Progression-specific genes identified in microdissected formalin-fixed and paraffin-embedded tissue containing matched ductal carcinoma in situ and invasive ductal breast cancers

BMC Medical Genomics
Silke SchultzHans J Neubauer

Abstract

The transition from ductal carcinoma in situ (DCIS) to invasive breast carcinoma (IBC) is an important step during breast carcinogenesis. Understanding its molecular changes may help to identify high-risk DCIS that progress to IBC. Here, we describe a transcriptomic profiling analysis of matched formalin-fixed and paraffin-embedded (FFPE) DCIS and IBC components of individual breast tumours, containing both tumour compartments. The study was performed to validate progression-associated transcripts detected in an earlier gene profiling project using fresh frozen breast cancer tissue. In addition, FFPE tissues from patients with pure DCIS (pDCIS) were analysed to identify candidate transcripts characterizing DCIS with a high or low risk of progressing to IBC. Fifteen laser microdissected pairs of DCIS and IBC were profiled by Illumina DASL technology and used for expression validation by qPCR. Differential expression was independently validated using further 25 laser microdissected DCIS/IBC sample pairs. Additionally, laser microdissected epithelial cells from 31 pDCIS were investigated for expression of candidate transcripts using qPCR. Multiple statistical calculation methods revealed 1784 mRNAs which are differentially express...Continue Reading

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Citations

Feb 12, 2020·Bioscience Reports·Mingdi ZhangKejin Wu
May 18, 2021·FASEB Journal : Official Publication of the Federation of American Societies for Experimental Biology·Ziqiang LiuHaiyan Huang

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Datasets Mentioned

BETA
GSE72205

Methods Mentioned

BETA
Assay
PCR
chips

Software Mentioned

GOstats
Bioconductor
DASL
beadarray
RankProd
JMP®
Array
limma
Ingenuity®
Primer3

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