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Series GSE88847 Query DataSets for GSE88847
Status Public on Feb 22, 2019
Title Gene expression profiles of TN breast tumors
Organism Homo sapiens
Experiment type Expression profiling by array
Summary Engaging the immune system promises to be key for optimal cancer therapy, especially in hard-to-treat disease such as triple-negative breast cancer (TNBC). However, the immune microenvironment remains poorly understood. Using gene expression based on laser capture microdissection, we identify three distinct tumor microenvironments associated with CD8+ T cell localization patterns and outcome in TNBC. An immunoreactive microenvironment is defined by granzyme B-positive CD8+ T cell infiltration, a type I interferon signature, tumor expression of PD-L1 and good outcome. In contrast, tumors with an immune-cold microenvironment display restriction of CD8+ T cells to tumor margins, elevated tumor expression of the immunosuppressive marker B7-H4, a signature of desmoplastic stroma and poor outcome. A third distinct immunomodulatory microenvironment associated with poor outcome is enriched for IL-17-producing cells and neutrophils, as well as stroma-restricted localisation of CD8+ T cells. These distinct immune microenvironments have implications for TNBC patient stratification for current and future therapies.
Overall design 37 patient samples; each subjected to gene expression profiling using Affymetrix Human Gene 1.0 ST Array
Contributor(s) Park M
Citation(s) 30753167
Submission date Oct 17, 2016
Last update date Feb 22, 2019
Contact name Benjamin Haibe-Kains
Phone +14165818626
Organization name Princess Margaret Cancer Centre
Department Princess Margaret Research
Lab Bioinformatics and Computational Genomics
Street address 610 University Avenue
City Toronto
State/province Ontario
ZIP/Postal code M5G 2M9
Country Canada
Platforms (1)
GPL20171 [HuGene-1_0-st] Affymetrix Human Gene 1.0 ST Array [hugene10st_Hs_ENTREZG_19.0.0]
Samples (37)
GSM2350029 TN1032
GSM2350030 TN1005
GSM2350031 TN1035
BioProject PRJNA348766

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Supplementary file Size Download File type/resource
GSE88847_RAW.tar 179.1 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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