FFPE resource center

FFPE in focus series

QIAGEN scientists share their expertise

The archives of formalin-fixed, paraffin-embedded (FFPE) tissue sections stored around the world represent a valuable and extensive source of material for biomedical research. FFPE tissue is a precious but challenging sample type that requires highly efficient methods for analyte purification and downstream molecular analysis,  that can deal with the nature of FFPE samples. Sign in for our tips and tricks series and benefit from the expertise of QIAGEN scientists.

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Norbert Hochstein: Methylation analysis by Pyrosequencing – impact of amplicon length and DNA input quantity

Norbert gives an overview of a Pyrosequencing workflow for methylation analysis followed by key findings of his Pyrosequencing study using FFPE samples and the impacts of amplicon length and DNA input quantity on results.

Francesca Di Pasquale: miRNA analysis by PCR

Francesca discusses common challenges when working with miRNA from FFPE samples and key considerations for primer design, quality control and data normalization for miRNA expression analysis by qPCR.

Marie-Louise Lunn: miRNA FFPE ISH in cancer biomarker development

Marie-Louise talks about optimized miRNA in situ hybridization for localization studies using locked nucleic acids (LNAs). She will discuss an optimized, non-toxic, one-day protocol, along with controls needed, for ISH protocol optimization.

Jonathan Shaffer: Whole transcriptome NGS of FFPE samples

Jon introduces a new technology to efficiently remove rRNA from FFPE samples during whole transcriptome RNA-seq that dramatically increases the reads mapped to genes and detected genes, leading to robust differential expression analysis.

Jonathan Shaffer: Multimodal NGS analysis from FFPE samples

Jon talks about a new workflow – multimodal NGS – for simultaneous profiling of both DNA variants and RNA fusions. He will discuss, with examples, how this solution allows consolidated DNA and RNA targeted library preparation from FFPE samples.

Leif Schauser: NGS data analysis using QIAGEN CLC Genomics Workbench

Leif introduces the QIAGEN CLC Genomics Workbench for NGS data analysis and the key features that are relevant to FFPE. In a live demo, he will guide you through the key steps of DNA-seq and RNA-seq data analysis workflows.

Successful biomarker profiling from FFPE samples

FFPE tissue sections are a precious but challenging sample type that requires highly efficient methods for analyte purification and downstream molecular analysis.
Learn about the latest methods and critical considerations for the preparation of FFPE samples and the preanalytical workflow steps for molecular analysis.

Discover the real potential of FFPE samples

From sample preparation to data analysis, for molecular analysis by NGS, digital PCR, PCR or qPCR – Discover QIAGEN’s Sample to Insight solutions for successful molecular analysis from FFPE samples

Product in focus: 

QIAamp DNA FFPE Advanced Kit

This next-generation kit for isolating DNA from FFPE tissue samples will enable you to increase your amplifiable DNA yields. The xylene-free, no-wash deparaffinization, double-lyse protocol, can also be automated.