Functional Plant Bioinformatics (PLAZA)
General context
Using PLAZA to get more out of your plant omics data.
This two-day workshop (21-22 October 2019) will introduce the basic concepts of comparative and functional -omics data analysis in plants through lectures and practical hands-on sessions. Plant biologists and geneticists with an interest in bioinformatics and data analysis are encouraged to attend this training. After this workshop, you will have a good understanding of the organization of plant genomes, the evolution of plant gene families and the different systems used to describe gene functions. In addition, you will know how to extract relevant biological information from -omics gene sets.
There will be a dinner in the historic centre of Ghent on the first day where you will have the possibility to network. Registrations are free but required by sending an e-mail to tuur.muyldermans@vib.be.
- Introduction plant comparative genomics (genes and gene families) + introduction PLAZA platform
- Functional characterization of plant genes (Gene families, GO, InterPro)
- Synteny analysis in polyploid cereals
- Gene set analysis for different plant -omics data sets:
- Functional interpretation of RNA-Seq and ChIP-Seq genes using the PLAZA Workbench
- Comparing gene sets between different di/polyploidy crop species
Basic knowledge of genes, genomes, transcript profiling, BLAST and homology (no programming skills are required).
Program
Welcome: general information
PLAZA introduction
Coffee break
Theory I: genes, gene families and genome organization
Exercises I: genes, gene families and genome organization
Lunch
Theory II: Orthologs, paralogs and phylogenetic trees
Exercises II: orthologs, paralogs and phylogenetic trees
Coffee break
Theory III: Functional annotation & functional enrichments
Exercises III: Functional annotation & functional enrichments
Diner at Café des Arts
Theory IV: PLAZA workbench
Exercises IV: PLAZA workbench registration + upload gene set(s)
Coffee break
Exercises IV: PLAZA workbench functional data analysis
Lunch
Theory V: Advanced orthology, synteny and expression analysis in cereals
Exercises V: Advanced orthology, synteny and expression analysis in cereals
Coffee break
Exercises V: Advanced orthology/synteny using PLAZA workbench
Feedback + closing workshop
Practical info
21 October 2019 - 22 October 2019
Ghent - VIB/UGent FSVM I
Technologiepark 71
9052 Zwijnaarde
Belgium
21 October 2019 - 22 October 2019
Ghent - VIB/UGent FSVM I
From Ghent Sint-Pieters station, you can take a bus to Technologiepark. Please check Routeplanner De Lijn for schedules.
21 October 2019 - 22 October 2019
Ghent - VIB/UGent FSVM I
Looking for a custom cycling route? Try the online cycling route planner to easily and quickly identify the fastest, safest and/or most scenic route to any destination in Ghent.
Cycling route planner
Shared bicycles
Several providers are active in the area.
Take a look at their platforms:
- Indigo Weel Pro app
- Bluebike
- DOTT
- BOLT eBikes
- Donkey Republic
There are also some public bicycle pumps at the park.
21 October 2019 - 22 October 2019
Ghent - VIB/UGent FSVM I
There is only one entrance to Technologiepark. At the entrance, please take a ticket - Parking is only allowed in regular parking spots (for instance in front of the building) and in the parking tower. Parking alongside the roads or in other places where there is no regular parking is prohibited.
21 October 2019 - 22 October 2019
Ghent - VIB/UGent FSVM I
+32 9 331 36 00