Application of genomic big data in plant breeding: Past, present, and future

KD Kim, Y Kang, C Kim - Plants, 2020 - mdpi.com
Plant breeding has a long history of developing new varieties that have ensured the food
security of the human population. During this long journey together with humanity, plant …

Connecting tree‐ring phenotypes, genetic associations and transcriptomics to decipher the genomic architecture of drought adaptation in a widespread conifer

C Depardieu, S Gérardi, S Nadeau… - Molecular …, 2021 - Wiley Online Library
As boreal forests face significant threats from climate change, understanding evolutionary
trajectories of coniferous species has become fundamental to adapting management and …

A genome-wide association study identifies single nucleotide polymorphisms associated with time-to-metastasis in colorectal cancer

ME Penney, PS Parfrey, S Savas, YE Yilmaz - BMC cancer, 2019 - Springer
A bstract Background Differentiating between cancer patients who will experience
metastasis within a short time and who will be long-term survivors without metastasis is a …

Rare modifier variants alter the severity of cardiovascular disease in pseudoxanthoma elasticum: Identification of novel candidate modifier genes and disease …

EYG De Vilder, L Martin, G Lefthériotis… - Frontiers in Cell and …, 2021 - frontiersin.org
Introduction: Pseudoxanthoma elasticum (PXE), an ectopic mineralization disorder caused
by pathogenic ABCC6 variants, is characterized by skin, ocular and cardiovascular (CV) …

Powerful rare variant association testing in a copula‐based joint analysis of multiple phenotypes

S Konigorski, YE Yilmaz, J Janke… - Genetic …, 2020 - Wiley Online Library
In genetic association studies of rare variants, the low power of association tests is one of
the main challenges. In this study, we propose a new single‐marker association test called …

Glucocorticoid receptor (NR3C1) gene polymorphisms are associated with age and blood parameters in Polish Caucasian nonagenarians and centenarians

E Olczak, A Kuryłowicz, Z Wicik, P Kołodziej… - Experimental …, 2019 - Elsevier
Introduction Polymorphism of the glucocorticoid receptor gene (NR3C1) may modify protein
abundance or function and therefore disturb human homeostasis. Methods Variant …

A review of software tools for statistical tests of genetic association with rare variants using next generation sequence data

RG Shankar, A Jorgensen, A Morris - 2022 - osf.io
Various statistical methods can be applied when undertaking analyses of association of
human disease and traits with rare genetic variants in next generation sequence (NGS) …

Integrating omics and MRI data with kernel-based tests and CNNs to identify rare genetic markers for Alzheimer's disease

S Konigorski, S Khorasani, C Lippert - arXiv preprint arXiv:1812.00448, 2018 - arxiv.org
For precision medicine and personalized treatment, we need to identify predictive markers of
disease. We focus on Alzheimer's disease (AD), where magnetic resonance imaging scans …

Eva YG De Vilder1, 2, 3, Ludovic Martin4, Georges Lefthériotis5, Paul Coucke1, 6, Filip Van Nieuwerburgh7 and Olivier M. Vanakker1, 6

S Komarova - … of Tissues: Mechanisms, Risk Factors, Diseases …, 2022 - books.google.com
Materials and Methods: Mixed effects of rare variants were assessed by Whole Exome
Sequencing in 11 PXE patients with an extreme CV phenotype (mild/severe). Statistical …

Ancestral trees as weighted networks: scalable screening for genome wide association studies

R Christ - 2017 - ora.ox.ac.uk
Several haplotype-based methods have been developed to identify loci where multiple
mutations of low to moderate frequency and effect size modulate disease susceptibility. Most …