DistiLD Database: diseases and traits in linkage disequilibrium blocks

TY - JOUR

T1 - DistiLD Database

T2 - diseases and traits in linkage disequilibrium blocks

AU - Palleja, Albert

AU - Horn, Heiko

AU - Eliasson, Sabrina

AU - Jensen, Lars Juhl

PY - 2012/1

Y1 - 2012/1

N2 - Genome-wide association studies (GWAS) have identified thousands of single nucleotide polymorphisms (SNPs) associated with the risk of hundreds of diseases. However, there is currently no database that enables non-specialists to answer the following simple questions: which SNPs associated with diseases are in linkage disequilibrium (LD) with a gene of interest? Which chromosomal regions have been associated with a given disease, and which are the potentially causal genes in each region? To answer these questions, we use data from the HapMap Project to partition each chromosome into so-called LD blocks, so that SNPs in LD with each other are preferentially in the same block, whereas SNPs not in LD are in different blocks. By projecting SNPs and genes onto LD blocks, the DistiLD database aims to increase usage of existing GWAS results by making it easy to query and visualize disease-associated SNPs and genes in their chromosomal context. The database is available at http://distild.jensenlab.org/.

AB - Genome-wide association studies (GWAS) have identified thousands of single nucleotide polymorphisms (SNPs) associated with the risk of hundreds of diseases. However, there is currently no database that enables non-specialists to answer the following simple questions: which SNPs associated with diseases are in linkage disequilibrium (LD) with a gene of interest? Which chromosomal regions have been associated with a given disease, and which are the potentially causal genes in each region? To answer these questions, we use data from the HapMap Project to partition each chromosome into so-called LD blocks, so that SNPs in LD with each other are preferentially in the same block, whereas SNPs not in LD are in different blocks. By projecting SNPs and genes onto LD blocks, the DistiLD database aims to increase usage of existing GWAS results by making it easy to query and visualize disease-associated SNPs and genes in their chromosomal context. The database is available at http://distild.jensenlab.org/.

KW - Databases, Nucleic Acid

KW - Disease

KW - Genome-Wide Association Study

KW - Linkage Disequilibrium

KW - Molecular Sequence Annotation

KW - Polymorphism, Single Nucleotide

KW - User-Computer Interface

U2 - 10.1093/nar/gkr899

DO - 10.1093/nar/gkr899

M3 - Journal article

C2 - 22058129

SN - 0305-1048

VL - 40

SP - D1036-40

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - Database issue

ER -