| Title: | X-LDR: an atlas of linkage disequilibrium across species |
| Journal: | Genome Biology |
| Published: | 20 Nov 2025 |
| Pubmed: | https://pubmed.ncbi.nlm.nih.gov/41267068/ |
| DOI: | https://doi.org/10.1186/s13059-025-03863-5 |
| URL: | https://genomebiology.biomedcentral.com/counter/pdf/10.1186/s13059-025-03863-5 |
Publication 18871
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Abstract
To reach a genomic scale illustration for linkage disequilibrium (LD), we introduce X-LDR, a stochastic algorithm for biobank-scale data ($$\mathcal {O}(nmB)$$, n the sample size, m the number of SNPs, and B iterations). X-LDR can scale the entire genome to high-resolution LD grids, such as nearly 9 million LD grids for UK Biobank ($$n \approx 300,000$$ and $$m\approx 4.2$$ million). Various characteristics of LD are discovered in terms of their biological annotation. We also present an unprecedented LD atlas for 25 reference populations that contours the diversity of interspecies LD. The algorithms have been implemented in C++.</p>
6 Keywords
- Algorithms
- Animals
- Genomics
- Humans
- Linkage Disequilibrium
- Polymorphism, Single Nucleotide
13 Authors
- Tian-Neng Zhu
- Xing Huang
- Meng-Yuan Yang
- Guo-An Qi
- Qi-Xin Zhang
- Feng Lin
- Wenjing Zhang
- Zhe Zhang
- Xin Jin
- Hou-Feng Zheng
- Hai-Ming Xu
- Shizhou Yu
- Guo-Bo Chen
1 Application
| Application ID | Title |
|---|---|
| 41376 | Statistical genetics methods for complex traits using large-scale genomic data |
Enabling scientific discoveries that improve human health