Results 131 to 140 of about 48,393 (270)
Sequence Polymorphisms Cause Many False cis eQTLs
PLoS ONE, 2007 Many investigations have reported the successful mapping of quantitative trait loci (QTLs) for gene expression phenotypes (eQTLs). Local eQTLs, where expression phenotypes map to the genes themselves, are of especially great interest, because they are direct candidates for previously mapped physiological QTLs.
Alberts, Rudi +5 more
openaire +4 more sources
PLoS ONE, 2012 BackgroundThe main goal of the present study was to analyse the genetic architecture of mRNA expression in muscle, a tissue with an outmost economic importance for pig breeders.
Angela Cánovas +5 more
doaj +1 more source
Plant Biotechnology Journal, EarlyView.ABSTRACT Chromatin interactions establish spatial proximity between distant regulatory elements and their target genes, significantly influencing gene expression, and phenotypic traits. In this study, we present a plant chromatin interaction prediction model called PlantCTCIP based on Convolutional Neural Networks and Transformer.
Zhenye Wang +14 more
wiley +1 more source
Accurate modeling of confounding variation in eQTL studies leads to a great increase in power to detect trans-regulatory effects [PDF]
, 2011 Expression quantitative trait loci (eQTL) studies are an integral tool to investigate the genetic component of gene expression variation. A major challenge in the analysis of such studies are hidden confounding factors, such as unobserved covariates or ...
Neil Lawrence +2 more
core +1 more source
Challenges in Bringing Pangenome Research Into Breeding: A Case Study in Rice
Plant Biotechnology Journal, EarlyView.ABSTRACT Crop breeding has entered the pangenomics era, unlocking a far more comprehensive view of genetic diversity than a single reference genome can capture. In rice (Oryza sativa), a staple crop critical to global food security, the construction of pangenome resources has uncovered extensive structural variations (SVs), presence/absence variations (
Shuai Nie +7 more
wiley +1 more source
Plant Biotechnology Journal, EarlyView.ABSTRACT Sugar content is a key determinant of fruit quality, and sugars also act as signalling molecules that regulate ripening processes, including anthocyanin accumulation. However, the molecular mechanisms underlying sugar accumulation and sugar signal‐mediated ripening remain incompletely understood.
Qianqian Feng +12 more
wiley +1 more source
Depicting Gene Co-expression Networks Underlying eQTLs [PDF]
, 2016 Deciphering the biological mechanisms underlying a list of genes whose expression is under partial genetic control (i.e., having at least one eQTL) may not be as easy as for a list of differential genes. Indeed, no specific phenotype (e.g., health or production phenotype) is linked to the list of transcripts under study.
Vialaneix, Nathalie +2 more
openaire +3 more sources
Sweet Potato Gene Clusters Control Anthocyanin Biosynthesis and Leaf Morphology
Plant Biotechnology Journal, EarlyView.ABSTRACT Sweet potato (Ipomoea batatas) exhibits diversity in pigmentation and leaf morphology, yet the genetic architecture and regulatory organisation underlying these traits remain poorly resolved, particularly with respect to organ‐specific control.
Dong An +13 more
wiley +1 more source
PLoS Computational Biology, 2020 A longstanding goal of regulatory genetics is to understand how variants in genome sequences lead to changes in gene expression. Here we present a method named Bayesian Annotation Guided eQTL Analysis (BAGEA), a variational Bayes framework to model cis ...
David Lamparter +5 more
doaj +1 more source