 |
Workshop 2002
|
Finding and Characterising
Alternative Splice Events
30 May
and 31 May 2002
EBI - Wellcome Trust Genome
Campus - Hinxton - Cambridge
| Day 1 |
|
| 09:30-10:00 |
Registration & coffee |
| 10:00-10:10 |
Welcome & introduction to alternative
splicing
Methodologies |
| 10:10-10:30 |
An overview of Methodologies & Databases
on alternative splicing (Thanaraj, EBI))
[slides] |
| 10:30-11:10 |
In silico prediction of alternative
splicing (Bork, EMBL) |
| 11:10-11:40 |
Coffee break |
| 11:40-12:20 |
Detection of splice variants from genes-EST
alignments - AltExtron database (Thanaraj,
EBI) [slides] |
| 12:20-13:00 |
EST-based detection of polyA variants
and tissue-specific forms (Gautheret, INSERM)
[slides] |
| 13:00-14:30 |
Lunch
Characterisation |
| 14:30-14:40 |
Introduction [slides] |
| 14:40-15:00 |
Preservation of human splice variants
in other species (Thanaraj, EBI) |
| 15:00-15:30 |
Sequence determinants in variant polyA
sites (Gautheret, INSERM) [slides] |
| 15:30-16:00 |
Coffee break |
| 16:00-16:20 |
Splice variants and functional sites
on the encoded proteins (Kriventseva, EBI) |
| 16:20-17:00 |
Expression states of splice variants
(Muilu/Thanaraj, EBI) [slides] |
|
|
|
|
| Day 2: |
|
| |
Visualisation &
Integration [slides] |
| 09:30-10:00 |
Relational version of AltExtron &
Visualisation of splice pattern variants
(Muilu, EBI) [slides] |
| 10:00-10:30 |
Distributed Annotation System - Integrating
AltExtron with other resources (Riethoven,
EBI) [slides]
Representing
& Handling splice variants in major
databases - Need for Standards |
| 10:30-10:35 |
Introduction [slides] |
| 10:35-11:00 |
EMBL database perspective of alternative
splicing (Tuli, EBI) [slides] |
| 11:00-11:30 |
Coffee break |
| 11:30-12:00 |
Splice variants in UniProtKB/Swiss-Prot - stable
identifiers (Kersey, EBI) [slides] |
| 12:00-12:30 |
Alternative splicing in Ensembl (Eyras,
Sanger Institute) [slides] |
| 12:30-13:00 |
Standards for Content & Format of
a composite database (Thanaraj, EBI) |
| 13:00-14:30 |
Lunch |
| 14:30-16:00 |
Hands-on session
- Viewing
AltExtron data in the context of other annotation
servers, and interrogating other resources.
- AltExtron server and SplicePattern Viewer
- to identify the type of alternative event
- given the list of confirmed introns/exons
and transcript structures.
- Identify the expression specificity (development,
pathology, or tissue type) of the isoform
events - given the EST library information
for constitutive & alternative splice
patterns.
|
| 16:00 |
Coffee & departure |
|
|
|
|