RedRibbon – A new rank–rank hypergeometric overlap for gene and transcript expression signatures
High-throughput omics technologies have generated a wealth of large protein, gene, and transcript datasets that…
Browsing: Splicing and Junction Mapping
RiboSplitter – prediction of alternative pre-mRNA splicing outcomes
To understand the biological impact of alternative pre-mRNA splicing, it is vital to know which…
MkcDBGAS – a reference-free approach to identify comprehensive alternative splicing events in a transcriptome
Alternative splicing (AS) is an essential post-transcriptional mechanism that regulates many biological processes. However, identifying…
Deciphering RNA splicing logic with interpretable machine learning
Machine learning methods, particularly neural networks trained on large datasets, are transforming how scientists approach…
New algorithm six times more reliable at predicting defective RNA
So far, it has not been possible to explain the causes of around half of…
Alternative splicing analysis benchmark with DICAST
Alternative splicing is a major contributor to transcriptome and proteome diversity in health and disease.…
SpliceTools – a suite of downstream RNA splicing analysis tools to investigate mechanisms and impact of alternative splicing
As a fundamental aspect of normal cell signaling and disease states, there is great interest…
SpliceVault – predicting the precise nature of variant-associated mis-splicing
Even for essential splice-site variants that are almost guaranteed to alter mRNA splicing, no current…
ESPRESSO – robust discovery and quantification of transcript isoforms from error-prone long-read RNA-seq data
Long-read RNA sequencing (RNA-seq) holds great potential for characterizing transcriptome variation and full-length transcript isoforms,…
MARVEL – an integrated alternative splicing analysis platform for single-cell RNA sequencing data
Alternative splicing is an important source of heterogeneity underlying gene expression between individual cells but…