Simple Summary Next-generation sequencing (NGS) is a powerful tool used in genomics
research. NGS can sequence millions of DNA fragments at once, providing detailed …

In comparative high-throughput sequencing assays, a fundamental task is the analysis of
count data, such as read counts per gene in RNA-seq, for evidence of systematic changes …

Motivation: Next-generation sequencing technologies generate millions of short sequence
reads, which are usually aligned to a reference genome. In many applications, the key …

Abstract The methyltransferase like 3 (METTL3)-containing methyltransferase complex
catalyzes the N6-methyladenosine (m6A) formation, a novel epitranscriptomic marker; …

RNA-Seq is a powerful tool for the study of alternative splicing and other forms of alternative
isoform expression. Understanding the regulation of these processes requires sensitive and …

Next-generation sequencing (NGS) technologies are revolutionizing genome research, and
in particular, their application to transcriptomics (RNA-seq) is increasingly being used for …

Motivation: Messenger RNA expression is important in normal development and
differentiation, as well as in manifestation of disease. RNA-seq experiments allow for the …

A large number of computational methods have been developed for analyzing differential
gene expression in RNA-seq data. We describe a comprehensive evaluation of common …

Background Understanding the relationship between the millions of functional DNA
elements and their protein regulators, and how they work in conjunction to manifest diverse …

Fibrolamellar hepatocellular carcinoma (FL-HCC) is a rare liver tumor affecting adolescents
and young adults with no history of primary liver disease or cirrhosis. We identified a …