Genomic DNA Isolation and Array CGH Analysis

Isolation of genomic DNA and array CGH analysis were performed as described in [55 (link)] using 4 × 44K whole genome oligonucleotide-based arrays (Agilent, Canada). Labeling and hybridization procedures were performed according to the instructions provided by Agilent using the SureTag DNA Labeling Kit. Slides were scanned with a G2505B Micro Array Scanner (Agilent). Feature Extraction and data analysis were carried out using the Feature Extraction and Agilent Genomic Workbench software, respectively.

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Spitzwieser M., Pirker C., Koblmüller B., Pfeiler G., Hacker S., Berger W., Heffeter P, & Cichna-Markl M. (2016). Promoter methylation patterns of ABCB1, ABCC1 and ABCG2 in human cancer cell lines, multidrug-resistant cell models and tumor, tumor-adjacent and tumor-distant tissues from breast cancer patients. Oncotarget, 7(45), 73347-73369.

Publication 2016

SureTag DNA Labeling Kit G2505B Micro Array Scanner Feature Extraction Agilent Genomic Workbench software

Genomic Hybridization Isolation Oligonucleotide arrays

Corresponding Organization :

Other organizations : University of Vienna, Comprehensive Cancer Center Vienna, Medical University of Vienna

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Variable analysis

independent variables

Isolation of genomic DNA and array CGH analysis

dependent variables

Measured outcomes

control variables

4 × 44K whole genome oligonucleotide-based arrays (Agilent, Canada)
Labeling and hybridization procedures according to the instructions provided by Agilent using the SureTag DNA Labeling Kit
Slides scanned with a G2505B Micro Array Scanner (Agilent)
Feature extraction and data analysis carried out using the Feature Extraction and Agilent Genomic Workbench software

controls

Positive controls not explicitly mentioned
Negative controls not explicitly mentioned

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