RNA sequencing: the teenage years
Over the past decade, RNA sequencing (RNA-seq) has become an indispensable tool for
transcriptome-wide analysis of differential gene expression and differential splicing of …
transcriptome-wide analysis of differential gene expression and differential splicing of …
Multi-omics approaches to disease
High-throughput technologies have revolutionized medical research. The advent of
genoty** arrays enabled large-scale genome-wide association studies and methods for …
genoty** arrays enabled large-scale genome-wide association studies and methods for …
Heavy-tailed prior distributions for sequence count data: removing the noise and preserving large differences
Motivation In RNA-seq differential expression analysis, investigators aim to detect those
genes with changes in expression level across conditions, despite technical and biological …
genes with changes in expression level across conditions, despite technical and biological …
[HTML][HTML] From reads to genes to pathways: differential expression analysis of RNA-Seq experiments using Rsubread and the edgeR quasi-likelihood pipeline
In recent years, RNA sequencing (RNA-seq) has become a very widely used technology for
profiling gene expression. One of the most common aims of RNA-seq profiling is to identify …
profiling gene expression. One of the most common aims of RNA-seq profiling is to identify …
Exaggerated false positives by popular differential expression methods when analyzing human population samples
When identifying differentially expressed genes between two conditions using human
population RNA-seq samples, we found a phenomenon by permutation analysis: two …
population RNA-seq samples, we found a phenomenon by permutation analysis: two …
RNA-Seq differential expression analysis: An extended review and a software tool
The correct identification of differentially expressed genes (DEGs) between specific
conditions is a key in the understanding phenotypic variation. High-throughput transcriptome …
conditions is a key in the understanding phenotypic variation. High-throughput transcriptome …
Nanopore direct RNA sequencing maps the complexity of Arabidopsis mRNA processing and m6A modification
Understanding genome organization and gene regulation requires insight into RNA
transcription, processing and modification. We adapted nanopore direct RNA sequencing to …
transcription, processing and modification. We adapted nanopore direct RNA sequencing to …
Applications of multi‐omics analysis in human diseases
Multi‐omics usually refers to the crossover application of multiple high‐throughput screening
technologies represented by genomics, transcriptomics, single‐cell transcriptomics …
technologies represented by genomics, transcriptomics, single‐cell transcriptomics …
Systematic investigation of cytokine signaling activity at the tissue and single-cell levels
Cytokines are critical for intercellular communication in human health and disease, but the
investigation of cytokine signaling activity has remained challenging due to the short half …
investigation of cytokine signaling activity has remained challenging due to the short half …
Full-length transcript characterization of SF3B1 mutation in chronic lymphocytic leukemia reveals downregulation of retained introns
AD Tang, CM Soulette, MJ van Baren, K Hart… - Nature …, 2020 - nature.com
While splicing changes caused by somatic mutations in SF3B1 are known, identifying full-
length isoform changes may better elucidate the functional consequences of these …
length isoform changes may better elucidate the functional consequences of these …