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TOPICAL COLLECTIONS

Workflows for Working with Fixed Tissues, Including Formalin Fixed Paraffin Embedded Tissues

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Alanna Maguire

Alanna Maguire

Mayo Clinic

Dr. Alanna Maguire is a Research Scientist at Mayo Clinic Arizona, where she leads retrospective translational studies that heavily depend on formalin fixed paraffin embedded (FFPE) archival tissues, to study the genomic and transcriptional differences between lymphomas arising in human immunodeficiency virus (HIV) infected and uninfected individuals. Her work employs FFPE derived RNA and DNA, as well as FFPE tissue sections in conjunction with digital gene expression profiling, array comparative genomic hybridization and immunohistochemistry respectively. Together, these methods are helping to provide greater insights into the genomic, transcriptional and protein landscapes that underlie the enhanced aggressive nature of lymphoma arising in the immune impaired environment resulting from HIV infection. Dr. Maguire is also the site PI of the AIDS and Cancer Specimen Resource (ACSR) Technical Core, an NIH funded bio-bank dedicated to the collection and equitable distribution of tissues stemming from HIV associated malignancies, including FFPE tissues. Together, her roles within the ACSR and as an independent investigator confer extensive experience handling FFPE tissues which are renowned for being difficult to work with.

Collection Overview

Formalin fixation and paraffin embedding is the most frequently used method employed for tissue preservation and long term storage in clinical settings. The principal use for formalin-fixed paraffin-embedded (FFPE) tissues is in histology, where histological stains, combined with disease-specific immunophenotyping, enable pathologists to morphologically examine representative FFPE tissue sections in order to make medical diagnoses. Once a diagnosis has been reached, FFPE tissue blocks are put in long-term storage. Consequently, FFPE tissues represent a vast resource for human disease research, often available in sufficient numbers to conduct significantly powered studies. Although high reagent costs, thin blocks, and the presence of contaminating non-tumor tissue, as well as fixation-associated nucleic acid degradation are often inhibitory to studies, careful processing and the use of advanced technologies can yield exceptional results from FFPE samples. This collection will look at methods and technologies that are compatible with the generation of high-quality data using FFPE tissue samples. Although FFPE is the most prevalent form of collecting and preserving clinical tissues, other formats such as snap freezing and perfusion solutions like RNAlater are becoming increasingly common due to their ability to preserve tissue without crosslinking. Thus, this collection will also include methods and technologies compatible with alternative non-FFPE preservation formats.

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Cited by 5

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2022

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