Laurent Jacob
Laurent Jacob
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CALDERA: Finding all significant de Bruijn subgraphs for bacterial GWAS
A follow-up on DBGWAS. We use the structure of the de Bruijn graph to define new genomic variants (e.g. gene presence) that accomodate polymorphisms. This amounts to defining one variant for each connected subgraph. We rely on a reverse search strategy to efficiently enumerate variants, and on the Tarone strategy to control the FWER when testing their association with a bacterial phenotype.
Hector Roux de Bézieux
,
Leandro Lima
,
Fanny Perraudeau
,
Arnaud Mary
,
Sandrine Dudoit
,
Laurent Jacob
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