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Predicting male fertility in dairy cattle using markers with large effect and functional annotation data
(BMC, 2019-04)
Background: Fertility is among the most important economic traits in dairy cattle. Genomic prediction for cow fertility has received much attention in the last decade, while bull fertility has been largely overlooked. The ...
Tackling Hypotheticals in Helminth Genomes
(Elsevier, 2018-03)
Advancements in genome sequencing have led to the rapid accumulation of uncharacterized ‘hypothetical proteins’ in the public databases. Here we provide a community perspective and some best-practice approaches for the ...
Comparative functional genomics of salt stress in related model and cultivated plants identifies and overcomes limitations to translational genomics
(Public Library of Science, 2011-02-14)
One of the objectives of plant translational genomics is to use knowledge and genes discovered in model species to improve crops. However, the value of translational genomics to plant breeding, especially for complex traits ...
Stomatal vs. genome size in angiosperms: the somatic tail wagging the genomic dog?
(Oxford University Press, 2010-04)
Background and Aims Genome size is a function, and the product, of cell volume. As such it is contingent on ecological circumstance. The nature of ‘this ecological circumstance’ is, however, hotly debated. Here, we ...
Functional genomics of tomato for the study of plant immunity
(Oxford University Press, 2015-07)
Tomato (Solanum lycopersicum), along with many other economically valuable species, belongs to the Solanaceae family. Understanding how plants in this family defend themselves against pathogens offers the opportunity of ...
Multiomix: a cloud-based platform to infer cancer genomic and epigenomic events associated with gene expression modulation
(Oxford University Press, 2021-09)
Motivation: Large-scale cancer genome projects have generated genomic, transcriptomic, epigenomic and clinicopathological data from thousands of samples in almost every human tumor site. Although most omics data and their ...
The first plastid genome of the Holoparasitic Genus Prosopanche (Hydnoraceae)
(MPDI, 2020-03)
Plastomes of parasitic and mycoheterotrophic plants show different degrees of reduction depending on the plants' level of heterotrophy and host dependence in comparison to photoautotrophic sister species, and the amount ...
Genomic prediction of bull fertility in US Jersey dairy cattle
(Elsevier, 2019-04)
Service sire has a major effect on reproductive success in dairy cattle. Recent studies have reported accurate predictions for Holstein bull fertility using genomic data. The objective of this study was to assess the ...
Human genomic regions with exceptionally high levels of population differentiation identified from 911 whole-genome sequences
(BioMed Central, 2016-06-30)
Population differentiation has proved to be effective for identifying loci under geographically localized positive selection, and has the potential to identify loci subject to balancing selection. We have previously ...
Development of genomic resources for Nothofagus species using next‐generation sequencing data
(Wiley, 2014-11)
Using next‐generation sequencing, we developed the first whole‐genome resources for two hybridizing Nothofagus species of the Patagonian forests that crucially lack genomic data, despite their ecological and industrial ...