Signal translational efficiency between mRNA expression and antibody-based protein expression for breast cancer and its subtypes from cell lines to tissue

Aida Yazdanparast, Lang Li, Milan Radovich, Lijun Cheng

Research output: Contribution to journalEditorial

Abstract

Background: Although gene transcripts and protein expression have been utilised to classify breast cancer subtypes, it is not clear whether the observed measurement of gene transcript abundance can predict its protein expression. Herein, we attempt to address gene transcript/protein associations using publically-available data on breast cancer tumour tissues and cell lines. Method: Correlation analysis between mRNAs and Reverse-phase protein arrays (RPPA) among 421 primary breast tumours and 33 breast cancer cell lines was conducted. Highly concordant proteins/genes were further analysed in different breast cancer subtypes. Results: The overall accordance of mRNA/RPPA correlation between cell lines and primary tissue is R2 = 0.71. Since most of these genes are well known drug targets, highly concordant gene/RPPA associations not only confirm that these gene transcripts can serve as biomarkers for their protein products in drug target selection, but also imply that breast cancer cell lines can serve as good models for primary breast cancer tumours.

Original languageEnglish (US)
JournalInternational Journal of Computational Biology and Drug Design
Volume11
Issue number1-2
DOIs
StatePublished - Jan 1 2018

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Antibodies
Cells
Tissue
Breast Neoplasms
Genes
Proteins
Cell Line
Messenger RNA
Protein Array Analysis
Tumors
Correlation methods
Biomarkers
Tumor Cell Line
Pharmaceutical Preparations

Keywords

  • Breast cancer
  • Cell lines
  • mRNA
  • Protein abundance
  • Reverse-phase protein array

ASJC Scopus subject areas

  • Drug Discovery
  • Computer Science Applications

Cite this

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title = "Signal translational efficiency between mRNA expression and antibody-based protein expression for breast cancer and its subtypes from cell lines to tissue",
abstract = "Background: Although gene transcripts and protein expression have been utilised to classify breast cancer subtypes, it is not clear whether the observed measurement of gene transcript abundance can predict its protein expression. Herein, we attempt to address gene transcript/protein associations using publically-available data on breast cancer tumour tissues and cell lines. Method: Correlation analysis between mRNAs and Reverse-phase protein arrays (RPPA) among 421 primary breast tumours and 33 breast cancer cell lines was conducted. Highly concordant proteins/genes were further analysed in different breast cancer subtypes. Results: The overall accordance of mRNA/RPPA correlation between cell lines and primary tissue is R2 = 0.71. Since most of these genes are well known drug targets, highly concordant gene/RPPA associations not only confirm that these gene transcripts can serve as biomarkers for their protein products in drug target selection, but also imply that breast cancer cell lines can serve as good models for primary breast cancer tumours.",
keywords = "Breast cancer, Cell lines, mRNA, Protein abundance, Reverse-phase protein array",
author = "Aida Yazdanparast and Lang Li and Milan Radovich and Lijun Cheng",
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TY - JOUR

T1 - Signal translational efficiency between mRNA expression and antibody-based protein expression for breast cancer and its subtypes from cell lines to tissue

AU - Yazdanparast, Aida

AU - Li, Lang

AU - Radovich, Milan

AU - Cheng, Lijun

PY - 2018/1/1

Y1 - 2018/1/1

N2 - Background: Although gene transcripts and protein expression have been utilised to classify breast cancer subtypes, it is not clear whether the observed measurement of gene transcript abundance can predict its protein expression. Herein, we attempt to address gene transcript/protein associations using publically-available data on breast cancer tumour tissues and cell lines. Method: Correlation analysis between mRNAs and Reverse-phase protein arrays (RPPA) among 421 primary breast tumours and 33 breast cancer cell lines was conducted. Highly concordant proteins/genes were further analysed in different breast cancer subtypes. Results: The overall accordance of mRNA/RPPA correlation between cell lines and primary tissue is R2 = 0.71. Since most of these genes are well known drug targets, highly concordant gene/RPPA associations not only confirm that these gene transcripts can serve as biomarkers for their protein products in drug target selection, but also imply that breast cancer cell lines can serve as good models for primary breast cancer tumours.

AB - Background: Although gene transcripts and protein expression have been utilised to classify breast cancer subtypes, it is not clear whether the observed measurement of gene transcript abundance can predict its protein expression. Herein, we attempt to address gene transcript/protein associations using publically-available data on breast cancer tumour tissues and cell lines. Method: Correlation analysis between mRNAs and Reverse-phase protein arrays (RPPA) among 421 primary breast tumours and 33 breast cancer cell lines was conducted. Highly concordant proteins/genes were further analysed in different breast cancer subtypes. Results: The overall accordance of mRNA/RPPA correlation between cell lines and primary tissue is R2 = 0.71. Since most of these genes are well known drug targets, highly concordant gene/RPPA associations not only confirm that these gene transcripts can serve as biomarkers for their protein products in drug target selection, but also imply that breast cancer cell lines can serve as good models for primary breast cancer tumours.

KW - Breast cancer

KW - Cell lines

KW - mRNA

KW - Protein abundance

KW - Reverse-phase protein array

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