Methods of integrating data to uncover genotype–phenotype interactions
MD Ritchie, ER Holzinger, R Li… - Nature Reviews …, 2015 - nature.com
Recent technological advances have expanded the breadth of available omic data, from
whole-genome sequencing data, to extensive transcriptomic, methylomic and metabolomic …
whole-genome sequencing data, to extensive transcriptomic, methylomic and metabolomic …
RNA sequencing and analysis
KR Kukurba, SB Montgomery - Cold Spring Harbor Protocols, 2015 - cshprotocols.cshlp.org
RNA sequencing (RNA-Seq) uses the capabilities of high-throughput sequencing methods
to provide insight into the transcriptome of a cell. Compared to previous Sanger sequencing …
to provide insight into the transcriptome of a cell. Compared to previous Sanger sequencing …
Epigenomic landscape and epigenetic regulation in maize
J Yu, F Xu, Z Wei, X Zhang, T Chen, L Pu - Theoretical and Applied …, 2020 - Springer
Key message Epigenetic regulation has been implicated in the control of multiple agronomic
traits in maize. Here, we review current advances in our understanding of epigenetic …
traits in maize. Here, we review current advances in our understanding of epigenetic …
Nucleus-specific expression in the multinuclear mushroom-forming fungus Agaricus bisporus reveals different nuclear regulatory programs
Many fungi are polykaryotic, containing multiple nuclei per cell. In the case of heterokaryons,
there are different nuclear types within a single cell. It is unknown what the different nuclear …
there are different nuclear types within a single cell. It is unknown what the different nuclear …
Nonsyntenic genes drive tissue-specific dynamics of differential, nonadditive, and allelic expression patterns in maize hybrids
JA Baldauf, C Marcon, A Paschold… - Plant …, 2016 - academic.oup.com
Distantly related maize (Zea mays) inbred lines display an exceptional degree of genomic
diversity. F1 progeny of such inbred lines are often more vigorous than their parents, a …
diversity. F1 progeny of such inbred lines are often more vigorous than their parents, a …
Empirical Bayes analysis of RNA-seq data for detection of gene expression heterosis
J Niemi, E Mittman, W Landau, D Nettleton - Journal of agricultural …, 2015 - Springer
An important type of heterosis, known as hybrid vigor, refers to the enhancements in the
phenotype of hybrid progeny relative to their inbred parents. Although hybrid vigor is …
phenotype of hybrid progeny relative to their inbred parents. Although hybrid vigor is …
Allele Workbench: transcriptome pipeline and interactive graphics for allele-specific expression
CA Soderlund, WM Nelson, SA Goff - PloS one, 2014 - journals.plos.org
Sequencing the transcriptome can answer various questions such as determining the
transcripts expressed in a given species for a specific tissue or condition, evaluating …
transcripts expressed in a given species for a specific tissue or condition, evaluating …
Bayesian Estimation of Allele-Specific Expression in the Presence of Phasing Uncertainty
Motivation Allele-specific expression (ASE) analyses aim to detect imbalanced expression of
maternal versus paternal copies of an autosomal gene. Such allelic imbalance can result …
maternal versus paternal copies of an autosomal gene. Such allelic imbalance can result …
Analysis of allele specific expression-a survey
F Gu, X Wang - Tsinghua Science and Technology, 2015 - ieeexplore.ieee.org
Allele specific expression is essential for cellular programming and development and the
diversity of cellular phenotypes. Traditional analysis methods utilize RNA and depend on …
diversity of cellular phenotypes. Traditional analysis methods utilize RNA and depend on …
蛋白质组学技术在玉米杂种优势研究上的应用进展
冯万军, 窦晨, 牛旭龙, 邢国芳 - 生物技术通报, 2015 - biotech.aiijournal.com
杂种优势是生物界普遍存在的一种现象, 在玉米中已经广泛应用, 但其形成的分子机理仍不清楚.
蛋白质组学技术是一种高通量筛选重要功能蛋白的研究手段, 在玉米杂种优势的形成上进行 …
蛋白质组学技术是一种高通量筛选重要功能蛋白的研究手段, 在玉米杂种优势的形成上进行 …