasty2 as a proof of concept Gustavo Adolfo Salazar Orejuela Supervised by: Prof. Edwin Blake Cosupervised by: Dr Nicola Mulder DAS workshop

Outline 1. Distributed Annotation System 2. Problem Definition 3. Proposed Solution 1. Architecture 2. Protocol 3. Server 4. Client 4. Future Work

DAS Distributed Annotation System

Problem Definition How the current DAS infrastructure can be extended in order to capture and use information provided for the users?

Proposed Solution DAS Writeback architecture

Proposed Solution Writeback protocol DAS 2.0 v.s. DAS1.53 Writeback New Format v.s. reuse DASGFF New model v.s. reuse MyDAS model Embedded Functions v.s. Uniform interface Small v.s.medium size database schema

Proposed Solution Server - MyDAS extension MyDAS Java DAS Servlet Generic server. The user develop the data source in a free way as soon as he implements the right interface Implements DAS 1.53 Extension Core extension for new commands Implementation of a writeback data source Database PostgreSQL Basic Authentication

Proposed Solution DAS clients

Proposed Solution Writeback client - Communication Proxy for the RESTful architecture DELETE PUT POST GET Authentication with the server JavaScript PHP J2EE

Proposed Solution Writeback client - Feature tabs a) Feature details b) Edit Feature details c) Delete Feature d) Feature History

Proposed Solution Writeback client - Snapshot

Future work On progress Writing the paper. MyDAS Writeback to 1.6 Outstanding: Non positional features Dasty3 + Writeback to 1.6 Future Ratings for user and features Implementation in other clients (Kariotype?)

Acknowledgments Supervisors Professor Edwin Blake Doctor Nicola Mulder University of Cape Town CBIO laboratory Computer Science Department National Bioinformatics Network (South Africa) EBI Henning Hermjakob Philip Jones Rafael Jimenez Writing editors Elizabeth Kelly Alex Garcia All the people of the DAS list Andy Jenkinson Jonathan Warren

Questions??