DASworkshop200903

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DAS workshop March 9th-11th 2009 Genome Campus, Hinxton

BioSapiens Network

Day 1

Time ProjectName Speaker Presentation
09:30 - 10:00 Arrival - Tea, Coffee.
10:00 Opening talk Tim Hubbard
10:20 Collaborative Annotation tool (MaDAS) Victor de la Torre
10:40 Jalview / VAMSAS Jim Procter / Geoff Barton
11:00 Pfam Rob Finn
11:20 DASgenexp Bernat Gel
11:40 Dasty2 Rafael Jimenez
12:00 EMBOSS as an efficient DAS annotation source Peter Rice, Mahmut Uludag
12:15-13:30 Lunch break
13:30 Ensembl James Smith
13:50 Integration of info on gene expression and its temporal and spatial localization Jose Ramon Macias
14:10 DAS - writeback Gustavo Salazar
14:30 Interaction DAS Hagen Blankenburg
14:50 DAS for ENCODE data coordination Felix Kokocinski
15:10-15:30 coffee break
15:30 A web resource for selecting epitopes for antibodies Niall Haslam
15:50 DAS Searches Andreas Prlic
16:10 A karyotype DAS client Rafael Jimenez
16:30 DASher, a standalone Java client for DAS protein sequence features David Messina
16:50 Data Federation - BioMart & DAS Syed Haider
17:10 Trellis DAS2 framework- which includes the DAS1-->DAS2 proxy and alpha UCSC DAS2 server Gregg Helt
17:30 Discussion/talk about activity organisation of next day - preliminary groups and chairs of groups

Day 2

Time Title Speaker Resources
09:15 - 10:00 DAS - Technical Introduction Phil Jones Presentation:
Powerpoint
Open Document Format
PDF
10:00 - 10:35 DAS Introductory Tutorial - DAS servers and the DAS Registration Service Phil Jones Introductory Tutorial
10:35 - 11:15 DAS - Client Demonstration: Ensembl, grouping and histograms Eugene Kulesha
11:15 - 11:40 Coffee break
11:40 - 12:10 Dasty2 Rafael Jimenez
12:10 - 12:40 SPICE, Mapping features on 3D, viewing alignments Andreas Prlic SPICE links
12:40 - 13:40 Lunch break
13:40 - 14:10 Pepper Jose Ramon Macias http://biocomp.cnb.csic.es/das
14:10 - 15:10 DAS: Setting Up Your Own Server. In this section the group will split into two tracks - one for Perl programmers and one for Java programmers. Proserver: Andy Jenkinson

Dazzle: Andreas Prlic

ProServer: writing a SourceAdaptor

Dazzle: using existing plugins
Dazzle: writing a plugin
Chromosome 21 GFF File

15:10 - 15:30 Coffee break
15:30 - 16:30 DAS - Coding a Client. Bio::Das::Lite (Perl) - Andy Jenkinson

Dasobert (Java) - Andreas Prlic

Bio::Das::Lite tutorial