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LCM Assisted Biomarker Discovery from Archival Neoplastic Gastrointestinal Tissues

  • Patricia A. MeitnerEmail author
  • Murray B. Resnick
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 755)

Abstract

Expression array analysis of epithelial mRNA to identify biomarkers of premalignant and malignant conditions in the gastrointestinal (GI) tract is an area of intense study. Archived formalin-fixed paraffin-embedded (FFPE) tissues documenting these changes are readily available and should be a valuable resource for retrospective analysis. Laser capture microdissection of defined areas of epithelial cells at different stages of neoplastic progression is described together with methods for prequalification of RNA in FFPE tissue blocks selected for analysis. Paradise reagents specifically designed for isolation and amplification of RNA from FFPE archival tissue specimens are used to prepare probes for the human X3P microarray from Affymetrix.

Key words

Laser capture microdissection Formalin fixed paraffin embedded Neoplasia Gastrointestinal epithelium RNA Gene expression DNA microarray Real-time PCR 

Notes

Acknowledgments

This work was supported by NIH grant P20RR17695, awarded by the National Center for Research Resources, Institutional Development Award Program. The content is solely the responsibility of the authors and does not necessarily represent the official views of the National Center For Research Resources or the National Institutes of Health.

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Copyright information

© Springer Science+Business Media, LLC 2011

Authors and Affiliations

  1. 1.COBRE Center for Cancer Research DevelopmentRhode Island HospitalProvidenceUSA
  2. 2.Department of Pathology, Rhode Island and The Miriam Hospital, Alpert Medical SchoolBrown UniversityProvidenceUSA

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