Differential expression (DE) is commonly used to explore molecular mechanisms of
biological conditions. While many studies report significant results between their groups of …

Identifying the molecular mechanisms that control differential gene expression (DE) is a
major goal of basic and disease biology. Here, we develop a systems biology model to …

Background Differential gene expression is important to understand the biological
differences between healthy and diseased states. Two common sources of differential gene …

Abstract Background Long non-coding RNAs (lncRNAs) are typically expressed at low
levels and are inherently highly variable. This is a fundamental challenge for differential …

Large-scale transcriptome studies with multiple samples per individual are widely used to
study disease biology. Yet, current methods for differential expression are inadequate for …

Background Identifying differentially expressed genes (DEG) is a fundamental step in
studies that perform genome wide expression profiling. Typically, DEG are identified by …

Motivation: Many methods of identifying differential expression in genes depend on testing
the null hypotheses of exactly equal means or distributions of expression levels for each …

Regulatory elements recruit transcription factors that modulate gene expression distinctly
across cell types, but the relationships among these remains elusive. To address this, we …

Comparing the gene-expression profiles of sick and healthy individuals can help in
understanding disease. Such differential expression analysis is a well-established way to …

Abstract Background RNA sequencing (RNA-Seq) has been widely applied in oncology for
monitoring transcriptome changes. However, the emerging problem that high variation of …