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HGM 2008 Satellite Workshop
Posted Date: 31 Jul 2008 Resource Type: News/Announcements Category: Conference and Symposium
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Posted By: sridevi Member Level: Diamond
Rating:  Points: 2
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Working with the Human Genome Sequence 27th May 2008
HGM 2008 Satellite Workshop: Open Door Workshop
India (1-3 October 2008)
Centre for Cellular and Molecular Biology, Hyderabad, India
Course Summary:
In association with HUGO, Wellcome Trust Advanced Courses and the Wellcome Trust Sanger Institute, we are pleased to annnounce a three day Open Door Workshop to take place immediately after the HGM2008. We would like to thank the Centre for Cellular and Molecular Biology for being our local hosts for this workshop, in particular Dr K. Thangaraj for being the local organsier. This workshop provides an intensive introduction to bioinformatics tools freely available on the internet, focusing primarily on the Human Genome data. Students will be given hands-on training in the use of public databases and web-based sequence analysis tools. All course materials will be available on the web, and students will have the opportunity to ask questions of the instructors as they apply what they have learned. Each student will be required to provide their own laptop for the duration of the course.
This course is limited to 40 participants and will be held in English.
There will be no course fee for academic participants. Participants will be expected to arrange and fund their own travel and accommodation.
Topics:
Sequence Formats and Retrieval:
DNA databases: Embl, Genbank, DDBJ
Protein databases: Uniprot
Entrez - seach sequence information, including Refseq
BLAST
Genome Browsing:
Ensembl - full coverage including BioMart
VEGA
UCSC
De novo analysis of Sequence:
VEGA
DNA analysis - ORF finder
Alignment of splicing cDNA to genomic DNA - Spidey, Est2genome, SIM4
Multiple Sequence Alignment - CLUSTALW
Alignment viewing and Editing- Jalview, GeneDoc
Exploring Function and Disease:
Understanding Protein Function - from domains to structure (covering Pfam, InterPro, TreeFam CDD, CATH, SCOP, PDB, MSD)
Proteins as part of functional networks - iPfam, IntAct
Secondary Structure predictions
Disease databases COSMIC, OMIM, DECIPHER
Mapping disease associated SNPs to Proteins - Polyphen, SNPs 3D Rfam and microRNAs (miRBase)
Sequence Variation:
Ensembl SNP information, Geneview in dbSNP
Glovar, JSNP, HGVBase
Genotyping
Haplotypes and HapMap
Haploview
Comparative Sequence Analysis:
Homologous gene identification - Paralogues and Orthologues
Ensembl - orthologue prediction, MultiContigView
EntrezGene - BLink, Homologene
Comparative Genome Analysis - UCSC, Zpicture, VISTA
Information
Course instructors
Jane Loveland (Wellcome Trust Sanger Institute)
Charles Steward (Wellcome Trust Sanger Institute)
Xose Fernandez (European Bioinformatics Institute)
Rob Finn (Wellcome Trust Sanger Institute)
How to Apply:
Pre-requisites - The workshops are aimed at research scientists with a minimum of a degree in a biological discipline, including laboratory and clinical staff as well as specialists in related fields. Acceptance will be subject to selection process.
Applications - Applicants will be required to complete an online application form together with a 250-word outline of the relevance of the course to their work. Please note that documentation supporting the application will be required from the applicant's Supervisor/Head of Department.
Queries
Any queries should be sent to opendoor@sanger.ac.uk
Deadlines:
Closing date for application is 27th June 2008. Applications will not be accepted after this date.
Notification of places will be after TBA.
regards
sridevi
For more details, visit http://www.sanger.ac.uk/Info/workshops/india-odw/
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