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List of works by Charles M. Perou

A 50-gene intrinsic subtype classifier for prognosis and prediction of benefit from adjuvant tamoxifen

scientific article published on 18 June 2012

A Comparison of Gene Expression Signatures from Breast Tumors and Breast Tissue Derived Cell Lines ⬇️

scientific article published on January 1, 2001

A PAM50-Based Chemoendocrine Score for Hormone Receptor-Positive Breast Cancer with an Intermediate Risk of Relapse.

scientific article published on 30 November 2016

A Phase I Trial of the PI3K Inhibitor Buparlisib Combined With Capecitabine in Patients With Metastatic Breast Cancer

scientific article

A common variant at the TERT-CLPTM1L locus is associated with estrogen receptor-negative breast cancer

scientific article published on 30 October 2011

A compact VEGF signature associated with distant metastases and poor outcomes

scientific article

A comparison of PAM50 intrinsic subtyping with immunohistochemistry and clinical prognostic factors in tamoxifen-treated estrogen receptor-positive breast cancer

scientific article

A core MYC gene expression signature is prominent in basal-like breast cancer but only partially overlaps the core serum response

scientific article

A custom microarray platform for analysis of microRNA gene expression

scientific article

A framework for transcriptome-wide association studies in breast cancer in diverse study populations

scientific article published on 20 February 2020

A genome-wide screen for promoter methylation in lung cancer identifies novel methylation markers for multiple malignancies

scientific article

A high capacity polymeric micelle of paclitaxel: Implication of high dose drug therapy to safety and in vivo anti-cancer activity

scientific article published on 4 June 2016

A model of breast cancer heterogeneity reveals vascular mimicry as a driver of metastasis

scientific article

A mouse model featuring tissue-specific deletion of p53 and Brca1 gives rise to mammary tumors with genomic and transcriptomic similarities to human basal-like breast cancer.

scientific article published on 27 November 2018

A multivariable prognostic score to guide systemic therapy in early-stage HER2-positive breast cancer: a retrospective study with an external evaluation

scientific article published on 01 November 2020

A murine preclinical syngeneic transplantation model for breast cancer precision medicine.

scientific article

A novel lung metastasis signature links Wnt signaling with cancer cell self-renewal and epithelial-mesenchymal transition in basal-like breast cancer

scientific article

A pan-cancer analysis of the frequency of DNA alterations across cell cycle activity levels

scientific article published on 24 June 2020

A phase II study of sequential neoadjuvant gemcitabine plus doxorubicin followed by gemcitabine plus cisplatin in patients with operable breast cancer: prediction of response using molecular profiling

scientific article published on April 2008

A renewable tissue resource of phenotypically stable, biologically and ethnically diverse, patient-derived human breast cancer xenograft models

scientific article published on 04 June 2013

A retroviral vector for siRNA expression in mammalian cells

scientific article

A single-cell and spatially resolved atlas of human breast cancers

scientific article published on 06 September 2021

A six-gene signature predicts survival of patients with localized pancreatic ductal adenocarcinoma

scientific article

A survey of immunohistochemical biomarkers for basal-like breast cancer against a gene expression profile gold standard

scientific article published on 24 May 2013

ABRA: improved coding indel detection via assembly-based realignment

scientific article

Abstract 4875: Human HER2 and PI3K H1047R cooperate to promote mammary tumorigenesis in vivo

Abstract 970: Mass spectrometry analysis of PIK3CA mutant mammary epithelial cells identifies EGFR as a paracrine effector of PI3K in basal-like breast cancer

Abstract A007: Mutant PIK3CA accelerates HER2-driven transgenic mammary tumor progression, enhances cancer stem cell features, and induces resistance to combinations of anti-HER2 therapies

Abstract PD6-9: Molecular signatures of DCIS to invasive progression for basal-like breast cancers: An integrated mouse model and human tumor study

scientific article published in 2020

Activating PIK3CA Mutations Induce an Epidermal Growth Factor Receptor (EGFR)/Extracellular Signal-regulated Kinase (ERK) Paracrine Signaling Axis in Basal-like Breast Cancer

scientific article in 2015

Activation of host wound responses in breast cancer microenvironment

scientific article

Adjustment of systematic microarray data biases

scientific article

Age-specific changes in intrinsic breast cancer subtypes: a focus on older women

scientific article

Agreement in breast cancer classification between microarray and quantitative reverse transcription PCR from fresh-frozen and formalin-fixed, paraffin-embedded tissues

scientific article

Allele-specific copy number analysis of tumors

scientific article

AlphaB-crystallin is a novel oncoprotein that predicts poor clinical outcome in breast cancer

scientific article

Alterations in Wnt- and/or STAT3 signaling pathways and the immune microenvironment during metastatic progression

scientific article published on 09 July 2019

Amplification of SOX4 promotes PI3K/Akt signaling in human breast cancer

scientific article

An Analysis of the Sensitivity of Proteogenomic Mapping of Somatic Mutations and Novel Splicing Events in Cancer.

scientific article

An integrated genomics approach identifies drivers of proliferation in luminal-subtype human breast cancer

scientific article

An integration of complementary strategies for gene-expression analysis to reveal novel therapeutic opportunities for breast cancer.

scientific article published on 28 July 2009

Antagonism of EGFR and HER3 enhances the response to inhibitors of the PI3K-Akt pathway in triple-negative breast cancer

scientific article

Asparagine bioavailability governs metastasis in a model of breast cancer

scientific article published on 7 February 2018

Assembly-based inference of B-cell receptor repertoires from short read RNA sequencing data with V'DJer

scientific article

Assessment of Topoisomerase II α status in breast cancer by quantitative PCR, gene expression microarrays, immunohistochemistry, and fluorescence in situ hybridization

scientific article

Assignment of tumor subtype by genomic testing and pathologic-based approximations: implications on patient's management and therapy selection.

scientific article published on 2 August 2013

Association between breast cancer subtypes and response to neoadjuvant anastrozole

scientific article published on 5 April 2011

Associations of obesity and circulating insulin and glucose with breast cancer risk: a Mendelian randomization analysis

article by Xiang Shu et al published 1 October 2018 in International Journal of Epidemiology

B Cells and T Follicular Helper Cells Mediate Response to Checkpoint Inhibitors in High Mutation Burden Mouse Models of Breast Cancer

scientific article published on 01 November 2019

BRCA1 suppresses epithelial-to-mesenchymal transition and stem cell dedifferentiation during mammary and tumor development.

scientific article published on 19 September 2014

Basal-like Breast cancer DNA copy number losses identify genes involved in genomic instability, response to therapy, and patient survival

scientific article

Basal-like breast cancer defined by five biomarkers has superior prognostic value than triple-negative phenotype

scientific article

Bimodal age distribution at diagnosis in breast cancer persists across molecular and genomic classifications

scientific article published on 18 September 2019

BlackOPs: increasing confidence in variant detection through mappability filtering

scientific article published on 08 August 2013

Body Mass Index, PAM50 Subtype, and Outcomes in Node-Positive Breast Cancer: CALGB 9741 (Alliance).

scientific article

Borderline estrogen receptor-positive breast cancers in black and white women

scientific article published on 19 November 2019

BreakTrans: uncovering the genomic architecture of gene fusions

scientific article

Breast cancer PAM50 signature: correlation and concordance between RNA-Seq and digital multiplexed gene expression technologies in a triple negative breast cancer series.

scientific article

Breast cancer molecular subtypes respond differently to preoperative chemotherapy

scientific article published on August 2005

Breast cancer subtypes and response to docetaxel in node-positive breast cancer: use of an immunohistochemical definition in the BCIRG 001 trial.

scientific article published on 09 February 2009

Breast carcinomas arising at a young age: unique biology or a surrogate for aggressive intrinsic subtypes?

scientific article published on 29 November 2010

Building prognostic models for breast cancer patients using clinical variables and hundreds of gene expression signatures.

scientific article

CCR 20th Anniversary Commentary: The Development of Breast Cancer Molecular Subtyping

scientific article published on April 2015

CDK inhibitor p18(INK4c) is a downstream target of GATA3 and restrains mammary luminal progenitor cell proliferation and tumorigenesis

scientific article published on May 2009

CIB1 depletion impairs cell survival and tumor growth in triple-negative breast cancer.

scientific article published on 24 June 2015

Carboplatin in BRCA1/2-mutated and triple-negative breast cancer BRCAness subgroups: the TNT Trial

scientific article published on 30 April 2018

Cdh1 and Pik3ca Mutations Cooperate to Induce Immune-Related Invasive Lobular Carcinoma of the Breast

scientific article published on 01 October 2018

Cell-state transitions regulated by SLUG are critical for tissue regeneration and tumor initiation

scientific article

Cell-type-specific responses to chemotherapeutics in breast cancer

scientific article published on June 2004

Characterization of a naturally occurring breast cancer subset enriched in epithelial-to-mesenchymal transition and stem cell characteristics

scientific article (publication date: 15 May 2009)

Characterization of cell lines derived from breast cancers and normal mammary tissues for the study of the intrinsic molecular subtypes.

scientific article published on 27 October 2013

Characterization of mammary tumors from Brg1 heterozygous mice.

scientific article published on 16 July 2007

Chemotherapy benefit for 'ER-positive' breast cancer and contamination of nonluminal subtypes—waiting for TAILORx and RxPONDER.

scientific article published on 29 October 2014

Chemotherapy response and recurrence-free survival in neoadjuvant breast cancer depends on biomarker profiles: results from the I-SPY 1 TRIAL (CALGB 150007/150012; ACRIN 6657).

scientific article published on 25 December 2011

Classification and risk stratification of invasive breast carcinomas using a real-time quantitative RT-PCR assay

scientific article

Clinical implementation of the intrinsic subtypes of breast cancer

scientific article published on 01 August 2010

Clinical implications of the non-luminal intrinsic subtypes in hormone receptor-positive breast cancer.

scientific article

Clustering microarray-derived gene lists through implicit literature relationships

scientific article published on 30 May 2007

Collective Wisdom: Lobular Carcinoma of the Breast

scientific article published in January 2016

Combined PI3K/mTOR and MEK inhibition provides broad antitumor activity in faithful murine cancer models

scientific article published on 07 August 2012

Combined associations of a polygenic risk score and classical risk factors with breast cancer risk

scientific article published on 02 May 2020

Combined immune checkpoint blockade as a therapeutic strategy for BRCA1-mutated breast cancer

scientific article

Common genetic variation in GATA-binding protein 3 and differential susceptibility to breast cancer by estrogen receptor alpha tumor status

scientific article published in November 2007

Common genetic variation in TP53 and its flanking genes, WDR79 and ATP1B2, and susceptibility to breast cancer

scientific article published in December 2007

Common markers of proliferation.

scientific article

Comparative Mapping in thebeige–satinRegion of Mouse Chromosome 13

scientific article published on 01 January 1997

Comparative genomic analysis of mouse and human mammary tumors.

scientific article published on 19 September 2011

Comparative oncogenomics identifies breast tumors enriched in functional tumor-initiating cells

scientific article published on June 2011

Comparative oncogenomics implicates the neurofibromin 1 gene (NF1) as a breast cancer driver.

scientific article

Comparison of Breast Cancer Molecular Features and Survival by African and European Ancestry in The Cancer Genome Atlas

scientific article published on 4 May 2017

Comparison of RNA-Seq by poly (A) capture, ribosomal RNA depletion, and DNA microarray for expression profiling

scientific article

Complementation analysis of Chediak-Higashi Syndrome: The same gene may be responsible for the defect in all patients and species

article

Complementation of the beige mutation in cultured cells by episomally replicating murine yeast artificial chromosomes.

scientific article published on June 1996

Comprehensive Analysis of Alternative Splicing Across Tumors from 8,705 Patients

article

Comprehensive Characterization of Cancer Driver Genes and Mutations

article

Comprehensive Molecular Characterization of Papillary Renal-Cell Carcinoma

scientific article published on 4 November 2015

Comprehensive Molecular Portraits of Invasive Lobular Breast Cancer

scientific article

Comprehensive Pan-Genomic Characterization of Adrenocortical Carcinoma

article

Concordance among gene expression-based predictors for ER-positive breast cancer treated with adjuvant tamoxifen.

scientific article

Concordance among gene-expression-based predictors for breast cancer

scientific article

Conditional loss of ErbB3 delays mammary gland hyperplasia induced by mutant PIK3CA without affecting mammary tumor latency, gene expression, or signaling.

scientific article published on 30 April 2013

Correction: Alterations in Wnt- and/or STAT3 signaling pathways and the immune microenvironment during metastatic progression

scientific article published on 01 January 2020

Correction: An integration of complementary strategies for gene-expression analysis to reveal novel therapeutic opportunities for breast cancer.

scientific article published on 12 July 2011

Correction: Statistical modeling for selecting housekeeper genes.

scientific article

Correction: Tumor Evolution in Two Patients with Basal-like Breast Cancer: A Retrospective Genomics Study of Multiple Metastases

scientific article

Corrigendum: Proteogenomic integration reveals therapeutic targets in breast cancer xenografts.

scientific article published on 25 April 2017

Cross-species DNA copy number analyses identifies multiple 1q21-q23 subtype-specific driver genes for breast cancer

scientific article published on 25 June 2015

Cytokeratin profiles of male breast cancers

scientific article

DNA defects, epigenetics, and gene expression in cancer-adjacent breast: a study from The Cancer Genome Atlas

scientific article

DNA microarrays in breast cancer: the promise of personalised medicine

scientific article published in The Lancet

DPYSL3 modulates mitosis, migration, and epithelial-to-mesenchymal transition in claudin-low breast cancer

article published in the Proceedings of the National Academy of Sciences of the United States of America

Deconstructing the molecular portraits of breast cancer

scientific article

Defining breast cancer intrinsic subtypes by quantitative receptor expression

scientific article published on 23 April 2015

Defining the cellular precursors to human breast cancer

scientific article published on 21 September 2011

Development and verification of the PAM50-based Prosigna breast cancer gene signature assay

scientific article published on 22 August 2015

Development of an immuno tandem mass spectrometry (iMALDI) assay for EGFR diagnosis

scientific article published on 01 December 2007

Dietary energy balance modulates epithelial-to-mesenchymal transition and tumor progression in murine claudin-low and basal-like mammary tumor models

scientific article published on 15 May 2012

Differences in race, molecular and tumor characteristics among women diagnosed with invasive ductal and lobular breast carcinomas

scientific article published on 08 January 2019

Differential methylation relative to breast cancer subtype and matched normal tissue reveals distinct patterns

scientific article

Differential pathogenesis of lung adenocarcinoma subtypes involving sequence mutations, copy number, chromosomal instability, and methylation

scientific article (publication date: 2012)

Differentiation and loss of malignant character of spontaneous pulmonary metastases in patient-derived breast cancer models.

scientific article

Discrete microfluidics for the isolation of circulating tumor cell subpopulations targeting fibroblast activation protein alpha and epithelial cell adhesion molecule

scientific article published on 25 July 2017

Distinctive gene expression patterns in human mammary epithelial cells and breast cancers

scientific article

Diversity of gene expression in adenocarcinoma of the lung

scientific article (publication date: 20 November 2001)

Docetaxel-Loaded PLGA Nanoparticles Improve Efficacy in Taxane-Resistant Triple-Negative Breast Cancer.

scientific article

Ductal carcinoma in situ and the emergence of diversity during breast cancer evolution

scientific article

Dynamic reprogramming of the kinome in response to targeted MEK inhibition in triple-negative breast cancer

scientific article published in April 2012

EGFR associated expression profiles vary with breast tumor subtype

scientific article

ESR1 gene amplification in breast cancer: a common phenomenon?

scientific article published on July 2008

ETV6-NTRK3 fusion oncogene initiates breast cancer from committed mammary progenitors via activation of AP1 complex

scientific article

Effect of p95HER2/611CTF on the response to trastuzumab and chemotherapy.

scientific article

Effects of tumor microenvironment heterogeneity on nanoparticle disposition and efficacy in breast cancer tumor models

scientific article

Efficacy of Neoadjuvant Carboplatin plus Docetaxel in Triple-Negative Breast Cancer: Combined Analysis of Two Cohorts.

scientific article published on 14 June 2016

Endocrine-therapy-resistant ESR1 variants revealed by genomic characterization of breast-cancer-derived xenografts

scientific article

Endothelial-like properties of claudin-low breast cancer cells promote tumor vascular permeability and metastasis.

scientific article published on 22 August 2013

Enhancer Remodeling during Adaptive Bypass to MEK Inhibition Is Attenuated by Pharmacologic Targeting of the P-TEFb Complex

scientific article

Epidemiology of basal-like breast cancer

scientific article

Epidemiology of basal-like breast cancer

ErbB3 downregulation enhances luminal breast tumor response to antiestrogens

scientific article published on 03 September 2013

Erratum: Asparagine bioavailability governs metastasis in a model of breast cancer

scientific article published in Nature

Erratum: Corrigendum: Progesterone receptor modulates ERα action in breast cancer

scientific article published in Nature

Erythropoietin promotes breast tumorigenesis through tumor-initiating cell self-renewal

scientific article published on 02 January 2014

Estrogen and Progesterone Receptor Testing in Breast Cancer: ASCO/CAP Guideline Update

scientific article published on 13 January 2020

Estrogen and Progesterone Receptor Testing in Breast Cancer: American Society of Clinical Oncology/College of American Pathologists Guideline Update

scientific article published on 13 January 2020

Estrogen-regulated genes predict survival in hormone receptor-positive breast cancers

scientific article published on 27 February 2006

Evaluating the comparability of gene expression in blood and brain

scientific article published in April 2006

Expression of autotaxin and lysophosphatidic acid receptors increases mammary tumorigenesis, invasion, and metastases

scientific article

Expression of cytokeratins 17 and 5 identifies a group of breast carcinomas with poor clinical outcome

scientific article

Expression of miR-200c in claudin-low breast cancer alters stem cell functionality, enhances chemosensitivity and reduces metastatic potential

scientific article

FGFR1-Activated Translation of WNT Pathway Components with Structured 5' UTRs Is Vulnerable to Inhibition of EIF4A-Dependent Translation Initiation

FGFR4 regulates tumor subtype differentiation in luminal breast cancer and metastatic disease

scientific article published on 23 June 2020

FOXA1 Expression in Breast Cancer Correlation with Luminal Subtype A and Survival

scientific article published on 01 August 2007

FOXA1 and adaptive response determinants to HER2 targeted therapy in TBCRC 036

scientific article published on 12 May 2021

Fibroblast growth factor receptor signaling dramatically accelerates tumorigenesis and enhances oncoprotein translation in the mouse mammary tumor virus-Wnt-1 mouse model of breast cancer

scientific article

Finding large average submatrices in high dimensional data

article published in 2009

Frequency of breast cancer subtypes among African American women in the AMBER consortium

scientific article published on 6 February 2018

Functional Annotation of ESR1 Gene Fusions in Estrogen Receptor-Positive Breast Cancer

article

GATA3 zinc finger 2 mutations reprogram the breast cancer transcriptional network.

scientific article published on 13 March 2018

Gene Expression Signatures and Immunohistochemical Subtypes Add Prognostic Value to Each Other in Breast Cancer Cohorts

scientific article published on 29 September 2017

Gene expression patterns associated with p53 status in breast cancer.

scientific article

Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications

scientific article (publication date: 11 September 2001)

Gene expression profile signatures indicate a role for Wnt signaling in endothelial commitment from embryonic stem cells

scientific article published on 6 April 2006

Gene expression profiles do not consistently predict the clinical treatment response in locally advanced breast cancer

article

Gene expression profiles of breast biopsies from healthy women identify a group with claudin-low features

scientific article published on November 2011

Gene expression profiling reveals reproducible human lung adenocarcinoma subtypes in multiple independent patient cohorts

scientific article published on November 2006

Gene profiling of canine B-cell lymphoma reveals germinal center and postgerminal center subtypes with different survival times, modeling human DLBCL.

scientific article published on 19 June 2013

Genetic determinants of the molecular portraits of epithelial cancers

scientific article published on 11 December 2019

Genetic variation in Transaldolase 1 and risk of squamous cell carcinoma of the head and neck.

scientific article

Genome Medicine in Cancer: What's in a Name?

scientific article

Genome remodelling in a basal-like breast cancer metastasis and xenograft

scientific article

Genome-wide analysis of DNA copy-number changes using cDNA microarrays

scientific article (publication date: September 1999)

Genome-wide profiles of CtBP link metabolism with genome stability and epithelial reprogramming in breast cancer.

scientific article

Genomic Analysis of Immune Cell Infiltrates Across 11 Tumor Types

scientific article published on 22 June 2016

Genomic analysis identifies unique signatures predictive of brain, lung, and liver relapse.

scientific article

Genomic predictors of response to doxorubicin versus docetaxel in primary breast cancer

scientific article published on 5 April 2011

Genomic profiling of murine mammary tumors identifies potential personalized drug targets for p53-deficient mammary cancers.

scientific article published on 05 May 2016

HER2-enriched subtype and pathological complete response in HER2-positive breast cancer: A systematic review and meta-analysis

scientific article published on 17 January 2020

Hierarchical task-driven feature learning for tumor histology

High Intratumoral Stromal Content Defines Reactive Breast Cancer as a Low-risk Breast Cancer Subtype

scientific article published on 12 May 2016

High reproducibility using sodium hydroxide-stripped long oligonucleotide DNA microarrays.

scientific article published on January 2005

High-throughput amplicon scanning of the TP53 gene in breast cancer using high-resolution fluorescent melting curve analyses and automatic mutation calling.

scientific article

How many etiological subtypes of breast cancer: two, three, four, or more?

scientific article

Human epidermal growth factor receptor-2 and estrogen receptor expression, a demonstration project using the residual tissue repository of the Surveillance, Epidemiology, and End Results (SEER) program

scientific article

I-Boost: an integrative boosting approach for predicting survival time with multiple genomics platforms

Identification and mutation analysis of the complete gene for Chediak-Higashi syndrome

scientific article published on November 1996

Identification of BBOX1 as a Therapeutic Target in Triple-Negative Breast Cancer

scientific article published on 20 July 2020

Identification of Jun loss promotes resistance to histone deacetylase inhibitor entinostat through Myc signaling in luminal breast cancer

scholarly article by Maki Tanioka published in November 2018

Identification of a CpG island methylator phenotype that defines a distinct subgroup of glioma

scientific article

Identification of a basal-like subtype of breast ductal carcinoma in situ

scientific article

Identification of a stable molecular signature in mammary tumor endothelial cells that persists in vitro

scientific article

Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors

scientific article published in January 2007

Identification of genes periodically expressed in the human cell cycle and their expression in tumors

scientific article (publication date: June 2002)

Identification of mRNA isoform switching in breast cancer

scientific article

Identification of the murine beige gene by YAC complementation and positional cloning

scientific article published in July 1996

Image analysis with deep learning to predict breast cancer grade, ER status, histologic subtype, and intrinsic subtype

scholarly article by Heather D Couture et al published 2018 in NPJ breast cancer

Immunohistochemical and clinical characterization of the basal-like subtype of invasive breast carcinoma

scientific article

Impact of stromal microenvironment on metabolic phenotypes in breast cancer: evidence for stroma-influenced Warburg effect

scientific article

Impact of the addition of carboplatin and/or bevacizumab to neoadjuvant once-per-week paclitaxel followed by dose-dense doxorubicin and cyclophosphamide on pathologic complete response rates in stage II to III triple-negative breast cancer: CALGB 40

scientific article

Impact of tumor microenvironment and epithelial phenotypes on metabolism in breast cancer

scientific article published on 12 December 2012

Improved indel detection in DNA and RNA via realignment with ABRA2

scientific article published on 01 September 2019

In vitro and in vivo analysis of B-Myb in basal-like breast cancer

scientific article

Independent Validation of the PAM50-Based Chemo-Endocrine Score (CES) in Hormone Receptor-Positive HER2-Positive Breast Cancer Treated with Neoadjuvant Anti-HER2-Based Therapy

scientific article published on 25 February 2021

Insulin Receptor Substrate Adaptor Proteins Mediate Prognostic Gene Expression Profiles in Breast Cancer

scientific article

Integrated Analysis of RNA and DNA from the Phase III Trial CALGB 40601 Identifies Predictors of Response to Trastuzumab-Based Neoadjuvant Chemotherapy in HER2-Positive Breast Cancer

scientific article published on 23 July 2018

Integrated RNA and DNA sequencing improves mutation detection in low purity tumors.

scientific article

Integrated RNA and DNA sequencing reveals early drivers of metastatic breast cancer

scientific article published on 26 February 2018

Integrated analyses of microRNAs demonstrate their widespread influence on gene expression in high-grade serous ovarian carcinoma

scientific article (publication date: 2012)

Integrated genomic analysis identifies clinically relevant subtypes of glioblastoma characterized by abnormalities in PDGFRA, IDH1, EGFR, and NF1

scientific article

Integrated molecular profiles of invasive breast tumors and ductal carcinoma in situ (DCIS) reveal differential vascular and interleukin signaling

scientific article published on 9 September 2011

Integrated study of copy number states and genotype calls using high-density SNP arrays

scientific article published on 6 July 2009

Interactions with fibroblasts are distinct in Basal-like and luminal breast cancers.

scientific article

Intratumoral heterogeneity in a Trp53-null mouse model of human breast cancer

scientific article published on 3 March 2015

Intrinsic Subtype and Therapeutic Response Among HER2-Positive Breaty st Tumors from the NCCTG (Alliance) N9831 Trial

scientific article published on 28 October 2016

Intrinsic Subtypes and Gene Expression Profiles in Primary and Metastatic Breast Cancer.

scientific article

Intrinsic breast tumor subtypes, race, and long-term survival in the Carolina Breast Cancer Study

scientific article

Intrinsic molecular subtypes of breast cancers categorized as HER2-positive using an alternative chromosome 17 probe assay

scientific article published on 11 July 2018

Intrinsic subtypes and benefit from postmastectomy radiotherapy in node-positive premenopausal breast cancer patients who received adjuvant chemotherapy - results from two independent randomized trials

scientific article published on 25 November 2017

JOINT AND INDIVIDUAL ANALYSIS OF BREAST CANCER HISTOLOGIC IMAGES AND GENOMIC COVARIATES

scientific article published on 21 December 2021

Ki67 index, HER2 status, and prognosis of patients with luminal B breast cancer

scientific article published on 12 May 2009

LKB1/STK11 inactivation leads to expansion of a prometastatic tumor subpopulation in melanoma

scientific article published on June 2012

Loss of heterozygosity at the CYP2D6 locus in breast cancer: implications for germline pharmacogenetic studies.

scientific article

Luminal progenitor and fetal mammary stem cell expression features predict breast tumor response to neoadjuvant chemotherapy

scientific article

Lunatic fringe deficiency cooperates with the Met/Caveolin gene amplicon to induce basal-like breast cancer.

scientific article published on May 2012

Lung Adenocarcinoma and Squamous Cell Carcinoma Gene Expression Subtypes Demonstrate Significant Differences in Tumor Immune Landscape

scientific article published on 21 March 2017

Lung squamous cell carcinoma mRNA expression subtypes are reproducible, clinically important, and correspond to normal cell types

scientific article

MAP3K4/CBP-regulated H2B acetylation controls epithelial-mesenchymal transition in trophoblast stem cells

scientific article

MERTK mediated novel site Akt phosphorylation alleviates SAV1 suppression

scientific article published on 03 April 2019

MPA-induced gene expression and stromal and parenchymal gene expression profiles in luminal murine mammary carcinomas with different hormonal requirements.

scientific article

MR Imaging Radiomics Signatures for Predicting the Risk of Breast Cancer Recurrence as Given by Research Versions of MammaPrint, Oncotype DX, and PAM50 Gene Assays

scientific article published on 05 May 2016

MYC is amplified in BRCA1-associated breast cancers

scientific article published in January 2004

Maintenance of hormone responsiveness in luminal breast cancers by suppression of Notch

scientific article published on 3 October 2011

Mammary development meets cancer genomics

scientific article published in August 2009

MapSplice: accurate mapping of RNA-seq reads for splice junction discovery.

scientific article

Merging two gene-expression studies via cross-platform normalization

scientific article published on 5 March 2008

Metabolic reprogramming underlies metastatic potential in an obesity-responsive murine model of metastatic triple negative breast cancer

scientific article

Micro-scale genomic DNA copy number aberrations as another means of mutagenesis in breast cancer

scientific article

MicroRNA-30c inhibits human breast tumour chemotherapy resistance by regulating TWF1 and IL-11.

scientific article published on January 2013

MicroRNA-30c targets cytoskeleton genes involved in breast cancer cell invasion.

scientific article published on 7 December 2012

Microarray analysis reveals a major direct role of DNA copy number alteration in the transcriptional program of human breast tumors

scientific article

Microarrays and epidemiology: ensuring the impact and accessibility of research findings.

scientific article published in January 2009

Microarrays in primary breast cancer--lessons from chemotherapy studies

scientific article published in September 2001

Microscaled proteogenomic methods for precision oncology

scientific article published on 27 January 2020

Mitochondrial Hep27 is a c-Myb target gene that inhibits Mdm2 and stabilizes p53.

scientific article

Molecular Heterogeneity and Response to Neoadjuvant Human Epidermal Growth Factor Receptor 2 Targeting in CALGB 40601, a Randomized Phase III Trial of Paclitaxel Plus Trastuzumab With or Without Lapatinib.

scientific article

Molecular Portraits and 70-Gene Prognosis Signature Are Preserved throughout the Metastatic Process of Breast Cancer

article

Molecular Stratification of Triple-Negative Breast Cancers ⬇️

scientific article published on January 1, 2010

Molecular analysis reveals heterogeneity of mouse mammary tumors conditionally mutant for Brca1.

scientific article published on 7 April 2008

Molecular characterization of basal-like and non-basal-like triple-negative breast cancer

scientific article published on 12 February 2013

Molecular characterization of human breast tumor vascular cells

scientific article

Molecular classification of head and neck squamous cell carcinomas using patterns of gene expression

article

Molecular features and survival outcomes of the intrinsic subtypes within HER2-positive breast cancer

scientific article

Molecular features of the basal-like breast cancer subtype based on BRCA1 mutation status

scientific article

Molecular portraits and the family tree of cancer

scientific article

Molecular portraits of human breast tumours

scientific article (publication date: 17 August 2000)

Molecular signatures of in situ to invasive progression for basal-like breast cancers: An integrated mouse model and human DCIS study

scientific article published in 2022

Molecular stratification of triple-negative breast cancers.

scientific article

Molecular subtype and tumor characteristics of breast cancer metastases as assessed by gene expression significantly influence patient post-relapse survival.

scientific article

Molecular subtypes in breast cancer evaluation and management: divide and conquer

scientific article published on February 2008

Multiclass Distance-Weighted Discrimination

Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin

scientific article

Multiple roles of cyclin-dependent kinase 4/6 inhibitors in cancer therapy

scientific article published in February 2012

Murine microenvironment metaprofiles associate with human cancer etiology and intrinsic subtypes

scientific article published on 21 January 2013

Mutant PIK3CA accelerates HER2-driven transgenic mammary tumors and induces resistance to combinations of anti-HER2 therapies

scientific article published on 12 August 2013

Mutation of GATA3 in human breast tumors

scientific article

Nuclear Localized LSR: A Novel Regulator of Breast Cancer Behavior and Tumorigenesis.

scientific article published on 17 November 2016

Oncogenic Deregulation of EZH2 as an Opportunity for Targeted Therapy in Lung Cancer.

scientific article published on 16 June 2016

Oncogenic PI3K mutations lead to NF-κB-dependent cytokine expression following growth factor deprivation

scientific article published on 2 May 2012

Oncometabolite D-2-Hydroxyglutarate Inhibits ALKBH DNA Repair Enzymes and Sensitizes IDH Mutant Cells to Alkylating Agents.

scientific article published on 9 December 2015

Orphan Gpr182 suppresses ERK-mediated intestinal proliferation during regeneration and adenoma formation.

scientific article published on 17 January 2017

Overview of Genetically Engineered Mouse Models of Distinct Breast Cancer Subtypes

scientific article published on 18 March 2016

PAM50 Provides Prognostic Information When Applied to the Lymph Node Metastases of Advanced Breast Cancer Patients

scientific article published on 29 September 2017

PAM50 and Risk of Recurrence Scores for Interval Breast Cancers.

scientific article

PAM50 assay and the three-gene model for identifying the major and clinically relevant molecular subtypes of breast cancer

scientific article

PAM50 breast cancer subtyping by RT-qPCR and concordance with standard clinical molecular markers.

scientific article

PAM50 gene signatures and breast cancer prognosis with adjuvant anthracycline- and taxane-based chemotherapy: correlative analysis of C9741 (Alliance).

scientific article

PAM50 proliferation score as a predictor of weekly paclitaxel benefit in breast cancer

scientific article published on 20 February 2013

PDGFRβ is an essential therapeutic target for BRCA1-deficient mammary tumors

scientific article published on 21 January 2021

PIK3CA and PIK3CB inhibition produce synthetic lethality when combined with estrogen deprivation in estrogen receptor-positive breast cancer

scientific article

Palbociclib--Taking Breast-Cancer Cells Out of Gear.

scientific article

Pathologic complete response predicts recurrence-free survival more effectively by cancer subset: results from the I-SPY 1 TRIAL--CALGB 150007/150012, ACRIN 6657.

scientific article

Pathological Response and Survival in Triple-Negative Breast Cancer Following Neoadjuvant Carboplatin plus Docetaxel

scientific article published on 30 July 2018

Pathological complete response and long-term clinical benefit in breast cancer: the CTNeoBC pooled analysis

scientific article published on 14 February 2014

Pathological response in a triple negative breast cancer cohort treated with neoadjuvant carboplatin and docetaxel according to Lehmann's refined classification.

scientific article

Patterns of cell cycle checkpoint deregulation associated with intrinsic molecular subtypes of human breast cancer cells

scientific article

Pentraxin-3 is a PI3K signaling target that promotes stem cell-like traits in basal-like breast cancers.

scientific article

Performance of Three-Biomarker Immunohistochemistry for Intrinsic Breast Cancer Subtyping in the AMBER Consortium

scientific article published on 28 December 2015

Pharmacokinetics and efficacy of PEGylated liposomal doxorubicin in an intracranial model of breast cancer.

scientific article

Phase II study of bortezomib and pegylated liposomal doxorubicin in the treatment of metastatic breast cancer

scientific article published on December 2010

Phenotypic and molecular characterization of the claudin-low intrinsic subtype of breast cancer

scientific article (publication date: 2010)

Phenotypic evaluation of the basal-like subtype of invasive breast carcinoma

scientific article

Phosphorylation of RAS1 and RAS2 proteins in Saccharomyces cerevisiae

scientific article

Poly(2-oxazoline) based micelles with high capacity for 3rd generation taxoids: preparation, in vitro and in vivo evaluation

scientific article published on 26 February 2015

Population differences in breast cancer: survey in indigenous African women reveals over-representation of triple-negative breast cancer

scientific article published on 24 August 2009

Potential tumor suppressor role for the c-Myb oncogene in luminal breast cancer.

scientific article

Practical implications of gene-expression-based assays for breast oncologists.

scientific article published on 06 December 2011

Predicting drug responsiveness in human cancers using genetically engineered mice.

scientific article published on 18 June 2013

Predicting response and survival in chemotherapy-treated triple-negative breast cancer.

scientific article

Prediction of lung cancer histological types by RT-qPCR gene expression in FFPE specimens

scientific article published on 20 May 2013

Prediction of toxicant-specific gene expression signatures after chemotherapeutic treatment of breast cell lines

scientific article

Primary breast tumor-derived cellular models: characterization of tumorigenic, metastatic, and cancer-associated fibroblasts in dissociated tumor (DT) cultures

scientific article published on 25 February 2014

Progesterone Receptor Isoform Ratio: A Breast Cancer Prognostic and Predictive Factor for Antiprogestin Responsiveness.

scientific article published on July 2017

Progesterone receptor modulates ERα action in breast cancer

scientific article

Prognostic B-cell signatures using mRNA-seq in patients with subtype-specific breast and ovarian cancer

scientific article

Prognostic ability of EndoPredict compared to research-based versions of the PAM50 risk of recurrence (ROR) scores in node-positive, estrogen receptor-positive, and HER2-negative breast cancer. A GEICAM/9906 sub-study

scientific article published on 24 February 2016

Prognostic significance of progesterone receptor-positive tumor cells within immunohistochemically defined luminal A breast cancer

scientific article

Prolyl hydroxylase substrate adenylosuccinate lyase is an oncogenic driver in triple negative breast cancer

scientific article published on 15 November 2019

Proper Use of Allele-Specific Expression Improves Statistical Power for cis-eQTL Mapping with RNA-Seq Data

scientific article published on 7 November 2015

Proteogenomic integration reveals therapeutic targets in breast cancer xenografts

scientific article published on 28 March 2017

Proteogenomics connects somatic mutations to signalling in breast cancer

scientific article

Pseudogenes transcribed in breast invasive carcinoma show subtype-specific expression and ceRNA potential

scientific article

Quantitative MRI radiomics in the prediction of molecular classifications of breast cancer subtypes in the TCGA/TCIA data set

scientific article

RB1 and p53 at the crossroad of EMT and triple-negative breast cancer.

scientific article published on 15 May 2011

RERG is a novel ras-related, estrogen-regulated and growth-inhibitory gene in breast cancer

scientific article

RNA expression analysis of formalin-fixed paraffin-embedded tumors

article

Race, breast cancer subtypes, and survival in the Carolina Breast Cancer Study

scientific article published on 7 June 2006

Race-associated biological differences among Luminal A breast tumors

scientific article published on 25 June 2015

Race-associated biological differences among luminal A and basal-like breast cancers in the Carolina Breast Cancer Study

scientific article published on 11 December 2017

Racial Differences in PAM50 Subtypes in the Carolina Breast Cancer Study

scientific article published on February 2018

Radiation-induced gene signature predicts pathologic complete response to neoadjuvant chemotherapy in breast cancer patients

scientific article published on 14 February 2014

Rare germline copy number variants (CNVs) and breast cancer risk

scientific article published on 18 January 2022

Rb deletion in mouse mammary progenitors induces luminal-B or basal-like/EMT tumor subtypes depending on p53 status

scientific article

ReQON: a Bioconductor package for recalibrating quality scores from next-generation sequencing data

scientific article

Receiver operating characteristic curves and confidence bands for support vector machines

scientific article published on 31 August 2020

Relationship between plasma estradiol levels and estrogen-responsive gene expression in estrogen receptor-positive breast cancer in postmenopausal women

scientific article

Repeated observation of breast tumor subtypes in independent gene expression data sets

scientific article (publication date: 8 July 2003)

Reply to L.C. Panasci

Reply to R.S. Mehta et al

Reply to Y.Yamamoto et al.

scientific article

Reported Biologic Differences in Breast Cancer by Race Due to Disparities in Screening-Reply

scientific article published on 01 June 2018

Reproductive risk factor associations with lobular and ductal carcinoma in the Carolina Breast Cancer Study.

scientific article published on 9 November 2017

Residual breast cancers after conventional therapy display mesenchymal as well as tumor-initiating features

scientific article (publication date: 18 August 2009)

Response

scientific article published on 24 February 2015

Response and survival of breast cancer intrinsic subtypes following multi-agent neoadjuvant chemotherapy

scientific article

Responsiveness of intrinsic subtypes to adjuvant anthracycline substitution in the NCIC.CTG MA.5 randomized trial.

scientific article published on 20 February 2012

Rho GTPase Transcriptome Analysis Reveals Oncogenic Roles for Rho GTPase-Activating Proteins in Basal-like Breast Cancers

scientific article published on 23 May 2016

Role of HGF in obesity-associated tumorigenesis: C3(1)-TAg mice as a model for human basal-like breast cancer

scientific article

Ror2-mediated alternative Wnt signaling regulates cell fate and adhesion during mammary tumor progression

scientific article

SCDC: bulk gene expression deconvolution by multiple single-cell RNA sequencing references

scientific article published on 10 January 2020

SWI/SNF chromatin-remodeling factor Smarcd3/Baf60c controls epithelial-mesenchymal transition by inducing Wnt5a signaling

scientific article published on 28 May 2013

SWISS MADE: Standardized WithIn Class Sum of Squares to evaluate methodologies and dataset elements.

scientific article

Secreted frizzle-related protein 2 stimulates angiogenesis via a calcineurin/NFAT signaling pathway

scientific journal article

Separation of breast cancer and organ microenvironment transcriptomes in metastases

scientific article published on 06 March 2019

Serial single-cell profiling analysis of metastatic TNBC during Nab-paclitaxel and pembrolizumab treatment

scientific article published on 19 September 2020

Show me the data!

scientific article published on 01 December 2001

SigFuge: single gene clustering of RNA-seq reveals differential isoform usage among cancer samples

scientific article

Single allele loss-of-function mutations select and sculpt conditional cooperative networks in breast cancer

scientific article published on 02 September 2021

Single-Cell Transcriptomes Distinguish Stem Cell State Changes and Lineage Specification Programs in Early Mammary Gland Development

scientific article published on 01 August 2018

Somatic sequence alterations in twenty-one genes selected by expression profile analysis of breast carcinomas

scientific article published on January 2007

Sox10 Regulates Stem/Progenitor and Mesenchymal Cell States in Mammary Epithelial Cells

scientific article

Standardizing global gene expression analysis between laboratories and across platforms.

scientific article

Statistical modeling for selecting housekeeper genes

scientific article

Stimulation of Oncogene-Specific Tumor-Infiltrating T Cells through Combined Vaccine and αPD-1 Enable Sustained Antitumor Responses against Established HER2 Breast Cancer

scientific article published on 30 July 2020

Structure and expression of yeast DPR1, a gene essential for the processing and intracellular localization of ras proteins

scientific article

Supervised risk predictor of breast cancer based on intrinsic subtypes

scientific article (publication date: 10 March 2009)

Survival, Pathologic Response, and Genomics in CALGB 40601 (Alliance), a Neoadjuvant Phase III Trial of Paclitaxel-Trastuzumab With or Without Lapatinib in HER2-Positive Breast Cancer

scientific article published on 23 October 2020

SynthEx: a synthetic-normal-based DNA sequencing tool for copy number alteration detection and tumor heterogeneity profiling

scientific article published on 08 April 2017

Systematic variation in gene expression patterns in human cancer cell lines

scientific article (publication date: March 2000)

Systems biology and genomics of breast cancer

scientific article

TBCRC 001: randomized phase II study of cetuximab in combination with carboplatin in stage IV triple-negative breast cancer

scientific article

TBCRC 018: phase II study of iniparib in combination with irinotecan to treat progressive triple negative breast cancer brain metastases.

scientific article

TP53 Pathway Function, Estrogen Receptor Status, and Breast Cancer Risk Factors in the Carolina Breast Cancer Study

scientific article published in 2021

TP53 genomics predict higher clinical and pathologic tumor response in operable early-stage breast cancer treated with docetaxel-capecitabine ± trastuzumab

scientific article published on 04 March 2011

TP53 protein levels, RNA-based pathway assessment, and race among invasive breast cancer cases.

scientific article published on 25 June 2018

Targeting the PyMT Oncogene to Diverse Mammary Cell Populations Enhances Tumor Heterogeneity and Generates Rare Breast Cancer Subtypes

scientific article published on September 2012

The Beige/Chediak-Higashi Syndrome Gene Encodes a Widely Expressed Cytosolic Protein ⬇️

scientific article published on November 21, 1997

The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma

article

The Immune Microenvironment in Hormone Receptor-Positive Breast Cancer Before and After Preoperative Chemotherapy

scientific article published on 06 May 2019

The MMTV-Wnt1 murine model produces two phenotypically distinct subtypes of mammary tumors with unique therapeutic responses to an EGFR inhibitor

scientific article published on 05 July 2019

The Six1 oncoprotein downregulates p53 via concomitant regulation of RPL26 and microRNA-27a-3p.

scientific article

The Somatic Genomic Landscape of Glioblastoma

article

The association between copy number aberration, DNA methylation and gene expression in tumor samples

scientific article published on 26 February 2018

The bg allele mutation is due to a LINE1 element retrotransposition

scientific article published in June 1997

The functional loss of the retinoblastoma tumour suppressor is a common event in basal-like and luminal B breast carcinomas

scientific article published on 09 September 2008

The genomic landscape of breast cancer as a therapeutic roadmap

scientific article published on January 2013

The long-term prognostic and predictive capacity of cyclin D1 gene amplification in 2305 breast tumours

article

The molecular basis of breast cancer pathological phenotypes

scientific article published on 14 November 2016

The molecular diversity of Luminal A breast tumors

scientific article published on 06 October 2013

The molecular portraits of breast tumors are conserved across microarray platforms

scientific article published on 27 April 2006

The prognostic contribution of clinical breast cancer subtype, age, and race among patients with breast cancer brain metastases

scientific article

The receptor tyrosine kinase ErbB3 maintains the balance between luminal and basal breast epithelium

scientific article published on 16 December 2011

The somatic genomic landscape of glioblastoma

scientific article

The triple negative paradox: primary tumor chemosensitivity of breast cancer subtypes

scientific article

The use of Bayesian hierarchical models for adaptive randomization in biomarker-driven phase II studies

scientific article published on January 2015

Towards a novel classification of human malignancies based on gene expression patterns

scientific article

Transcriptomic classification of genetically engineered mouse models of breast cancer identifies human subtype counterparts

scientific article

Translating transcriptomic findings from cancer model systems to humans through joint dimension reduction

scientific article published in 2023

Treg depletion potentiates checkpoint inhibition in claudin-low breast cancer

scientific article published on 21 August 2017

Triple-negative breast cancer: risk factors to potential targets

scientific article published on December 2008

Tumor Evolution in Two Patients with Basal-like Breast Cancer: A Retrospective Genomics Study of Multiple Metastases

scientific article

Tumor Heterogeneity: Focus on the Leaves, the Trees, or the Forest?

scientific article

Tumor mutational burden is a determinant of immune-mediated survival in breast cancer

scientific article published on 30 July 2018

ULK1 inhibition overcomes compromised antigen presentation and restores antitumor immunity in LKB1 mutant lung cancer

scientific article published on 17 May 2021

Universal Reference RNA as a standard for microarray experiments

scientific article

Unlocking the transcriptomic potential of formalin-fixed paraffin embedded clinical tissues: comparison of gene expression profiling approaches

scientific article published on 28 January 2020

VHL substrate transcription factor ZHX2 as an oncogenic driver in clear cell renal cell carcinoma

scientific article

Validation of the Lung Subtyping Panel in Multiple Fresh-Frozen and Formalin-Fixed, Paraffin-Embedded Lung Tumor Gene Expression Data Sets

scientific article published on 2 October 2015

Vimentin DNA methylation predicts survival in breast cancer

scientific article

Virus expression detection reveals RNA-sequencing contamination in TCGA

scientific article published on 28 January 2020

Visualization of Cross-Platform Microarray Normalization

scholarly article

WITHDRAWN: Deconstructing the molecular portraits of breast cancer

retracted scientific article published on 14 April 2010

Wild-Type N-Ras, Overexpressed in Basal-like Breast Cancer, Promotes Tumor Formation by Inducing IL-8 Secretion via JAK2 Activation

scientific article published on 9 July 2015

c-Jun N-terminal kinase 2 prevents luminal cell commitment in normal mammary glands and tumors by inhibiting p53/Notch1 and breast cancer gene 1 expression

scientific article published in May 2015

c-Myc and Her2 cooperate to drive a stem-like phenotype with poor prognosis in breast cancer.

scientific article published on 23 September 2013

siRNA: a potential tool for future breast cancer therapy?

scientific article published on July 2006

αB-crystallin Expression in Breast Cancer is Associated with Brain Metastasis

scientific article published on October 2015

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