SCAN: SNP and Copy Number Variant Annotation Network

(University of Chicago)

The PAAR group at the University of Chicago has developed a database and web site to facilitate annotation of SNPs and CNVs ( that provides not only physical, functional, linkage disequilibrium (LD) annotations, but also serves results of qQTL studies that we have conducted in the HapMap CEU and YRI lymphoblastoid cell lines (LCLs)2-5 as an adjunct to PAAR studies on the cytotoxicity of chemotherapeutic agents2-5. Thus, using the SCAN database, it is possible to enter a list of SNPs - the top signals from a genome-wide association study (GWAS), for example - and obtain physical, functional, LD annotations for each SNP, as well as an indication of distant and local transcript levels for which that SNP is a significant predictor.



A network resource for coordination of statistical analysis and methods development in the PGRN.