WP4 - Genomic Characterisation (locus mapping)
- Created on Saturday, 19 September 2009 16:43
- Last Updated on Saturday, 20 October 2012 12:49
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|Work package number||4||Start date or starting event: Month 1|
|Work package title||Genomic Characterisation (locus mapping)|
Description of work.
Task 1 will catalogue all the common genetic variants in each of the confirmed loci from WP2.
Task 2 will define the sub-set of variants, from the full list at each locus, which are highly correlated with the most strongly associated locus marker. A mixture of SNP correlation data and genotyping in relevant cases and controls (from BCAC, OCAC and PRACTICAL) will be used to identify the set of genetic markers within each locus that are most significantly associated with the relevant cancer. (Samples from the CIMBA consortium may be used to aid the mapping of cancer susceptibility loci that have additionally been shown, by WP3, to be modifiers of cancer risk in BRCA1/2 carriers.)
These will comprise the candidates for being the causative mutation. It may be possible to further reduce the number of candidates by using cases and controls from non-European populations that have greater genetic diversity. The mapping leaders for BCAC, OCAC, PRACTICAL and CIMBA will make their own best arrangements for undertaking Task 2 and will each concentrate on mapping the loci relevant to their cancer site.
D 4.1 Manuscript describing the fine-scale mapping process and results in one breast cancer locus (month 6)
D 4.2 Report describing initial loci submitted for fine-scale mapping (month 12).
D 4.3 Website cataloguing the candidate causative variants at each locus, identified by WP4 Task 1 (month 24)
D 4.4 Report describing any additional loci identified as suitable for fine-scale mapping if costs permit, from the confirmed loci listed in D2.7 (month 30)
D 4.5 Update of D4.3 (month 36)
D 4.6 Report presenting the list of candidate cancer-causing mutations defined by WP4 Task 2 and listing planned papers (month 48)