FusionHunter

FusionHunter detects gene fusions from paired-end RNA-Seq (next-generation sequencing) data to identify fusion transcripts arising from genome rearrangements relevant to cancer research.

Key Features:

• Paired-end RNA-Seq analysis: Analyzes paired-end RNA-Seq reads to identify candidate fusion junctions.
• Transcriptional analysis: Operates at the transcript level to detect expressed fusion transcripts.
• Sensitivity and specificity: Reports fusion calls with reported high sensitivity and specificity for fusion detection.
• RT-PCR validation comparison: Detects fusion events that have been previously validated by RT-PCR in publicly available datasets.
• Next-generation sequencing support: Designed for use with next-generation sequencing RNA-Seq data.

Scientific Applications:

• Cancer research: Identifies fusion transcripts that may contribute to oncogenesis in tumor samples.
• Biomarker discovery: Supports detection of fusion events that can serve as diagnostic or therapeutic targets.
• Experimental validation planning: Guides selection of candidate fusions for downstream functional studies and RT-PCR confirmation.

Methodology:

Analyzes paired-end RNA-Seq data using transcriptional-level analysis and cross-references detected fusion events with RT-PCR-validated entries in publicly available datasets.