Differential gene expression analysis of early-ripening mutants of grape ( Vitis vinifera L.)GrapeDigital gene expressionFruit skin colorEarly ripeningIn the present study, digital gene expression (DGE) profiles of grape (Vitis vinifera L., cv. Yinhong) and its mutants (YH-20-1 and YH-20-2)...
An RNA-seq experiment with 48 biological replicates in each of 2 conditions was performed to determine the number of biological replicates ($n_r$) required, and to identify the most effective statistical analysis tools for identifying differential gene expression (DGE). When $n_r=3$, seven of...
To explore the molecular mechanisms underlying the fruit quality effects of different bagging treatments, digital gene expression (DGE) profiling of bagged and unbagged ‘Chili’ (Pyrus bretschneideri Rehd.) pear pericarp during development was performed. Relative to unbagged fruit, a total of 3022 ...
This article introduces various bioinformatics methods (including pseudobulk, mixed-effects model, and differential distribution testing) for performing differential gene expression analysis between conditions using single cell data.
edgeR: a Bioconductor package for differential expression analysis of digital gene expression data 被引用(137) 发布时间·被引用数·默认排序 An Erg driven transcriptional program controls B-lymphopoiesis Kira BehrensTimothy M. JohansonMichael Sze Yuan Low...Sandra Mifsud ...
High genetic heterogeneity may greatly affect differentially expressed gene (DEG) detection in RNA-seq analysis and therefore undermine the reliability of differential expression (DE) results. However, the impact of tumor heterogeneity on the reliability of DE results obtained from RNA-seq data has ...
of Sample Retrieval. RNA Isolation and Microarray Analysis Screening. This was followed by pre-processing of the generated raw gene expression data. The resulting normalized gene expression data, corresponding to the total of 53,617 probesets, was used as input for differential expression analysis. ...
Type 2 diabetes (T2D) is implicated as a risk factor for Alzheimer’s disease (AD), the most common form of dementia. In this work, we investigated neuroinflammatory responses of primary neurons to potentially circulating, blood–brain barrier (BBB) perm
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glutinosa using RNA-seq and DGE (digital gene expression profiling) technology. Functional analysis of these genes suggests that some metabolic pathways, including DNA replication, RNA and protein synthesis, cell division, hormone responses, and chromatin modification, are severely inhibited in replanted...