Copyright © 1997 Pangea Systems, Inc. All rights reserved. Pathway Tools Training Course

Outline for May 2003 Tutorial Monday l 9:30 Introduction l 9:45-11 Navigator and microarray data l BREAK l 11:20-12:30 PathoLogic tutorial and demo l LUNCH l 2-4 PathoLogic lab session -- build initial version of PGDB l BREAK l 4:20-5:30 Schema l DINNER Tuesday l Editing tools –tutorial/lab sessions l Curation strategy Wednesday l Tutorial writing Lisp queries to PGDBs l PerlCyc l How to send us a bug reports, auto-patch

Outline for July 2001 Jamboree Monday l Introduction (~20 min) l PathoLogic tutorial (~1hr) l Build initial version of PGDB l Schema tutorial (~45 min) l Dinner Tuesday l Navigator tutorial 11am (Pedro took 1 hr) l Editing Tools tutorial 1:15-3pm (~2hrs) Wednesday l Tutorial on Lisp writing Lisp queries to PGDBs, 10am-12pm (~2hrs) l Elliot’s talk at 1:30pm

User Groups Read-only users / data analysts Database curators PathoLogic operators

Day 1: Introduction Who: All Users Goal: Familiarize users with read-only operation Topics: l Concept of a Pathway/Genome Database l Overview of Pathway Tools components / software architecture l The role of integrated pathway/genome databases in drug discovery l Pathway/Genome Navigator -- X-windows and WWW operation

Day 2: Database Curation Who: l Users who will manually update a PGDB l Users who will run PathoLogic Goal: Familiarize users with DB curation Topics l Frame data model l Schema l Concurrency control l Pathway/Genome Editors l Consistency checking

Day 3: PathoLogic Who: l PathoLogic operators l Users who wish to write complex queries Topics: l PathoLogic Pathway Predictor l LISP and the Generic Frame Protocol l Feedback/evaluation