2013 EuPathDB Workshop
2013 Schedule
The course begins at 6:30 pm on Sunday, June 2nd with a reception.(If you arrive before the 4:00 pm hotel check-in time, you can call that day to see if your room is available for earlier check in. The Hotel can not guarantee your room will be ready before 4:00 pm. The number is 1-706-549-4433. There is a free hotel shuttle that can take you downtown for sightseeing while you wait.)
The course will finish at 5:00 pm on Wednesday, June 5th.
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 Holiday Inn Hotel provides free high-speed Internet in all rooms and lobby.| Time | Place | Event | Instructor |
|---|---|---|---|
| Sunday, June 2nd | |||
| 6:30-9:00pm | Holiday Inn Georgian Ballroom |
Registration & Welcome Reception General introduction to EuPathDB and omics Workshop attendees and instructors introductions Transportation information General introduction to EuPathDB and omics |
Jessie Kissinger Omar Harb Susanne Warrenfeltz |
| Monday, June 3rd | |||
| 7:30am | Holiday Inn Redfearn Grille |
Optional Breakfast (breakfast coupons provided in welcome packet) | |
| 8:30-8:45am | Life Sciences Room C128 |
General Workshop Introduction | Eileen Kraemer Susanne Warrenfeltz Omar Harb |
| 8:45-9:00am | Introductory Vocabulary Survey | Jessica Kissinger | |
| 9:00-9:45am |
Site Usability Exercise |
Eileen Kraemer Susanne Warrenfeltz |
|
| 9:45-10:30am | Room C128 | Introduction to EuPathDB sites and the search strategy system | Omar Harb |
| 10:30-10:45am | Room B116 | Morning Coffee Break (food provided) | |
| 10:45-12:15pm | Room C128 |
Exercise I: Finding genes and exploring gene pages |
Susanne Warrenfeltz |
| 12:15-1:15pm | Room B116 | Lunch (provided) | |
| 1:15-1:30pm | Room C128 | Vocabulary Survey Results | Jessica Kissinger |
| 1:30-2:30pm | Room C128 | Exercise II: Using the genome browser | Susanne Warrenfeltz |
| 2:30-2:45pm | Introduction to High throughput sequence analysis |
Omar Harb | |
| 2:45-3:00pm | Room B116 | Afternoon Snack Break (provided) | |
| 3:00-3:45pm | Room C128 |
Exercise III: RNA sequence data analysis (Part 1: using pathogen portal's RNAseq pipeline) |
Omar Harb Brian Brunk |
| 3:45-4:45pm | Room C128 | Exercise IV: Population (SNPs) data | Brian Brunk |
| 4:45-5:30pm | Room C128 | Exercise V: Metabolic Pathways and Compounds | Omar Harb |
| 6:00-8:00pm | Coverdell Center Room 340 |
Dinner | |
| Tuesday, June 4th | |||
| 7:30am | Holiday Inn Redfearn Grille |
Optional Breakfast | |
| 9:00-10:00am | Life Sciences Room C128 |
Exercise VI: Protein motifs and domains Regular Expressions Introduction Regular Expression Help |
Omar Harb |
| 10:00-10:30am | Room C128 | Exercise VII: DNA motifs | Brian Brunk Susanne Warrenfeltz |
| 10:30-10:45am | Room B116 | Morning Coffee Break (food provided) | |
| 10:45-11:15am | Room C128 | Exercise VII: DNA motifs (continued) | |
| 11:15-12:15pm | Room C128 | Exercise VIII: Isolate data | Jessica Kissinger |
| 12:15-1:15pm | Room B116 | Lunch (provided) | |
| 1:15-2:15pm | Room C128 | Exercise IX: Orthology and phylogenetic profiles | Brian Brunk |
| 2:15-2:45pm | Room C128 | Exercise X: Data retrieval and download | Susanne Warrenfeltz |
| 2:45-3:00pm | Room B116 | Afternoon Snack Break (provided) | |
| 3:00-4:00pm | Room C128 | Exercise XI: RNA sequence data analysis (Part 2: viewing and analyzing your results - continuation of exercise 3). | Omar Harb |
| 4:00-5:30pm | Room C128 |
Exercise XII: Exploring proteomics data Introduction to Proteomics in EuPathDB |
Brian Brunk |
| Wednesday, June 5th | |||
| 7:30am | Holiday Inn | Optional Breakfast | |
| 9:00-10:30am | Life Sciences Room C128 |
Exercise XIII, Part I: Exploring transcriptomic data | Brian Brunk Omar Harb |
| 10:30-10:45am | Room B116 | Morning Coffee Break (food provided) | |
| 10:45-12:15pm | Room C128 | Exercise XIII, Part II: Exploring transcriptomic data | Brian Brunk Omar Harb |
| 12:15-1:15pm | Room B116 | Lunch (provided) | |
| 1:15-1:45pm | Room C128 | User Feedback (new features in EuPathDB) | Cristina Aurrecoechea |
| 1:15-2:45pm | Room C128 | Exercise XIV: Complex strategy using genomic colocation | Omar Harb |
| 2:45-3:00pm | Room B116 | Afternoon Snack Break (provided) | |
| 3:00-4:00pm | Room C128 | Exercise XV: Complex strategy (finding vaccines and drug targets) | Omar Harb |
| 4:00-4:30pm | Room C128 | Outreach | Omar Harb Susanne Warrenfeltz |
| 4:30-5:00pm | Room C128 | Exit survey and general discussion | |