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LD Score

Definition
AI-generated

The LD score of a variant is the sum of LD r² between that SNP and all other variants in a reference panel (optionally restricted by distance).

Topics
Population genetics
Related
Linkage Disequilibrium (LD) LD Score Regression

Why it matters in GWAS

LD scores are the core input to LD score regression for interpreting confounding versus polygenicity and for estimating SNP heritability and genetic correlation from summary statistics.

Example usage

"LD Score structure informed clumping, fine-mapping, and interpretation of nearby association peaks."

Linkage Disequilibrium (LD) LD Score Regression
Related-term network

Click any node to open that term page.

Node order. The current term is first. Next come every page linked from Related terms, in the same top-to-bottom order as that list. Then new terms appear in two-hop layers: for each of those direct neighbors (in that same order), their related terms are appended if not already listed. A third pass does the same for two-hop nodes. The walk stops when a fixed maximum number of nodes is reached.

References

  • Bulik-Sullivan BK, et al. (2015). LD Score regression distinguishes confounding from polygenicity in genome-wide association studies. Nat Genet.
  • GWASTutorial: LD score.
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