# Pangenome-genotyped structural variation improves molecular phenotype mapping in cattle

*PRI Rank #18 · Topics and Trends in Most Cited Genetic and phenotypic traits in livestock Papers, Class of 2026*

*Canonical URL: https://pri.pepkio.com/top-papers/genetic-and-phenotypic-traits-in-livestock/2026/rank-18*

| Field | Value |
| --- | --- |
| Rank | #18 |
| 18m citations | 18 |
| Journal | Genome Research |
| Year | 2024 |
| DOI | 10.1101/gr.278267.123 |
| Corresponding authors | Alexander S Leonard |
| Institution | ETH Zurich, Switzerland |

**Ranking page:** [Topics and Trends in Most Cited Genetic and phenotypic traits in livestock Papers, Class of 2026](https://pri.pepkio.com/top-papers/genetic-and-phenotypic-traits-in-livestock/2026)

**Paper link:** [10.1101/gr.278267.123](https://doi.org/10.1101/gr.278267.123)

## Topics

Pangenome graph construction · HiFi haplotype-resolved assemblies · PanGenie genotyping · structural variant genotyping from short reads · DeepVariant · expression quantitative trait loci (eQTL) mapping · splicing quantitative trait loci (sQTL) mapping · cattle testis transcriptome · transposable elements · STN1 · MYH7 · CEP89 · ASAH2 · linkage disequilibrium between SVs and small variants · causal candidate structural variants · minor allele frequency filtering (MAF > 0.1) · short-read alignment limitations for SV detection · medium coverage HiFi validation · 16 cattle assemblies pangenome · 307 short-read sample cohort

## Cite this ranking

```
Pepkio Research Index (PRI). Topics and Trends in Most Cited Genetic and phenotypic traits in livestock Papers, Class of 2026. https://pri.pepkio.com/top-papers/genetic-and-phenotypic-traits-in-livestock/2026. Accessed 2026-07-15.

Zheng Su, Tinsley Li, Thematic Shifts in Early-High-Impact Cancer Genomics and Diagnostics Research: A Bibliometric and Semantic Analysis. bioRxiv 2026.07.04.736459; doi: https://doi.org/10.64898/2026.07.04.736459
```