1. An Integrated Web Based 2d-gel database for Streptomyces coelicolor David Goodwin (dwg@aber.ac.uk)

2. About Me.... Software Engineer Aberystwyth Computer Science Graduate (2002) Not a Biologist Skills include Java, J2EE, PHP, Unix, System Administration....

3. The Existing Solution ● http://qbab.aber.ac.uk/s_coeli/referencegel ● Not dynamic, ● Supports one image, ● Not database based (therefore no searching), ● No accountability, ● Not easy to update, ● Not yet seriously documented, ● Future proof?

4. The Requirements... ● Integrated with other Streptomyces resources online (e.g. ScoDb), ● “Future Proofed”, ● Scalable (e.g. Support multiple gels), ● Traceable, ● Instant updates, ● Cheap / low maintenance.

5. The Technical Design ● Database back end (Postgres), ● Database Abstraction Layer (In PHP), ● Web based presentation layer for displaying the information (In PHP).

6. The Database ● Contains entries for : ➢ Proteins, ➢ Genes, ➢ Image Gels, ➢ Users of the system, ➢ And various mapping tables.

7. The Database Abstraction Layer ● Aim – to decouple the database from the presentation layer. ● Objects used to encapsulate information from the database, which are returned to the caller. ● Removes SQL from the caller, and keeps it in one class (makes maintenance easier).

8. Presentation Layer ● Displays the information to the user, ● Written in PHP (rapid development?), ● Possibly customisable by the end user?

9. So ? What will it do for me? ● Search by protein name/information (pI, MW etc), ● Search through images, ● Search by gene identification, ● Search by Date/Who added it/ScoDb number.... ● Linked to and from the ScoDb. ● And more – just ask!

10. Some Screenshots

11. The Welcome Page.....

12. After selecting which image.. choose where on the gel you want to zoom in on......

13. Zoomed in view of a 2d gel Yellow plus signs show known proteins. These are “clickable” to give......

14. Details on a fictional protein....

15. Note : This is still (obviously) work in progress, – therefore if there is a particular field or feature which anyone requires, please let me know.

16. The End. Email : dwg@aber.ac.uk Website : http://qbab.aber.ac.uk/s_coeli or “Streptomyces IGF” in Google