Methods

RNA sequencing (RNA-seq) is a common and widespread biological assay, and an increasing amount of data is generated with it. In practice, there are a large number of individual steps a researcher must perform before raw RNA-seq reads yield directly ...

A prerequisite to defining the transcriptome-wide functions of RNA modifications is the ability to accurately determine their location. NCI researchers have developed N4-acetylcytidine (ac4C) sequencing (ac4C-seq), a protocol for the quantitative single...

Trips-Viz is an interactive platform for the analysis and visualization of ribosome profiling (Ribo-Seq) and shotgun RNA sequencing (RNA-seq) data...

Terminal nucleotidyl transferases are enzymes that add non-templated nucleotides to RNA molecules. In the case of microRNAs, this process was shown to be functionally relevant for their maturation process...

RNA sequencing analysis focus on the detection of differential gene expression changes that meet a two-fold minimum change between groups. The variability present in RNA sequencing data may obscure...

Single-cell RNA sequencing reveals 40 different cell types in Stylophora pistillata, a reef-building stony coral native to the Indo-Pacific oceans. The calcium carbonate skeleton of stony coral colonies are the...

Despite substantial progress in single-cell RNA-seq (scRNA-seq) data analysis methods, there is still little agreement on how to best normalize such data...

In December 2019, a new coronavirus, SARS-CoV-2, which causes the respiratory illness that led to the COVID-19 pandemic, was reported. In the face of...

Alternative RNA isoforms are defined by promoter choice, alternative splicing, and polyA site selection. Although differential isoform expression is known to play a large regulatory role in eukaryotes, it has proved challenging to study with standard short-read RNA-seq because of ...

Conventional scRNA-seq expression analyses rely on the availability of a high quality genome annotation. Yet, as researchers show here with scRNA-seq experiments and analyses spanning human, mouse...