Splicing Express

Splicing Express analyzes alternative splicing events (ASEs) from next-generation sequencing (NGS) and RNA-Seq data to identify and quantify splicing variation across samples.

Key Features:

• Input data types: Accepts next-generation sequencing (NGS) and RNA-Seq data for ASE analysis.
• Automatic annotation: Annotates transcriptome data using gene coordinates from the UCSC genome browser to map splicing events.
• ASE identification algorithm: Detects alternative splicing events using the algorithm previously implemented in Splooce.
• Comprehensive output: Produces HTML files containing graphics and tables that describe expression profiles of ASEs across analyzed samples.
• Cross-species capability: Supports analysis of data from multiple species.
• Validation with real RNA-Seq data: Validated using RNA-Seq datasets from the Illumina Human Body Map and the Rat Body Map projects.

Scientific Applications:

• Alternative splicing characterization: Identification and quantification of ASEs to profile transcriptomic diversity.
• Gene regulation studies: Investigation of how splicing variation affects gene expression regulation.
• Disease mechanism investigation: Detection of splicing alterations that may be relevant to disease mechanisms.
• Comparative and evolutionary transcriptomics: Comparison of splicing events across species to study evolutionary differences.

Methodology:

Automated annotation using gene coordinates from the UCSC genome browser combined with ASE detection via the algorithm implemented in Splooce on NGS/RNA-Seq data, with results output as HTML files containing graphics and tables.