IF-5 User Facing Issues Plan

Who

• ChrisWroe (WilliamsSyndrome^?)
• PhilLord (BovineTrypanosomiasis^?)
• PeterLi (GravesDisease)

Flipchart Summary

1. Interaction with WilliamsSyndrome^?
   • requirements for MyGridInformationRepository (NedimAlpdemir)
2. User modelling
   • personalization (MilenaRadenkovic)
3. GravesDisease
   • handling microarray data in workflows
   • accessing a maxd microarray-based gene expression database (Norman Morrison, mailto:morrison@cs.man.ac.uk)
   • integrating TextExtraction (NeilDavis)
   • integrating Notificationservice (AnanthKrishna)
4. BovineTrypanosomiasis^? ("Sleeping Cows")
   • requirements for MyGridInformationRepository

Post-IF5 comments

Robert Stevens intends to write a PAPER! for ISMB 2004 showing myGrid used for real biology. We need to work with the three user projects to choose a simple scenario we can address using mainly what we have now. We will then take one of these forward in the short term to support this paper and act as a driver for identifying extra necessary myGrid features.

Tentative planning MarkGreenwood - 28 Sep 2003

• understanding and prototyping using myGrid compontents to regularly run workflow and alert users of items of interest - WilliamsSyndrome^? use case - priority high, dependencies myGrid v1.0 components plus some cron-like capability, effort guesstimate 2 weeks
• support for Robert in paper writing - priority high, dependencies (see above), effort 1 week

Planning towards IF-6 (Jan 2004) for Graves' disease scenario

1. Microarray analysis
   • Involves wrapping up MaxD^? microarray database and array analysis algorithms as web services.
   • Waiting to hear back from Norman Morrison (Andy Brass's RA) regarding the loading of Affymetrix array data into MaxD^?.
2. Investigate how mygrid can be applied to Claire's use of the Sequenom hardware for genotyping studies
   • Will shadow Claire on an experiment using the Sequenom hardware to gather user requirements.
3. Investigate splice variants of genes in microarray data
   • Involves composing workflows and creating services to analyse Affymetrix array data at the individual 'probe' level rather than at the 'probe set' level.
4. Integration of notification service in workflows
   • Alert Claire and Simon about new SNPs which may be of interest that have appeared in SNP databases.
5. Compose workflows that use Sheffild's text extraction, openBQS, Emboss services in SoapLab^? and other third party services, e.g. DDBJ.
6. Other stuff
   • Attendance at NESC workflow/provenance workshops?
   • Work on workflow paper for Bioinformatics journal with Mark, Tom and IT Innovation guys
   • Contribute to BioSilico^? review for Robert Stevens
   • Update Graves' disease scenario information on web site and twiki
   • Help out on Information model work