[HTML][HTML] The era of the ARG: an empiricist's guide to ancestral recombination graphs
In the presence of recombination, the evolutionary relationships between a set of sampled
genomes cannot be described by a single genealogical tree. Instead, the genomes are …
genomes cannot be described by a single genealogical tree. Instead, the genomes are …
[HTML][HTML] The era of the ARG: An introduction to ancestral recombination graphs and their significance in empirical evolutionary genomics
In the presence of recombination, the evolutionary relationships between a set of sampled
genomes cannot be described by a single genealogical tree. Instead, the genomes are …
genomes cannot be described by a single genealogical tree. Instead, the genomes are …
[HTML][HTML] A general and efficient representation of ancestral recombination graphs
As a result of recombination, adjacent nucleotides can have different paths of genetic
inheritance and therefore the genealogical trees for a sample of DNA sequences vary along …
inheritance and therefore the genealogical trees for a sample of DNA sequences vary along …
[PDF][PDF] Power of inclusion: Enhancing polygenic prediction with admixed individuals
Y Tanigawa, M Kellis - The American Journal of Human Genetics, 2023 - cell.com
Admixed individuals offer unique opportunities for addressing limited transferability in
polygenic scores (PGSs), given the substantial trans-ancestry genetic correlation in many …
polygenic scores (PGSs), given the substantial trans-ancestry genetic correlation in many …
Robust and accurate bayesian inference of genome-wide genealogies for large samples
The Ancestral Recombination Graph (ARG), which describes the full genealogical history of
a sample of genomes, is a vital tool in population genomics and biomedical research …
a sample of genomes, is a vital tool in population genomics and biomedical research …
[HTML][HTML] Haplotype Function Score improves biological interpretation and cross-ancestry polygenic prediction of human complex traits
We propose a new framework for human genetic association studies: at each locus, a deep
learning model (in this study, Sei) is used to calculate the functional genomic activity score …
learning model (in this study, Sei) is used to calculate the functional genomic activity score …
tstrait: a quantitative trait simulator for ancestral recombination graphs
D Tagami, G Bisschop, J Kelleher - Bioinformatics, 2024 - academic.oup.com
Ancestral recombination graphs (ARGs) encode the ensemble of correlated genealogical
trees arising from recombination in a compact and efficient structure, and are of fundamental …
trees arising from recombination in a compact and efficient structure, and are of fundamental …
Publicly available privacy-preserving benchmarks for polygenic prediction
Recently, several new approaches for creating polygenic scores (PGS) have been
developed and this trend shows no sign of abating. However, it has thus far been …
developed and this trend shows no sign of abating. However, it has thus far been …
[HTML][HTML] Evidence based on Mendelian randomization: Causal relationship between mitochondrial biological function and lung cancer and its subtypes
K Zhu, J Shi, R Yang, C Zhou, Z Liu - Neoplasia, 2023 - Elsevier
Objective This study aimed to investigate the causal relationship between mitochondrial
biological function and lung cancer, including its subtypes, via MR. Methods SNPs …
biological function and lung cancer, including its subtypes, via MR. Methods SNPs …
[PDF][PDF] Improved Estimation of Functional Enrichment in SNP Heritability Using Feasible Generalized Least Squares
Functional enrichment results typically implicate tissue or cell-type specific biological
pathways in disease pathogenesis and as therapeutic targets. We propose generalized …
pathways in disease pathogenesis and as therapeutic targets. We propose generalized …