FFPEcap-seq

FFPEcap-seq profiles 5' capped RNAs from formalin-fixed paraffin-embedded (FFPE) clinical specimens to generate sequencing libraries that enable quantitative analysis of mRNA and enhancer RNA from degraded, low-yield RNA.

Key Features:

• Enzymatic Enrichment: Enzymatic enrichment selectively isolates 5' capped RNAs from FFPE-derived RNA.
• Template Switching Technology: Template switching is employed during library preparation to capture transcript 5' ends for sequencing.
• Detection of Enhancer RNAs: Detects enhancer RNAs originating from distal regulatory regions in addition to mRNAs.
• Efficiency and Simplicity: Provides a rapid and straightforward protocol for processing FFPE samples.

Scientific Applications:

• mRNA Expression Profiling: Enables precise mRNA expression profiling from degraded FFPE specimens.
• Regulatory RNA Analysis: Supports detection and study of enhancer RNAs to investigate gene regulation and regulatory networks.
• Cancer Research and Diagnostics: Applies to tumor biology studies and clinical molecular testing using archival FFPE cancer specimens, supporting large-scale studies and personalized medicine approaches.

Methodology:

Enzymatic enrichment of 5' capped RNAs followed by template switching–based library preparation is used to generate sequencing libraries from FFPE-derived RNA.