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Related Experiment Video

Updated: May 10, 2026

Micro-dissection of Rat Brain for RNA or Protein Extraction from Specific Brain Region
05:31

Micro-dissection of Rat Brain for RNA or Protein Extraction from Specific Brain Region

Published on: August 30, 2007

Proteomic analysis of nuclei dissected from fixed rat brain tissue using expression microdissection.

A R Blackler1, N Y Morgan, B Gao

  • 1National Cancer Institute, NIH, Bethesda, Maryland 20892, United States.

Analytical Chemistry
|June 27, 2013
PubMed
Summary

Expression microdissection (xMD) technology with a new flashcube system enables rapid, precise isolation of nuclei from FFPE tissues. This method significantly enriches nuclear proteins for proteomic analysis, advancing molecular pathology studies.

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Non-Laser Capture Microscopy Approach for the Microdissection of Discrete Mouse Brain Regions for Total RNA Isolation and Downstream Next-Generation Sequencing and Gene Expression Profiling
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09:01

Metabolomic Analysis of Rat Brain by High Resolution Nuclear Magnetic Resonance Spectroscopy of Tissue Extracts

Published on: September 21, 2014

Area of Science:

  • Molecular Pathology
  • Proteomics
  • Cell Biology

Background:

  • Expression microdissection (xMD) is a high-throughput method for isolating specific cell populations from tissue sections.
  • Current xMD methods require precise operator control and can be time-consuming.
  • Efficient procurement and analysis of nuclear proteins from FFPE tissues remain a challenge.

Purpose of the Study:

  • To introduce a custom-designed flashcube system for rapid and reproducible nuclear microdissection.
  • To develop an efficient method for recovering and analyzing proteins captured by xMD.
  • To evaluate the efficacy of the flashcube-xMD system for proteomic analysis of nuclear components.

Main Methods:

  • Development of a custom flashcube system for light-induced microdissection.
  • Application of xMD to formaldehyde-fixed paraffin-embedded (FFPE) rat brain tissue sections.
  • Protein recovery from ethylene vinyl acetate (EVA) films and shotgun proteomic analysis.
  • Targeted mass spectrometry using multiple reaction monitoring (MRM).

Main Results:

  • The flashcube-xMD system achieved consistent and reproducible microdissection of nuclei in milliseconds.
  • Proteomic analysis showed significant enrichment of nuclear proteins (25% vs. 15% in controls, p < 0.001).
  • MRM analysis revealed a 3-fold enrichment of histones and depletion of cytoplasmic/mitochondrial proteins.

Conclusions:

  • The flashcube-xMD technology provides a rapid, operator-independent method for nuclear microdissection.
  • This technique enables efficient recovery and proteomic analysis of nuclear proteins from FFPE tissues.
  • Flashcube-xMD is a valuable tool for molecular pathology research and biomarker discovery.