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用于检测基因表达杂种优势的RNA-seq计数全贝叶斯分析AI 解读

Heterosis, or hybrid vigor, is the enhancement of the phenotype of hybrid progeny relative to their inbred parents. Heterosis is extensively used in agriculture, and the underlying mechanisms are unclear. To investigate the molecular basis of phenotypic heterosis, researchers search tens of thousands of genes for heterosis with respect to expression in the transcriptome. Difficulty arises in the assessment of heterosis due to composite null hypotheses and non-uniform…

植物功能表型分析的嵌套分层函数数据建模与推断AI 解读

In a plant science Root Image Study, the process of seedling roots bending in response to gravity is recorded using digital cameras, and the bending rates are modeled as functional plant phenotype data. The functional phenotypes are collected from seeds representing a large variety of genotypes and have a three-level nested hierarchical structure, with seeds nested in groups nested in genotypes. The seeds are imaged on different days of the lunar cycle, and an important…

通过阈值化极大似然估计检测稀少且微弱的信号AI 解读

Motivated by the analysis of RNA sequencing (RNA-seq) data for genes differentially expressed across multiple conditions, we consider detecting rare and faint signals in high-dimensional response variables. We address the signal detection problem under a general framework, which includes generalized linear models for count-valued responses as special cases. We propose a test statistic that carries out a multi-level thresholding on maximum likelihood estimators (MLEs) of the…

错误发现率控制与估计的自适应及动态自适应程序AI 解读

Summary Many methods for estimation or control of the false discovery rate (FDR) can be improved by incorporating information about π0, the proportion of all tested null hypotheses that are true. Estimates of π0 are often based on the number of p-values that exceed a threshold λ. We first give a finite sample proof for conservative point estimation of the FDR when the λ-parameter is fixed. Then we establish a condition under which a dynamic adaptive procedure, whose…

检验多项分布单元概率是否严格居首AI 解读

Tests for the supremacy of a multinomial cell probability are developed. The tested null hypothesis states that a particular cell of interest is not more probable than all others. Rejection of this null leads to the conclusion that the cell of interest has a strictly greater probability than all other cells. The null hypothesis constrains the multinomial probability vector to a nonconvex region that is a union of closed convex cones. The likelihood ratio test for this…