Comparison of gene expression profiles in laser-microdissected, nonembedded, and OCT-embedded tumor samples by oligonucleotide microarray analysis.
Author(s): Sanchez-Carbayo M, Saint F, Lozano JJ, Viale A, Cordon-Cardo C
Publication: Clin Chem, 2003, Vol. 49, Page 2096-100
PubMed ID: 14633888 PubMed Review Paper? No
Purpose of Paper
Conclusion of Paper
Studies
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Study Purpose
The purpose of this study was to compare gene expression profiles for RNA isolated from case-matched OCT-embedded laser-capture microdissected, OCT-embedded manually microdissected, and non-microdissected, non-embedded frozen tissue. The tissues employed were bladder carcinoma and breast carcinoma.
Summary of Findings:
Gene expression profiles as determined by microarray were dependent upon RNA quality, and not directly associated with the method of cell capture. Gene expression profiles among OCT-embedded manually-dissected specimens and fresh frozen specimens were comparable with only one gene (DNA topoisomerase I) commonly and differentially expressed. In samples with high quality RNA, variations among laser-capture microdissected specimens and fresh frozen specimens were minimal. The authors emphasize the importance of RNA quality assessment prior to hybridization to avoid misinterpretation of microarray results.
Biospecimens
Preservative Types
- OCT
- Frozen
Diagnoses:
- Neoplastic - Carcinoma
Platform:
Analyte Technology Platform RNA DNA microarray RNA Spectrophotometry RNA Automated electrophoresis/Bioanalyzer Pre-analytical Factors:
Classification Pre-analytical Factor Value(s) Biospecimen Aliquots and Components Cell capture method Laser capture microdissection
Manual microdissection
Non-microdissected specimens
Automated electrophoresis/Bioanalyzer Specific Quality metrics Absorbance ratios
Bioanalyzer gel analysis
Test array hybridization
Biospecimen Preservation Type of fixation/preservation OCT
Snap frozen