scRDEN – single-cell dynamic gene rank differential expression network and robust trajectory inference
Understanding how a single cell matures and takes on a specific role in the body…
Browsing: Expression and Quantification
miRglmm – a generalized linear mixed model of isomiR-level counts
MicroRNAs (miRNAs) are small but powerful molecules that play a crucial role in regulating gene…
TRADE – ranscriptome-wide analysis of differential expression
CRISPR technology has made it possible to systematically explore the effects of turning genes on…
A realistic FastQ-based framework – FastQDesign for scRNA-seq study design issues
Single-cell RNA sequencing (scRNA-seq) has revolutionized the way scientists study gene expression at the individual…
LocusMasterTE – integrating long-read RNA sequencing improves locus-specific quantification of transposable element expression
Transposable elements (TEs), often called “jumping genes,” are mobile DNA sequences that can relocate within…
FedPyDESeq2 – a federated framework for bulk RNA-seq differential expression analysis
RNA sequencing (RNA-seq) has opened up new frontiers in understanding gene activity and its role…
Unraveling RNA sequencing challenges: a new approach to understanding nascent and mature mRNA
RNA sequencing (RNA-seq) has revolutionized our ability to study gene expression by providing detailed snapshots…
ConDecon – clustering-independent estimation of cell abundances in bulk tissues using single-cell RNA-seq data
Understanding the complex world of cells within tissues has taken a leap forward with the…
Transcriptome-wide analysis of the 5′ Cap status of RNA and RNA sequencing
Messenger RNA (mRNA) is essential for transferring genetic instructions from DNA to the cellular machinery…
Memento – method of moments framework for differential expression analysis of single-cell RNA sequencing data
Single-cell RNA sequencing (scRNA-seq) is a powerful technique that allows scientists to study how genes…