Basal-like Breast Cancer Genomic Analysis

The Cancer Genome Atlas (TCGA) data portal was used to download breast cancer data [14 (link)]. A total of 84 cases of basal-like breast cancer were analyzed. We downloaded level-3 gene expression data derived from an Agilent custom 244K whole genome microarray and somatic mutation data from an Illumina Genomic Analyzer (San Diego, CA). The gene expression level was median-centered by gene.

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Lee M., Song I.H., Heo S.H., Kim Y.A., Park I.A., Bang W.S., Park H.S., Gong G, & Lee H.J. (2018). Expression of Immunoproteasome Subunit LMP7 in Breast Cancer and Its Association with Immune-Related Markers. Cancer Research and Treatment : Official Journal of Korean Cancer Association, 51(1), 80-89.

Publication 2018

custom 244K whole genome microarray Genomic Analyzer

Cancer Cancer of breast Gene expression Genome Genomic mutation Microarray Somatic

Corresponding Organization :

Other organizations : University of Ulsan, Asan Medical Center, Ulsan College

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Variable analysis

independent variables

None explicitly mentioned

dependent variables

Gene expression level
Somatic mutations

control variables

Median-centered gene expression data

controls

Positive controls not mentioned
Negative controls not mentioned

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