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Series GSE87517 Query DataSets for GSE87517
Status Public on Jun 28, 2017
Title Immune escape in breast cancer during in situ to invasive carcinoma transition
Organism Homo sapiens
Experiment type Expression profiling by high throughput sequencing
Summary To dissect mechanisms of immune escape during breast tumor progression, we analyzed the composition of leukocytes in normal breast tissues, ductal carcinomas in situ (DCIS), and HER2+ and triple negative invasive ductal carcinomas (IDC). We found significant tissue and tumor subtype-specific differences in multiple cell types including T cells and neutrophils. Analysis of gene expression profiles of T cells demonstrated enrichment for activated GZMB+MKI67+CD8+ effector T cell signatures in DCIS. TCR clonotypes also showed highest diversity in DCIS. Naïve T cell signatures predominated IDCs, especially triple negative subtypes. TIGIT and PDL1 immune checkpoint proteins showed differential expression between DCIS and IDCs with amplification of CD274 (encoding PDL1) only detected in triple negative IDCs. Our results imply that DCIS progression is limited by an anti-tumor immune response that becomes muted in invasive tumors due to selection for cancer cells and microenvironment that suppress activated T cells or no longer trigger their activation.
Overall design RNA-Seq: Gene expression analyses in leukocytes sorted from normal breast tissues, ductal carcinomas in situ (DCIS), and HER2+ and triple negative invasive ductal carcinomas (IDC).
Contributor(s) Gil Del Alcazar CJ, Huh SR, Ekram MB, Trinh A, Polyak K
Citation(s) 28652380
Submission date Sep 30, 2016
Last update date May 15, 2019
Contact name Muhammad B Ekram
Organization name Dana-Farber Cancer Institute
Department Medical Oncology
Lab Kornelia Polyak Lab
Street address 450 Brookline Avenue, DA 740A
City Boston
State/province MA
ZIP/Postal code 02215
Country USA
Platforms (2)
GPL16791 Illumina HiSeq 2500 (Homo sapiens)
GPL18573 Illumina NextSeq 500 (Homo sapiens)
Samples (41)
GSM2332997 DCIS15
GSM2332998 DCIS17
GSM2332999 DCIS18
BioProject PRJNA345006
SRA SRP090689

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Supplementary file Size Download File type/resource
GSE87517_Huh_Gil-del-Alcazar_Leukocytes_RNA-Seq_counts.csv.gz 869.1 Kb (ftp)(http) CSV
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