Conservation of biodiversity in the genomics era

MA Supple, B Shapiro - Genome biology, 2018 - Springer
Abstract “Conservation genomics” encompasses the idea that genome-scale data will
improve the capacity of resource managers to protect species. Although genetic approaches …

Hybridization in plants: old ideas, new techniques

BE Goulet, F Roda, R Hopkins - Plant physiology, 2017 - academic.oup.com
Hybridization has played an important role in the evolution of many lineages. With the
growing availability of genomic tools and advancements in genomic analyses, it is becoming …

Efficient coalescent simulation and genealogical analysis for large sample sizes

J Kelleher, AM Etheridge… - PLoS computational …, 2016 - journals.plos.org
A central challenge in the analysis of genetic variation is to provide realistic genome
simulation across millions of samples. Present day coalescent simulations do not scale well …

An overview of STRUCTURE: applications, parameter settings, and supporting software

L Porras-Hurtado, Y Ruiz, C Santos, C Phillips… - Frontiers in …, 2013 - frontiersin.org
Objectives: We present an up-to-date review of STRUCTURE software: one of the most
widely used population analysis tools that allows researchers to assess patterns of genetic …

[HTML][HTML] Integrated analysis of genetic ancestry and genomic alterations across cancers

J Yuan, Z Hu, BA Mahal, SD Zhao, KH Kensler, J Pi… - Cancer cell, 2018 - cell.com
Disparities in cancer care have been a long-standing challenge. We estimated the genetic
ancestry of The Cancer Genome Atlas patients, and performed a pan-cancer analysis on the …

Functional rare and low frequency variants in BLK and BANK1 contribute to human lupus

SH Jiang, V Athanasopoulos, JI Ellyard… - Nature …, 2019 - nature.com
Systemic lupus erythematosus (SLE) is the prototypic systemic autoimmune disease. It is
thought that many common variant gene loci of weak effect act additively to predispose to …

A dispersal of Homo sapiens from southern to eastern Africa immediately preceded the out-of-Africa migration

T Rito, D Vieira, M Silva, E Conde-Sousa, L Pereira… - Scientific reports, 2019 - nature.com
Africa was the birth-place of Homo sapiens and has the earliest evidence for symbolic
behaviour and complex technologies. The best-attested early flowering of these distinctive …

Tracking crop varieties using genotyping-by-sequencing markers: a case study using cassava (Manihot esculenta Crantz)

IY Rabbi, PA Kulakow, JA Manu-Aduening, AA Dankyi… - BMC genetics, 2015 - Springer
Background Accurate identification of crop cultivars is crucial in assessing the impact of crop
improvement research outputs. Two commonly used identification approaches, elicitation of …

Genetic ancestry analysis on> 93,000 individuals undergoing expanded carrier screening reveals limitations of ethnicity-based medical guidelines

KE Kaseniit, IS Haque, JD Goldberg, LP Shulman… - Genetics in …, 2020 - nature.com
Purpose Carrier status associates strongly with genetic ancestry, yet current carrier
screening guidelines recommend testing for a limited set of conditions based on a patient's …

A primer on the use of machine learning to distil knowledge from data in biological psychiatry

TP Quinn, JL Hess, VS Marshe, MM Barnett… - Molecular …, 2024 - nature.com
Applications of machine learning in the biomedical sciences are growing rapidly. This
growth has been spurred by diverse cross-institutional and interdisciplinary collaborations …