Schedule

Participants will be provided with desktop computers to use in the workshop sessions. You are welcome to bring your own laptop to use in other areas. The Georga Center Hotel provides free high-speed Internet in all rooms. Much of downtown Athens has free wireless coverage.

Quick Links: ApiDB | CryptoDB | OrthoMCL DB | PlasmoDB | ToxoDB


Link-style legend: Background Reading | Exercise Material
Monday June 26th All events are in C128 Life Sciences unless otherwise noted
   
6:15 PM Meet in the Georgia Center Hotel lobby in front of the elevators for an escort to Life Sciences
   
6:30 PM Room B116 Life Sciences, Registration, Mixer, Appetizers
   
7:00 -9:00 PM Introductory Survey, Logistics, Introduction to the ApiDB BRC, Instructor: Jessic Kissinger and All
- ApiDB Introduction
- Intro Survey   **See the results!**
   
Tuesday June 27th  
   
8:30 AM Room B116 Life Sciences,  Lite Breakfast
   
9:00 -10:30 AM A detailed look at a Database, CryptoDB. How to Query, use GBrowse, History and Sequence Retrieval; Exercises, Instructors: Mark Heiges, Jessie Kissinger
- CryptoDB: a Cryptosporidium bioinformatics resource update
- CryptoDB Exercise Questions
   
10:30 - 11:00 AM Break - Room B116
   
11:00 - 12:00 AM Query sorting Exercise; Introduction to Tools, Instructors: Eileen Kraemer, Jessie Kissinger
   
12:00 - 1:30 PM Lunch B116 Life Sciences Building
   
1:30 - 3:00 PM PlasmoDB - Tour and exercises, Instructors: Steve Fischer, Jessie Kissinger, Shailesh Date
- PlasmoDB: the Plasmodium genome resource. A database integrating experimental and computational data
- Tools and PlasmoDB Exercise Questions
   
3:00 - 3:30 PM Break - Room B116
   
3:30-5:00 PM Exercises and Discussion, Instructors: All
   
5:00-7:00 PM Dinner  (Not provided)
   
7:00 - 9:00 PM Review - Computer Lab Free Time - Special Help
   
Wednesday June 28th  
   
8:30 AM Room B116,  Lite Breakfast
   
9:00 -10:30 AM ToxoDB - Tour and exercises, Instructors: Bindu Gajria, ZhongQiang Chen
- Bindu's presentation slides [PowerPoint]
- ToxoDB: accessing the Toxoplasma gondii genome
   
10:30 - 11:00 AM Break - Room B116
Webservices discussion (optional attendance). Instructor: Cristina Aurrecoechea - C128

- Cristina's presentation slides [Powerpoint]
   
11:00 - 12:00 AM OrthoMCL DB and ancillary Databases, Instructors: Jessie Kissinger, All
- Jessie's presentation slides
- OrthoMCL: - Identification of Ortholog Groups for Eukaryotic Genomes
- OrthoMCL-DB: querying a comprehensive multi-species collection of ortholog groups
   
12:00 - 1:30 PM Lunch - B116 Life Science Building
   
1:30 - 3:00 PM PlasmoDB- and ToxoDB-specific data, PlasmoCD, Instructors: Shailesh Date, ZhongQiang Chen, Steve Fischer, Bindu Gajria
- plasmoMap website
- Computational modeling of the Plasmodium falciparum interactome reveals protein function on a genome-wide scale
- Protein Interactome Exercises
   
3:00 - 3:30 PM Break - Room B116 Life Sciences
   
3:30-5:00 PM Exercises and Discussion Instructors: All
ToxoDB/OrthoMCL/KEGG/GBrowse Exercises
   
6:00-8:00 PM Course Banquet at the Georgia Center
   
8:00 - 9:00 PM Review - Computer Lab Free Time - Special Help
   
Thursday June 29th  
   
8:30 AM Room B116 Life Sciences, Lite Breakfast
   
9:00 -10:30 AM ApiDB and exercises Instructors: Jessie Kissinger, All
ApiDB Exercises
   
10:30 - 11:00 AM Break - Room B116 Life Sciences
   
11:00 - 12:00 AM Final questions Instructors: All
Departure Survey **Results**
   
12:00 PM Course adjourned; Box Lunch Provided