Effects of Ischemia on Gene Expression

Author(s): Huang J, Qi R, Quackenbush J, Dauway E, Lazaridis E, Yeatman T

Publication: J Surg Res, 2001, Vol. 99, Page 222

PubMed ID: 11469890 PubMed Review Paper? No

Purpose of Paper

Conclusion of Paper

Studies

1. Study Purpose

   To determine if RNA quality was affected by various periods of ischemia at room temperature (5 to 60 min) prior to snap freezing in liquid nitrogen.

   Summary of Findings:

   RNA quality, assessed by gel electrophoresis and visual examination of 28S and 18S ribosomal bands, was unaffected by ischemia periods of up to 60 min.

   Biospecimens

   • Tissue - Colorectal

   Preservative Types

   • Frozen

   Diagnoses:

   • Neoplastic - Carcinoma
   • Normal - Normal Adjacent

   Platform:

   Analyte	Technology Platform
   RNA	Electrophoresis

   Pre-analytical Factors:

   Classification	Pre-analytical Factor	Value(s)
   Biospecimen Acquisition	Cold ischemia time	5 min 10 min 15 min 20 min 40 min 60 min

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2. Study Purpose

   To determine the effects of varying durations of cold ischemia (5 to 60 min at room temperature post-excision) on mRNA expression as measured by microarray.

   Summary of Findings:

   Of the 2400 genes assessed by microarray, mRNA expression of 1420 genes (59%) were significantly affected in a time-dependent manner. Magnitude of ischemia-dependent changes in gene expression ranged from 0 to 20-fold. Further, the majority of genes exhibiting >2-fold changes in expression occurred after 20 min or more of cold ischemia time.

   Biospecimens

   • Tissue - Colorectal

   Preservative Types

   • Frozen

   Diagnoses:

   • Normal - Normal Adjacent

   Platform:

   Analyte	Technology Platform
   RNA	DNA microarray

   Pre-analytical Factors:

   Classification	Pre-analytical Factor	Value(s)
   Biospecimen Acquisition	Cold ischemia time	5 min 10 min 15 min 20 min 40 min 60 min

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3. Study Purpose

   To determine the effects of varying durations of cold ischemia (post-excision storage at room temperature) on GADPH mRNA expression as measured by Northern blot.

   Summary of Findings:

   Results of Northern blot analysis for GADPH did not yield significant alterations in mRNA expression levels as a function of ischemia duration.

   Biospecimens

   • Tissue - Colorectal

   Preservative Types

   • Frozen

   Diagnoses:

   • Neoplastic - Carcinoma

   Platform:

   Analyte	Technology Platform
   RNA	Northern blot

   Pre-analytical Factors:

   Classification	Pre-analytical Factor	Value(s)
   Biospecimen Acquisition	Cold ischemia time	5 min 10 min 15 min 20 min 40 min 60 min

   View more