Comparison of gene expression profiles in core biopsies and corresponding surgical breast cancer samples.

Author(s): Zanetti-Dällenbach R, Vuaroqueaux V, Wight E, Labuhn M, Singer G, Urban P, Eppenberger U, Holzgreve W, Eppenberger-Castori S

Publication: Breast Cancer Res, 2006, Vol. 8, Page R51

PubMed ID: 16919157 PubMed Review Paper? No

Purpose of Paper

Conclusion of Paper

Studies

1. Study Purpose

   The purpose of this study was to determine the effects of biospecimen collection method, prior collection of a CNB, and time between collection of CNB and ST on gene expression profiles in breast carcinoma specimens. Surgical specimens were cryopreserved within 5 minutes and matched core needle biopsies were placed in RNAlater within 1 minute.

   Summary of Findings:

   Gene expression profiles separated patients based on the estrogen receptor status of the tumor. Generally hierarchical clustering properly clustered CNB with the matched ST specimens, but this was not true for 4 of the 22 patients. The time between collection of the CNB and ST specimens had no effect on the gene expression pattern or expression of specific genes. Of the 60 genes analyzed, most were expressed similarly in CNB and ST specimens, but expression of PAI-1, COX-2, uPAR, and MMP1 was higher in ST than in CNB specimens(p<0.001, p<0.001, p=0.03, and p=0.03, respectively). In 317 ST specimens from patients that did not have a prior CNB, expression of PAI-1 and COX-2 was similar to that found in CNB and lower than that found in surgical specimens obtained after a CNB had been acquired.

   Biospecimens

   • Tissue - Breast

   Preservative Types

   • RNAlater
   • Frozen

   Diagnoses:

   • Neoplastic - Carcinoma

   Platform:

   Analyte	Technology Platform
   RNA	Real-time qRT-PCR

   Pre-analytical Factors:

   Classification	Pre-analytical Factor	Value(s)
   Biospecimen Acquisition	Time of biospecimen collection	1 day after CNB 2 days after CNB 3 days after CNB 5 days after CNB 7 days after CNB 8 days after CNB 10 days after CNB 11 days after CNB 12 days after CNB 13 days after CNB 14 days after CNB 16 days after CNB 20 days after CNB 21 days after CNB 22 days after CNB
   Biospecimen Preservation	Type of fixation/preservation	Snap frozen RNAlater
   Preaquisition	Surgical procedure type	Previous core needle biopsy taken No previous core needle biopsy taken
   Biospecimen Acquisition	Method of tissue acquisition	Core needle biopsy Surgical resection

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