Meta-Analysis of Microdissected Breast Tumors Reveals Genes Regulated in the Stroma but Hidden in Bulk Analysis
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Title
Meta-Analysis of Microdissected Breast Tumors Reveals Genes Regulated in the Stroma but Hidden in Bulk Analysis
Authors
Keywords
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Journal
Cancers
Volume 13, Issue 13, Pages 3371
Publisher
MDPI AG
Online
2021-07-06
DOI
10.3390/cancers13133371
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Note: Only part of the references are listed.- Role of STAT3 signaling pathway in breast cancer
- (2020) Jia-hui Ma et al. Cell Communication and Signaling
- Transcriptional diversity and bioenergetic shift in human breast cancer metastasis revealed by single-cell RNA sequencing
- (2020) Ryan T. Davis et al. NATURE CELL BIOLOGY
- Spatial Density and Distribution of Tumor-Associated Macrophages Predict Survival in Non-Small-Cell Lung Carcinoma
- (2020) Xiang Zheng et al. CANCER RESEARCH
- Microdissection—An Essential Prerequisite for Spatial Cancer Omics
- (2020) Ferdinand Eggeling et al. PROTEOMICS
- Upregulation of lipid metabolism genes in the breast prior to cancer diagnosis
- (2020) Natascia Marino et al. npj Breast Cancer
- Differential Co-Expression Analyses Allow the Identification of Critical Signalling Pathways Altered during Tumour Transformation and Progression
- (2020) Aurora Savino et al. INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
- SP1 and STAT3 Functionally Synergize to Induce the RhoU Small GTPase and a Subclass of Non-canonical WNT Responsive Genes Correlating with Poor Prognosis in Breast Cancer
- (2019) Emanuele Monteleone et al. Cancers
- An Integrative Data Mining and Omics-Based Translational Model for the Identification and Validation of Oncogenic Biomarkers of Pancreatic Cancer
- (2019) Nguyen Phuoc Long et al. Cancers
- Spatially distinct tumor immune microenvironments stratify triple-negative breast cancers
- (2019) Tina Gruosso et al. JOURNAL OF CLINICAL INVESTIGATION
- Immunophenotypes of pancreatic ductal adenocarcinoma: Meta‐analysis of transcriptional subtypes
- (2019) Ines Santiago et al. INTERNATIONAL JOURNAL OF CANCER
- Recent advances in understanding tumor stroma-mediated chemoresistance in breast cancer
- (2019) Jana Plava et al. Molecular Cancer
- Prognostic implications of PD-L1 expression in breast cancer: systematic review and meta-analysis of immunohistochemistry and pooled analysis of transcriptomic data
- (2019) Alexios Matikas et al. CLINICAL CANCER RESEARCH
- Clinical correlation of opposing molecular signatures in head and neck squamous cell carcinoma
- (2019) Fatima Qadir et al. BMC CANCER
- NLRP3 inflammasome in fibroblasts links tissue damage with inflammation in breast cancer progression and metastasis
- (2019) Nour Ershaid et al. Nature Communications
- The Impact of Stroma Admixture on Molecular Subtypes and Prognostic Gene Signatures in Serous Ovarian Cancer
- (2019) Matthew Schwede et al. CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION
- Immune cells within the tumor microenvironment: Biological functions and roles in cancer immunotherapy
- (2019) Xu Lei et al. CANCER LETTERS
- Distribution of M1 and M2 macrophages in tumor islets and stroma in relation to prognosis of non-small cell lung cancer
- (2018) Jurgita Jackute et al. BMC IMMUNOLOGY
- Oxidative Phosphorylation as an Emerging Target in Cancer Therapy
- (2018) Thomas M. Ashton et al. CLINICAL CANCER RESEARCH
- Breast cancer metabolic cross-talk: Fibroblasts are hubs and breast cancer cells are gatherers of lipids
- (2018) Filipa Lopes-Coelho et al. MOLECULAR AND CELLULAR ENDOCRINOLOGY
- Molecular Subtypes of Urothelial Bladder Cancer: Results from a Meta-cohort Analysis of 2411 Tumors
- (2018) Tuan Zea Tan et al. EUROPEAN UROLOGY
- Prognostic value of gastric cancer-associated gene signatures: Evidence based on a meta-analysis using integrated bioinformatics methods
- (2018) Jun Wang et al. JOURNAL OF CELLULAR AND MOLECULAR MEDICINE
- A genomic ruler to assess oncogenic transition between breast tumor and stroma
- (2018) Shubhada Dhage et al. PLoS One
- Dynamic matrisome: ECM remodeling factors licensing cancer progression and metastasis
- (2018) Arseniy E. Yuzhalin et al. BIOCHIMICA ET BIOPHYSICA ACTA-REVIEWS ON CANCER
- Upregulated miR‑203a‑3p and its potential molecular mechanism in breast cancer: A study based on bioinformatics analyses and a comprehensive meta‑analysis
- (2018) Kai‑Teng Cai et al. Molecular Medicine Reports
- ArrayExpress update – from bulk to single-cell expression data
- (2018) Awais Athar et al. NUCLEIC ACIDS RESEARCH
- Spatially and functionally distinct subclasses of breast cancer-associated fibroblasts revealed by single cell RNA sequencing
- (2018) Michael Bartoschek et al. Nature Communications
- Mapping genomic and transcriptomic alterations spatially in epithelial cells adjacent to human breast carcinoma
- (2017) Moustafa Abdalla et al. Nature Communications
- Single-cell RNA-seq enables comprehensive tumour and immune cell profiling in primary breast cancer
- (2017) Woosung Chung et al. Nature Communications
- Expression of the chemokine CXCL14 in the tumour stroma is an independent marker of survival in breast cancer
- (2016) Elin Sjöberg et al. BRITISH JOURNAL OF CANCER
- The Prognostic Role of Androgen Receptor in Patients with Early-Stage Breast Cancer: A Meta-analysis of Clinical and Gene Expression Data
- (2016) Ivana Bozovic-Spasojevic et al. CLINICAL CANCER RESEARCH
- NECAP2 controls clathrin coat recruitment to early endosomes for fast endocytic recycling
- (2016) John P. Chamberland et al. JOURNAL OF CELL SCIENCE
- The assessment of HER2 status in breast cancer: the past, the present, and the future
- (2016) Hiroaki Nitta et al. PATHOLOGY INTERNATIONAL
- Visualization and analysis of gene expression in tissue sections by spatial transcriptomics
- (2016) P. L. Stahl et al. SCIENCE
- Refinement of Triple-Negative Breast Cancer Molecular Subtypes: Implications for Neoadjuvant Chemotherapy Selection
- (2016) Brian D. Lehmann et al. PLoS One
- A functional in vitro model of heterotypic interactions reveals a role for interferon-positive carcinoma associated fibroblasts in breast cancer
- (2015) Abdel Nasser Hosein et al. BMC CANCER
- Constitutive phosphorylated STAT3-associated gene signature is predictive for trastuzumab resistance in primary HER2-positive breast cancer
- (2015) Amir Sonnenblick et al. BMC Medicine
- Comparative study of joint analysis of microarray gene expression data in survival prediction and risk assessment of breast cancer patients
- (2015) Haleh Yasrebi BRIEFINGS IN BIOINFORMATICS
- The European Genome-phenome Archive of human data consented for biomedical research
- (2015) Ilkka Lappalainen et al. NATURE GENETICS
- limma powers differential expression analyses for RNA-sequencing and microarray studies
- (2015) Matthew E. Ritchie et al. NUCLEIC ACIDS RESEARCH
- TCGAbiolinks: an R/Bioconductor package for integrative analysis of TCGA data
- (2015) Antonio Colaprico et al. NUCLEIC ACIDS RESEARCH
- Identification of novel therapeutic target genes in acquired lapatinib-resistant breast cancer by integrative meta-analysis
- (2015) Young Seok Lee et al. TUMOR BIOLOGY
- Systematic pan-cancer analysis of tumour purity
- (2015) Dvir Aran et al. Nature Communications
- Extensive rewiring of epithelial-stromal co-expression networks in breast cancer
- (2015) Eun-Yeong Oh et al. GENOME BIOLOGY
- MyeloidSTAT3promotes formation of colitis-associated colorectal cancer in mice
- (2015) Paulina Pathria et al. OncoImmunology
- The Molecular Signatures Database Hallmark Gene Set Collection
- (2015) Arthur Liberzon et al. Cell Systems
- Dihydropyrimidine Accumulation Is Required for the Epithelial-Mesenchymal Transition
- (2014) Yoav D. Shaul et al. CELL
- Remodeling of the Methylation Landscape in Breast Cancer Metastasis
- (2014) Marsha Reyngold et al. PLoS One
- Bioinformatic analysis reveals a pattern of STAT3-associated gene expression specific to basal-like breast cancers in human tumors
- (2014) R. W. Tell et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Meta-analysis methods for combining multiple expression profiles: comparisons, statistical characterization and an application guideline
- (2013) Lun-Ching Chang et al. BMC BIOINFORMATICS
- GSVA: gene set variation analysis for microarray and RNA-Seq data
- (2013) Sonja Hänzelmann et al. BMC BIOINFORMATICS
- Genomic and expression analysis of microdissected inflammatory breast cancer
- (2013) Wendy A. Woodward et al. BREAST CANCER RESEARCH AND TREATMENT
- Influence of tumour micro-environment heterogeneity on therapeutic response
- (2013) Melissa R. Junttila et al. NATURE
- Mechanotransduction and YAP-dependent matrix remodelling is required for the generation and maintenance of cancer-associated fibroblasts
- (2013) Fernando Calvo et al. NATURE CELL BIOLOGY
- Inferring tumour purity and stromal and immune cell admixture from expression data
- (2013) Kosuke Yoshihara et al. Nature Communications
- Genomic Signatures of Pregnancy-Associated Breast Cancer Epithelia and Stroma and their Regulation by Estrogens and Progesterone
- (2013) Djuana M. E. Harvell et al. Hormones & Cancer
- The presence of tumor associated macrophages in tumor stroma as a prognostic marker for breast cancer patients
- (2012) Catharina Medrek et al. BMC CANCER
- Human breast cancer associated fibroblasts exhibit subtype specific gene expression profiles
- (2012) Julia Tchou et al. BMC Medical Genomics
- Gene expression profiling of tumour epithelial and stromal compartments during breast cancer progression
- (2012) Ana Cristina Vargas et al. BREAST CANCER RESEARCH AND TREATMENT
- Differentially Expressed Genes Regulating the Progression of Ductal Carcinoma In Situ to Invasive Breast Cancer
- (2012) S. Lee et al. CANCER RESEARCH
- Molecular features of triple negative breast cancer cells by genome-wide gene expression profiling analysis
- (2012) MASATO KOMATSU et al. INTERNATIONAL JOURNAL OF ONCOLOGY
- A Three-Gene Model to Robustly Identify Breast Cancer Molecular Subtypes
- (2012) Benjamin Haibe-Kains et al. JNCI-Journal of the National Cancer Institute
- Comprehensive molecular portraits of human breast tumours
- (2012) Daniel C. Koboldt et al. NATURE
- Reuse of public genome-wide gene expression data
- (2012) Johan Rung et al. NATURE REVIEWS GENETICS
- NCBI GEO: archive for functional genomics data sets—update
- (2012) Tanya Barrett et al. NUCLEIC ACIDS RESEARCH
- clusterProfiler: an R Package for Comparing Biological Themes Among Gene Clusters
- (2012) Guangchuang Yu et al. OMICS-A JOURNAL OF INTEGRATIVE BIOLOGY
- Gene Expression Analysis in Human Breast Cancer Associated Blood Vessels
- (2012) Dylan T. Jones et al. PLoS One
- Progression of ductal carcinoma in situ to invasive breast cancer is associated with gene expression programs of EMT and myoepithelia
- (2011) Erik S. Knudsen et al. BREAST CANCER RESEARCH AND TREATMENT
- Hallmarks of Cancer: The Next Generation
- (2011) Douglas Hanahan et al. CELL
- Identification of human triple-negative breast cancer subtypes and preclinical models for selection of targeted therapies
- (2011) Brian D. Lehmann et al. JOURNAL OF CLINICAL INVESTIGATION
- Identification of Prognostic Molecular Features in the Reactive Stroma of Human Breast and Prostate Cancer
- (2011) Anne Planche et al. PLoS One
- Gene expression in histologically normal epithelium from breast cancer patients and from cancer-free prophylactic mastectomy patients shares a similar profile
- (2010) K Graham et al. BRITISH JOURNAL OF CANCER
- β-catenin-independent WNT signaling in basal-like breast cancer and brain metastasis
- (2010) F. Klemm et al. CARCINOGENESIS
- Gene Expression Profiles of Estrogen Receptor-Positive and Estrogen Receptor-Negative Breast Cancers Are Detectable in Histologically Normal Breast Epithelium
- (2010) K. Graham et al. CLINICAL CANCER RESEARCH
- Identification of Markers of Taxane Sensitivity Using Proteomic and Genomic Analyses of Breast Tumors from Patients Receiving Neoadjuvant Paclitaxel and Radiation
- (2010) J. A. Bauer et al. CLINICAL CANCER RESEARCH
- Molecular Anatomy of Breast Cancer Stroma and Its Prognostic Value in Estrogen Receptor–Positive and –Negative Cancers
- (2010) Giampaolo Bianchini et al. JOURNAL OF CLINICAL ONCOLOGY
- Heterogeneity of gene expression in stromal fibroblasts of human breast carcinomas and normal breast
- (2010) M Bauer et al. ONCOGENE
- Early Dysregulation of Cell Adhesion and Extracellular Matrix Pathways in Breast Cancer Progression
- (2009) Lyndsey A. Emery et al. AMERICAN JOURNAL OF PATHOLOGY
- Proliferative genes dominate malignancy-risk gene signature in histologically-normal breast tissue
- (2009) Dung-Tsa Chen et al. BREAST CANCER RESEARCH AND TREATMENT
- Angiogenesis and lymphangiogenesis are downregulated in primary breast cancer
- (2009) E-M Boneberg et al. BRITISH JOURNAL OF CANCER
- Mapping identifiers for the integration of genomic datasets with the R/Bioconductor package biomaRt
- (2009) Steffen Durinck et al. Nature Protocols
- Merging microarray data from separate breast cancer studies provides a robust prognostic test
- (2008) Lei Xu et al. BMC BIOINFORMATICS
- Pathway analysis reveals functional convergence of gene expression profiles in breast cancer
- (2008) Ronglai Shen et al. BMC Medical Genomics
- Molecular signatures suggest a major role for stromal cells in development of invasive breast cancer
- (2008) Theresa Casey et al. BREAST CANCER RESEARCH AND TREATMENT
- Full-term Pregnancy Induces a Specific Genomic Signature in the Human Breast
- (2008) J. Russo et al. CANCER EPIDEMIOLOGY BIOMARKERS & PREVENTION
- Gene expression–based survival prediction in lung adenocarcinoma: a multi-site, blinded validation study
- (2008) Kerby Shedden et al. NATURE MEDICINE
- Key Issues in Conducting a Meta-Analysis of Gene Expression Microarray Datasets
- (2008) Adaikalavan Ramasamy et al. PLOS MEDICINE
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