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SNP and CNV Annotation SCAN

A large-scale database of genetics and genomics data associated to a web-interface and a set of methods and algorithms that can be used for mining the data in it. The database contains two categories of single nucleotide polymorphism (SNP) annotations: 1) Physical-based annotation where SNPs are categorized according to their position relative to genes (intronic, inter-genic, etc.) and according to linkage disequilibrium (LD) patterns (an inter-genic SNP can be annotated to a gene if it is in LD with variation in the gene); 2) Functional annotation where SNPs are classified according to their effects on expression levels, i.e. whether they are expression quantitative trait loci (eQTLs) for that gene.

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SCAN classification

  • Animals
    • Homo sapiens

SCAN specifications

Web user interface
Computer skills:
Restrictions to use:

SCAN distribution

SCAN support


  • Wei Zhang <>


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Department of Preventive Medicine, Northwestern University Feinberg School of Medicine, Chicago, IL, USA; The Affiliated Hospital of Medical School, Ningbo University, Ningbo, Zhejiang Province, China; Section of Genetic Medicine, Department of Medicine, University of Chicago, Chicago, IL, USA; Section of Hematology/Oncology, Department of Medicine, University of Illinois at Chicago, Chicago, IL, USA; Department of Bioengineering, University of Illinois at Chicago, Chicago, IL, USA; Biological Resources Laboratory, University of Illinois at Chicago, Chicago, IL, USA

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