The course begins at 6:30 pm on Sunday, May 31st with a reception. The course will finish at 5:00 pm on Wednesday, June 3rd.
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.
Quick Links: EuPathDB | AmoebaDB | CryptoDB | FungiDB | GiardiaDB | HostDB | OrthoMCL DB | MicrosporidiaDB | PiroplasmaDB | PlasmoDB | ToxoDB | TrichDB | TriTrypDB
Instructors: Brian Brunk, Omar Harb, Jessica
Kissinger, David Roos, Susanne Warrenfeltz
| Time | Place | Event | Instructor |
|---|---|---|---|
| Sunday, May 31, 2015 | |||
| 6:30-9:00pm | Holiday Inn Georgian Ballroom |
Registration & Welcome Reception General introduction to EuPathDB and omics Workshop attendees and instructors introductions Transportation information |
Jessie Kissinger, Omar Harb, Susanne Warrenfeltz David Roos |
| Monday, June 1, 2015 | |||
| 7:00am | Holiday Inn Redfearn Grille | Optional Breakfast (breakfast coupons provided in welcome packet) | |
| 8:30-8:45am | Life Sciences Room C128 | General Workshop Introduction | Susanne Warrenfeltz, Omar Harb |
| 8:45-9:00am | Introductory Glossary Survey | Jessie Kissinger | |
| 9:00-9:45am | Site Usability Exercise | Susanne Warrenfeltz | |
| 9:45-10:30am | 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 building search strategies |
Susanne Warrenfeltz |
| 12:15-1:15pm | Room B116 | Lunch (provided) | |
| 1:15-1:30pm | Room C128 | Introductory Survey Results Summary |
Jessica Kissinger |
| 1:30-2:30pm | Exercise II: The Genome Browser: alignments and comparative genomics |
Susanne Warrenfeltz | |
| 2:30-2:45pm | Room B116 | Coffee Break | |
| 2:45-4:30pm | Room C128 | Exercise III: Interpreting RNAseq data High resolution gbrowse image |
David Roos |
| 4:30-5:30pm | Exercise IV: RNA sequence data analysis (Part 1: using pathogen portal's RNAseq pipeline) Group Exercise | Omar Harb | |
5:30-6:00pm |
Exercise V: Data retrieval and download | Brian Brunk | |
| 6:00-8:00pm | Coverdell Center Room 340 |
Dinner | |
| Tuesday, June 2, 2015 | |||
| 7:00am | Holiday Inn Redfearn Grille | Optional Breakfast | |
| 9:00-9:30am | Room C128 | Introduction to SNPs in EuPathDB | Brian Brunk |
| 9:30-11:00am | Exercise VI: Population (SNPs) data | Brian Brunk | |
| 11:00-12:00pm | Exercise VII: Protein motifs and domains Quick-Start: Regex Cheat Sheet Links to Regular Expression Resources Even more Regular Expression Help |
Omar Harb | |
| 12:00-1:00pm | Room B116 | Lunch (provided) | |
| 1:00-2:00pm | Room C128 |
Exercise VIII: DNA motifs and genomic colocation |
Susanne Warrenfeltz |
| 2:00-3:00pm | Exercise IX: Orthology and phylogenetic profiles |
Omar Harb | |
| 3:00-3:15pm | Room B116 | Coffee Break | |
| 3:15-5:15pm | Room C128 | Exercise X: RNA sequence data analysis (Part 2: viewing
and analyzing your results - continuation of exercise 4). Group
Exercise
TopHat Cufflinks Galaxy Project iPlant Collaborative |
Omar Harb |
| 5:15-6:00pm | Exercise XI: Isolate data | Jessica Kissinger | |
| Wednesday, June 3, 2015 | |||
| 7:00am | Holiday Inn Redfearn Grille | Optional Breakfast | |
| 9:00-9:45am | Room C128 | Exercise XII: Metabolic Pathways and Compounds |
David Roos |
| 9:45-10:30am |
Exercise XIII: Exploring proteomics data |
Susanne Warrenfeltz | |
| 10:30-11:30am | Exercise XIV, Part 1: Exploring transcriptomic data |
Omar Harb | |
| 11:30-12:15am | New Feature Feedback |
||
| 12:15-1:15pm | Lunch | ||
| 1:15-2:15pm | Exercise XV, Part 2: Exploring transcriptomic data with integrated searches | Brian Brunk | |
| 2:15-2:30pm | Coffee Break |
||
| 2:30-5:30pm | Group Exercise (includes presentations of shared strategies) | All | |
| 5:30-6:00pm |
Exit survey |
All | |
