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Comprehensive genomic analysis of CD4 T cell subtypes infiltrating human triple-negative breast cancer

ABSTRACT: Comprehensive genomic analysis of CD4 T cell subtypes infiltrating human triple-negative breast cancer

PROVIDER: PRJNA633781 | ENA |

REPOSITORIES: ENA

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Comprehensive genomic analysis of CD4 T cell subtypes infiltrating human triple-negative breast cancer

Project description:Triple-negative breast cancer is a typical molecular subtype of breast cancer that lacks the expression of estrogen receptor, progesterone receptor and human epidermal growth factor receptor 2 which is also well known for its aggressive and metastatic clinical characteristics. Currently, no specific targeted therapy is available for TNBC. CD4+ T cells are critical regulators of immune responses but their role in breast cancer is currently unknown. Therefore, we investigated the gene expression profile of tumor infiltrating CD4+ T cells and to predict their potential roles in modulating antitumor immune function. As a result, abundant Treg and exhausted lymphocytes were detected, accompanied by largely decreased of effector/memory and cytotoxic T cells.

2020-05-20 | GSE150814 | GEO

Comprehensive genomic analysis identify novel subtypes and targets of triple-negative breast cancer (67 not triple-negative tumors)

Project description:Recent meta-analyses suggest triple-negative breast cancer (TNBC) is a heterogenous disease. In this study we sought to define these TNBC subtypes and identify subtype-specific markers and targets. We identified and confirmed four distinct, stable TNBC subtypes: (1) Luminal-AR (LAR); 2) Mesenchymal (MES); 3) Basal-Like Immune-Suppressed (BLIS), and 4) Basal-Like Immune-Activated (BLIA).

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Comprehensive genomic analysis identify novel subtypes and targets of triple-negative breast cancer

Project description:Comprehensive genomic analysis identify novel subtypes and targets of triple-negative breast cancer

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Comprehensive genomic analysis identify novel subtypes and targets of triple-negative breast cancer (198 TNBC tumors)

2015-12-18 | E-GEOD-76124 | biostudies-arrayexpress

Comprehensive genomic analysis identify novel subtypes and targets of triple-negative breast cancer (198 TNBC tumors)

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Triple negative breast cancer subtypes and pathologic complete response rate to neoadjuvant chemotherapy

Project description:Triple negative breast cancer is a heterogeneous disease with distinct molecular subtypes that differentially respond to chemotherapy and targeted agents. The purpose of this study was to explore the clinical relevance of Lehmann triple negative breast cancer subtypes by identifying any differences in response to neoadjuvant chemotherapy among them.

2017-11-17 | GSE106977 | GEO

Comprehensive genomic and immunophenotypic analysis of CD4 T cell infiltrating human triple-negative breast cancer.

Project description:The aim of this study is to investigate the gene expression module of tumor-infiltrating CD4+T cells and its potential roles in modulating immune cell functions in triple-negative breast cancer. Differentially expressed genes were identified by comparison of the expression profile in CD4+T cells isolated from tumor tissues and peripheral blood of TNBC patients respectively. The differential expression analysis was conducted using R, and then the functional and pathway enrichment of the DEGs were analyzed using GSEA, followed by integrated regulatory network construction and genetic analysis of tumor-infiltrating immune cells based on a scientific deconvolution algorithm. As a result, abundant Treg and exhausted lymphocytes were detected, accompanied by largely decreased of effector/memory and cytotoxic T cells. Immune-related gene correlation analysis showed that the extent of follicular helper T cells gene expression signatures were inversely associated with those of CD4+ naive T cells and CD4+ memory resting T cells, but positively correlated with that of CD4+ memory activated T cells. In addition, we found five core genes including IFNG, CTLA4, FAS, CXCR6, and JUN were significantly over expressed in CD4+ TILs which may contribute to exhaustion of lymphocytes and participate in biological processes associated with regulation of chemotaxis. Study provides a comprehensive understanding of the roles of DEGs associated with the chemotactic and exhausted immunophenotypes of CD4+ TILs that are a valuable resource from which future investigation may be carried out to better understand the mechanisms that promote TNBC progression.

| S-EPMC8139937 | biostudies-literature

Triple Negative Breast Cancer RNA Sequencing

Project description:We propose to definitively characterise the somatic genetics of triple negative breast cancer through generation of comprehensive catalogues of somatic mutations in breast cancer cases by high coverage genome sequencing coupled with integrated transcriptomic and methylation analyses.

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Differential analysis of nucleolar proteomics in triple negative breast cancer

Project description:Breast cancer is one of the most common cancers in women. Of the different subtypes of breast cancer, the triple negative breast cancer subtype of breast cancer is the most aggressive. A proteomic screen of nucleolar content across breast cancer subtypes found that triple negative breast cancer cell lines have a distinct nucleolar proteome signature in comparison to non-TNBC breast cancer cell lines.

2021-03-05 | PXD021201 | Pride

Gene expression at single cell level of tumor-infiltrating cells from the tumor foci, draining lymph node and peripheral blood of triple-negative breast cancer

Project description:Tumor-infiltrating cells are considered as a homogeneous populations in the tumor microenvironment. We used single cell RNA sequencing (scRNA-seq) to analyze the diversity of tumor-infiltrating cells of the tumor foci, draining lymph node and peripheral blood from patients with triple-negative breast cancer who received chemotherapy.

2024-06-12 | GSE263995 | GEO

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