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List of works by John A Foekens

4-protein signature predicting tamoxifen treatment outcome in recurrent breast cancer.

scientific article published on 7 August 2015

A Method to Correlate mRNA Expression Datasets Obtained from Fresh Frozen and Formalin-Fixed, Paraffin-Embedded Tissue Samples: A Matter of Thresholds.

scientific article published on 30 December 2015

Age-specific differences in oncogenic pathway deregulation seen in human breast tumors

scientific article

An 8-gene mRNA expression profile in circulating tumor cells predicts response to aromatase inhibitors in metastatic breast cancer patients

scientific article published on 18 February 2016

Ancestry-shift refinement mapping of the C6orf97-ESR1 breast cancer susceptibility locus

scientific article

Annexin-A1 and caldesmon are associated with resistance to tamoxifen in estrogen receptor positive recurrent breast cancer

scientific article published on 9 December 2015

Anti-epithelial cell adhesion molecule antibodies and the detection of circulating normal-like breast tumor cells.

scientific article published on 30 December 2008

Association of DNA methylation of phosphoserine aminotransferase with response to endocrine therapy in patients with recurrent breast cancer

scientific article published in May 2005

Association of an extracellular matrix gene cluster with breast cancer prognosis and endocrine therapy response

scientific article

Author Correction: Landscape of somatic mutations in 560 breast cancer whole-genome sequences

scientific article published on 01 February 2019

BM-22BOC AND MAP2 ARE OPERATIVE IN BREAST CANCER METASTASIS TO BRAIN

BMET-27CEREBRAL METASTASIS OF BREAST CANCER IS FACILITATED BY THE T CELL RESPONSE INVOLVING GBP1.

scientific article

Breast cancer genome and transcriptome integration implicates specific mutational signatures with immune cell infiltration

scientific article published on 26 September 2016

CCAT2, a novel long non-coding RNA in breast cancer: expression study and clinical correlations

scientific article published on October 2013

CCAT2, a novel noncoding RNA mapping to 8q24, underlies metastatic progression and chromosomal instability in colon cancer

scientific article published on 24 June 2013

CD49f-based selection of circulating tumor cells (CTCs) improves detection across breast cancer subtypes ⬇️

scientific article published on December 24, 2011

CDO1 promoter methylation is a biomarker for outcome prediction of anthracycline treated, estrogen receptor-positive, lymph node-positive breast cancer patients

scientific article

CHEK2 1100delC and male breast cancer in the Netherlands

scientific article published on 31 August 2008

Cell-free DNA mutations as biomarkers in breast cancer patients receiving tamoxifen

scientific article

Circulating tumour cell detection on its way to routine diagnostic implementation?

scientific article

Clinical Relevance of Targeting the Gastrin-Releasing Peptide Receptor, Somatostatin Receptor 2, or Chemokine C-X-C Motif Receptor 4 in Breast Cancer for Imaging and Therapy

scientific article published on 6 August 2015

Clinical significance of the nuclear receptor co-regulator DC-SCRIPT in breast cancer: an independent retrospective validation study.

scientific article

Clinical value of circulating endothelial cell detection in oncology.

scientific article

Combined vascular endothelial growth factor and TP53 status predicts poor response to tamoxifen therapy in estrogen receptor-positive advanced breast cancer.

scientific article published in April 2003

Comparative proteome analysis revealing an 11-protein signature for aggressive triple-negative breast cancer

scientific article published on 07 January 2014

Complex landscapes of somatic rearrangement in human breast cancer genomes

scientific article

Concentrations of TIMP1 mRNA splice variants and TIMP-1 protein are differentially associated with prognosis in primary breast cancer

scientific article published on 03 May 2007

Correlation of breast cancer susceptibility loci with patient characteristics, metastasis-free survival, and mRNA expression of the nearest genes ⬇️

scientific article published on July 12, 2011

DC-SCRIPT is a novel regulator of the tumor suppressor gene CDKN2B and induces cell cycle arrest in ERα-positive breast cancer cells

scientific article

DNA hypermethylation of PITX2 is a marker of poor prognosis in untreated lymph node-negative hormone receptor-positive breast cancer patients

scientific article published on 28 October 2007

Decreased expression of ABAT and STC2 hallmarks ER-positive inflammatory breast cancer and endocrine therapy resistance in advanced disease

scientific article published on 4 March 2015

Definition of clinically distinct molecular subtypes in estrogen receptor-positive breast carcinomas through genomic grade

scientific article

Detection of circulating tumor cells in breast cancer may improve through enrichment with anti-CD146.

scientific article

Development of an ELISA for measurement of BCAR1 protein in human breast cancer tissue.

scientific article published on August 2004

Differential effects of fibroblast growth factors on expression of genes of the plasminogen activator and insulin-like growth factor systems by human breast fibroblasts

scientific article (publication date: April 2002)

Distinct inherited metastasis susceptibility exists for different breast cancer subtypes: a prognosis study

scientific article published on January 2009

Do the survivin (BIRC5) splice variants modulate or add to the prognostic value of total survivin in breast cancer?

scientific article published on 27 July 2006

Downregulation of SIAH2, an ubiquitin E3 ligase, is associated with resistance to endocrine therapy in breast cancer

scientific article published on 16 July 2008

Elevated APOBEC3B correlates with poor outcomes for estrogen-receptor-positive breast cancers

scientific article

Enhanced benefit from adjuvant chemotherapy in breast cancer patients classified high-risk according to urokinase-type plasminogen activator (uPA) and plasminogen activator inhibitor type 1 (n = 3424).

scientific article published in August 2002

Erratum: Corrigendum: Signatures of mutational processes in human cancer

scientific article published in Nature

Evaluation of the ability of adjuvant tamoxifen-benefit gene signatures to predict outcome of hormone-naive estrogen receptor-positive breast cancer patients treated with tamoxifen in the advanced setting.

scientific article published on 10 July 2014

Ferritin heavy chain in triple negative breast cancer: a favorable prognostic marker that relates to a cluster of differentiation 8 positive (CD8+) effector T-cell response

scientific article

Four miRNAs associated with aggressiveness of lymph node-negative, estrogen receptor-positive human breast cancer

scholarly article

GATA3 mRNA expression, but not mutation, associates with longer progression-free survival in ER-positive breast cancer patients treated with first-line tamoxifen for recurrent disease.

scientific article

Gene expression-based classification of non-small cell lung carcinomas and survival prediction

scientific article

Genes associated with breast cancer metastatic to bone

scientific article published on 24 April 2006

Genes that mediate breast cancer metastasis to the brain

scientific article

GnRH and LHR gene variants predict adverse outcome in premenopausal breast cancer patients

scientific article

Growth and metastatic behavior of molecularly well-characterized human breast cancer cell lines in mice

scientific article

HOXB13-to-IL17BR expression ratio is related with tumor aggressiveness and response to tamoxifen of recurrent breast cancer: a retrospective study

scientific article

High TWIST1 mRNA expression is associated with poor prognosis in lymph node-negative and estrogen receptor-positive human breast cancer and is co-expressed with stromal as well as ECM related genes ⬇️

scientific article published on September 11, 2012

How ADAM-9 and ADAM-11 differentially from estrogen receptor predict response to tamoxifen treatment in patients with recurrent breast cancer: a retrospective study

scientific article published in October 2005

Identification of a putative protein profile associated with tamoxifen therapy resistance in breast cancer

scientific article

Improvement of the clinical applicability of the Genomic Grade Index through a qRT-PCR test performed on frozen and formalin-fixed paraffin-embedded tissues

scientific article

Integrating meta-analysis of microarray data and targeted proteomics for biomarker identification: application in breast cancer

scientific article

Integrative analysis of genomics and proteomics data on clinical breast cancer tissue specimens extracted with acid guanidinium thiocyanate-phenol-chloroform.

scientific article

International network of cancer genome projects

scientific article

KLF6-SV1 Drives Breast Cancer Metastasis and Is Associated with Poor Survival ⬇️

scientific article published on January 23, 2013

KRAS and BRAF mutation status in circulating colorectal tumor cells and their correlation with primary and metastatic tumor tissue ⬇️

scientific article published on February 9, 2013

LAMP3 is involved in tamoxifen resistance in breast cancer cells through the modulation of autophagy.

scientific article published on 16 January 2014

Landscape of somatic mutations in 560 breast cancer whole-genome sequences

scientific article

Laser Capture Microdissection Applications in Breast Cancer Proteomics ⬇️

scientific article published on January 1, 2011

Latent bone metastasis in breast cancer tied to Src-dependent survival signals

scientific article

Loss of E-cadherin is not a necessity for epithelial to mesenchymal transition in human breast cancer.

scientific article

Meta-analysis and gene set enrichment relative to er status reveal elevated activity of MYC and E2F in the "basal" breast cancer subgroup

scientific article

Method optimisation for peptide profiling of microdissected breast carcinoma tissue by matrix-assisted laser desorption/ionisation-time of flight and matrix-assisted laser desorption/ionisation-time of flight/time of flight-mass spectrometry

scientific article published in July 2005

MicroRNA-30c expression level is an independent predictor of clinical benefit of endocrine therapy in advanced estrogen receptor positive breast cancer

scientific article published on 19 May 2010

Mobile DNA in cancer. Extensive transduction of nonrepetitive DNA mediated by L1 retrotransposition in cancer genomes

scientific article

Molecular characteristics of circulating tumor cells resemble the liver metastasis more closely than the primary tumor in metastatic colorectal cancer

scientific article published on 20 June 2016

Molecular classification of tamoxifen-resistant breast carcinomas by gene expression profiling

scientific article published in February 2005

Multicenter validation of a gene expression-based prognostic signature in lymph node-negative primary breast cancer.

scientific article published on 27 February 2006

NanoLC-FT-ICR MS improves proteome coverage attainable for approximately 3000 laser-microdissected breast carcinoma cells

scientific article published in January 2007

Optimized nLC-MS workflow for laser capture microdissected breast cancer tissue ⬇️

scientific article published on January 24, 2012

Partially methylated domains are hypervariable in breast cancer and fuel widespread CpG island hypermethylation

article

Pathway analysis of gene signatures predicting metastasis of node-negative primary breast cancer

scientific article

Phosphoserine aminotransferase 1 is associated to poor outcome on tamoxifen therapy in recurrent breast cancer

scientific article published on 18 May 2017

Pooled analysis of prognostic impact of uPA and PAI-1 in breast cancer patients

scientific article published on 01 September 2003

Pooled analysis of prognostic impact of urokinase-type plasminogen activator and its inhibitor PAI-1 in 8377 breast cancer patients

scientific article published on 01 January 2002

Predicting prognosis using molecular profiling in estrogen receptor-positive breast cancer treated with tamoxifen

scientific article

Primary tumor levels of tissue inhibitor of metalloproteinases-1 are predictive of resistance to chemotherapy in patients with metastatic breast cancer

scientific article published on 17 November 2006

Production of P-glycoprotein from the MDR1 upstream promoter is insufficient to affect the response to first-line chemotherapy in advanced breast cancer

scientific article published on 01 March 2008

Prognostic Impact of HER2 and ER Status of Circulating Tumor Cells in Metastatic Breast Cancer Patients with a HER2-Negative Primary Tumor

scientific article published on 17 October 2016

Prognostic significance of nuclear expression of UMP-CMP kinase in triple negative breast cancer patients.

scientific article published on 25 August 2016

Prognostic value of plasminogen activator inhibitor-1 in head and neck squamous cell carcinoma

scientific article

Proper genomic profiling of (BRCA1-mutated) basal-like breast carcinomas requires prior removal of tumor infiltrating lymphocytes.

scientific article published on 13 January 2015

Proteomic characterization of microdissected breast tissue environment provides a protein-level overview of malignant transformation

scientific article

Proteomics Pipeline for Biomarker Discovery of Laser Capture Microdissected Breast Cancer Tissue ⬇️

scientific article published on May 30, 2012

RNA expression of breast cancer resistance protein, lung resistance-related protein, multidrug resistance-associated proteins 1 and 2, and multidrug resistance gene 1 in breast cancer: correlation with chemotherapeutic response.

scientific article

Relevance of breast cancer antiestrogen resistance genes in human breast cancer progression and tamoxifen resistance

scientific article

Selection of bone metastasis seeds by mesenchymal signals in the primary tumor stroma.

scientific article published on August 2013

Selective recruitment of breast cancer anti-estrogen resistance genes and relevance for breast cancer progression and tamoxifen therapy response

scientific article

Strong time dependence of the 76-gene prognostic signature for node-negative breast cancer patients in the TRANSBIG multicenter independent validation series

scientific article published in June 2007

Targeted MS Assay Predicting Tamoxifen Resistance in Estrogen-Receptor-Positive Breast Cancer Tissues and Sera.

scientific article

The 29.5 kb APOBEC3B Deletion Polymorphism Is Not Associated with Clinical Outcome of Breast Cancer

scientific article

The 76-gene signature defines high-risk patients that benefit from adjuvant tamoxifen therapy.

scientific article published on 23 September 2008

The CYP2C19*2 genotype predicts tamoxifen treatment outcome in advanced breast cancer patients

scientific article published on 10 August 2011

The DNA cytosine deaminase APOBEC3B promotes tamoxifen resistance in ER-positive breast cancer.

scientific article published on 07 October 2016

The Prevalence of CD146 Expression in Breast Cancer Subtypes and Its Relation to Outcome.

scientific article published on 5 May 2018

The circular RNome of primary breast cancer

scientific article published on 28 January 2019

The prognostic value of BCAR1 in patients with primary breast cancer.

scientific article published on September 2004

The prognostic value of polymorphonuclear leukocyte elastase in patients with primary breast cancer.

scientific article

The use of genomic tools for the molecular understanding of breast cancer and to guide personalized medicine

scientific article

Tumor cell migration screen identifies SRPK1 as breast cancer metastasis determinant

scientific article

Tumor tissue levels of Tissue Inhibitor of Metalloproteinases-1 (TIMP-1) and outcome following adjuvant chemotherapy in premenopausal lymph node-positive breast cancer patients: A retrospective study

scientific article published on 10 September 2009

Tumor tissue levels of tissue inhibitor of metalloproteinase-1 as a prognostic marker in primary breast cancer

scientific article published in April 2004

Urokinase receptor splice variant uPAR-del4/5-associated gene expression in breast cancer: identification of rab31 as an independent prognostic factor

scientific article published on 20 October 2007

Urokinase-type plasminogen activator and its inhibitor type 1 predict disease outcome and therapy response in primary breast cancer

scientific article

Urokinase-type plasminogen activator system in breast cancer: association with tamoxifen therapy in recurrent disease

scientific article

Which cyclin E prevails as prognostic marker for breast cancer? Results from a retrospective study involving 635 lymph node-negative breast cancer patients

scientific article published on 01 June 2006

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