Journal Article
. 2010 Sep;16(21).
doi: 10.1158/1078-0432.CCR-10-1282.

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

Torsten O Nielsen 1 Joel S Parker  Samuel Leung  David Voduc  Mark Ebbert  Tammi Vickery  Sherri R Davies  Jacqueline Snider  Inge J Stijleman  Jerry Reed  Maggie C U Cheang  Elaine R Mardis  Charles M Perou  Philip S Bernard  Matthew J Ellis  
  • PMID: 20837693
  •     33 References
  •     282 citations


Purpose: To compare clinical, immunohistochemical (IHC), and gene expression models of prognosis applicable to formalin-fixed, paraffin-embedded blocks in a large series of estrogen receptor (ER)-positive breast cancers from patients uniformly treated with adjuvant tamoxifen.

Experimental Design: Quantitative real-time reverse transcription-PCR (qRT-PCR) assays for 50 genes identifying intrinsic breast cancer subtypes were completed on 786 specimens linked to clinical (median follow-up, 11.7 years) and IHC [ER, progesterone receptor (PR), HER2, and Ki67] data. Performance of predefined intrinsic subtype and risk-of-relapse scores was assessed using multivariable Cox models and Kaplan-Meier analysis. Harrell's C-index was used to compare fixed models trained in independent data sets, including proliferation signatures.

Results: Despite clinical ER positivity, 10% of cases were assigned to nonluminal subtypes. qRT-PCR signatures for proliferation genes gave more prognostic information than clinical assays for hormone receptors or Ki67. In Cox models incorporating standard prognostic variables, hazard ratios for breast cancer disease-specific survival over the first 5 years of follow-up, relative to the most common luminal A subtype, are 1.99 [95% confidence interval (CI), 1.09-3.64] for luminal B, 3.65 (95% CI, 1.64-8.16) for HER2-enriched subtype, and 17.71 (95% CI, 1.71-183.33) for the basal-like subtype. For node-negative disease, PAM50 qRT-PCR-based risk assignment weighted for tumor size and proliferation identifies a group with >95% 10-year survival without chemotherapy. In node-positive disease, PAM50-based prognostic models were also superior.

Conclusion: The PAM50 gene expression test for intrinsic biological subtype can be applied to large series of formalin-fixed, paraffin-embedded breast cancers, and gives more prognostic information than clinical factors and IHC using standard cut points.

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Mol Oncol, 2014 Mar 19; 8(3). PMID: 24630985    Free PMC article.
A microRNA signature associated with early recurrence in breast cancer.
Luis G Pérez-Rivas, José M Jerez, +9 authors, José Lozano.
PLoS One, 2014 Mar 19; 9(3). PMID: 24632820    Free PMC article.
Systematic assessment of prognostic gene signatures for breast cancer shows distinct influence of time and ER status.
Xi Zhao, Einar Andreas Rødland, +5 authors, Anne-Lise Børresen-Dale.
BMC Cancer, 2014 Mar 22; 14. PMID: 24645668    Free PMC article.
Estrogen receptor-positive breast cancer molecular signatures and therapeutic potentials (Review).
Mei Hong Zhang, Hong Tao Man, +2 authors, Shi Liang Ma.
Biomed Rep, 2014 Mar 22; 2(1). PMID: 24649067    Free PMC article.
High concordance of protein (by IHC), gene (by FISH; HER2 only), and microarray readout (by TargetPrint) of ER, PgR, and HER2: results from the EORTC 10041/BIG 03-04 MINDACT trial.
G Viale, L Slaets, +11 authors, TRANSBIG Consortium & the MINDACT Investigators.
Ann Oncol, 2014 Mar 29; 25(4). PMID: 24667714    Free PMC article.
Clinical validation of the EndoPredict test in node-positive, chemotherapy-treated ER+/HER2- breast cancer patients: results from the GEICAM 9906 trial.
Miguel Martin, Jan C Brase, +15 authors, Alvaro Rodriguez-Lescure.
Breast Cancer Res, 2014 Apr 15; 16(2). PMID: 24725534    Free PMC article.
Multigene Assays for Classification, Prognosis, and Prediction in Breast Cancer: a Critical Review on the Background and Clinical Utility.
P Sinn, S Aulmann, +6 authors, A Schneeweiss.
Geburtshilfe Frauenheilkd, 2014 Apr 29; 73(9). PMID: 24771945    Free PMC article.
Polarity gene alterations in pure invasive micropapillary carcinomas of the breast.
Nadège Gruel, Vanessa Benhamo, +10 authors, Anne Vincent-Salomon.
Breast Cancer Res, 2014 Jun 03; 16(3). PMID: 24887297    Free PMC article.
Late recurrences in early breast cancer: for whom and how long is endocrine therapy beneficial?
Michael Knauer, Martin Filipits, Peter Dubsky.
Breast Care (Basel), 2014 Jun 20; 9(2). PMID: 24944551    Free PMC article.
Proposed new clinicopathological surrogate definitions of luminal A and luminal B (HER2-negative) intrinsic breast cancer subtypes.
Patrick Maisonneuve, Davide Disalvatore, +10 authors, Aron Goldhirsch.
Breast Cancer Res, 2014 Jun 22; 16(3). PMID: 24951027    Free PMC article.
A functional interplay between ZNF217 and estrogen receptor alpha exists in luminal breast cancers.
Nhan T Nguyen, Julie A Vendrell, +8 authors, Pascale A Cohen.
Mol Oncol, 2014 Jun 29; 8(8). PMID: 24973012    Free PMC article.
TBCRC 018: phase II study of iniparib in combination with irinotecan to treat progressive triple negative breast cancer brain metastases.
Carey Anders, Allison M Deal, +21 authors, Lisa A Carey.
Breast Cancer Res Treat, 2014 Jul 09; 146(3). PMID: 25001612    Free PMC article.
Systematically defining single-gene determinants of response to neoadjuvant chemotherapy reveals specific biomarkers.
Agnieszka K Witkiewicz, Uthra Balaji, Erik S Knudsen.
Clin Cancer Res, 2014 Jul 23; 20(18). PMID: 25047707    Free PMC article.
Predicting response and survival in chemotherapy-treated triple-negative breast cancer.
A Prat, A Lluch, +35 authors, E Alba.
Br J Cancer, 2014 Aug 08; 111(8). PMID: 25101563    Free PMC article.
Multiplatform analysis of 12 cancer types reveals molecular classification within and across tissues of origin.
Katherine A Hoadley, Christina Yau, +30 authors, Joshua M Stuart.
Cell, 2014 Aug 12; 158(4). PMID: 25109877    Free PMC article.
Highly Cited.
Molecular features and survival outcomes of the intrinsic subtypes within HER2-positive breast cancer.
Aleix Prat, Lisa A Carey, +6 authors, José Baselga.
J Natl Cancer Inst, 2014 Aug 21; 106(8). PMID: 25139534    Free PMC article.
Highly Cited.
Age-specific changes in intrinsic breast cancer subtypes: a focus on older women.
Emily O Jenkins, Allison M Deal, +4 authors, Hyman B Muss.
Oncologist, 2014 Aug 22; 19(10). PMID: 25142841    Free PMC article.
Molecular subtyping predicts pathologic tumor response in early-stage breast cancer treated with neoadjuvant docetaxel plus capecitabine with or without trastuzumab chemotherapy.
Soley Bayraktar, Melanie Royce, +2 authors, Stefan Glück.
Med Oncol, 2014 Sep 05; 31(10). PMID: 25186065
Genome-based risk prediction for early stage breast cancer.
Christina Adaniel, Komal Jhaveri, Adriana Heguy, Francisco J Esteva.
Oncologist, 2014 Sep 05; 19(10). PMID: 25187476    Free PMC article.
Long non-coding RNAs differentially expressed between normal versus primary breast tumor tissues disclose converse changes to breast cancer-related protein-coding genes.
Kristin Reiche, Katharina Kasack, +9 authors, Lars O Baumbusch.
PLoS One, 2014 Sep 30; 9(9). PMID: 25264628    Free PMC article.
Differentiation and loss of malignant character of spontaneous pulmonary metastases in patient-derived breast cancer models.
Jessica Bockhorn, Aleix Prat, +9 authors, Huiping Liu.
Cancer Res, 2014 Oct 24; 74(24). PMID: 25339353    Free PMC article.
Lymphocyte Invasion in IC10/Basal-Like Breast Tumors Is Associated with Wild-Type TP53.
David Quigley, Laxmi Silwal-Pandit, +10 authors, Vessela Kristensen.
Mol Cancer Res, 2014 Oct 30; 13(3). PMID: 25351767    Free PMC article.
Estrogen receptor expression is high but is of lower intensity in tubular carcinoma than in well-differentiated invasive ductal carcinoma.
Julie M Jorns, Dafydd G Thomas, +7 authors, Daniel W Visscher.
Arch Pathol Lab Med, 2014 Oct 31; 138(11). PMID: 25357113    Free PMC article.
Emerging gene-based prognostic tools in early breast cancer: First steps to personalised medicine.
Umar Wazir, Kefah Mokbel.
World J Clin Oncol, 2014 Dec 11; 5(5). PMID: 25493218    Free PMC article.
Association of survivin splice variants with prognosis and treatment of breast cancer.
Anastasia Pavlidou, Christos Kroupis, Kleanthi Dimas.
World J Clin Oncol, 2014 Dec 11; 5(5). PMID: 25493226    Free PMC article.
Lack of effect of metformin on mammary carcinogenesis in nondiabetic rat and mouse models.
Matthew D Thompson, Clinton J Grubbs, +10 authors, Ronald A Lubet.
Cancer Prev Res (Phila), 2015 Feb 15; 8(3). PMID: 25681088    Free PMC article.
Gene expression-based classifications of fibroadenomas and phyllodes tumours of the breast.
Maria Vidal, Vicente Peg, +5 authors, Aleix Prat.
Mol Oncol, 2015 Feb 18; 9(6). PMID: 25687451    Free PMC article.
Combining functional genomics strategies identifies modular heterogeneity of breast cancer intrinsic subtypes.
Nima Pouladi, Richard Cowper-Sallari, Jason H Moore.
BioData Min, 2014 Jan 01; 7. PMID: 25745517    Free PMC article.
Integrated analysis of DNA methylation, immunohistochemistry and mRNA expression, data identifies a methylation expression index (MEI) robustly associated with survival of ER-positive breast cancer patients.
Jonine D Figueroa, Howard Yang, +6 authors, Maxwell Lee.
Breast Cancer Res Treat, 2015 Mar 17; 150(2). PMID: 25773928    Free PMC article.
Breast Cancer Update 2014 - Focus on the Patient and the Tumour.
N Maass, F Schütz, +7 authors, M P Lux.
Geburtshilfe Frauenheilkd, 2015 Mar 24; 75(2). PMID: 25797960    Free PMC article.
[Molecular pathology for breast cancer: Importance of the gene expression profile].
C Denkert, B M Pfitzner, B I Heppner, M Dietel.
Pathologe, 2015 Apr 04; 36(2). PMID: 25836324
TBCRC009: A Multicenter Phase II Clinical Trial of Platinum Monotherapy With Biomarker Assessment in Metastatic Triple-Negative Breast Cancer.
Steven J Isakoff, Erica L Mayer, +16 authors, Leif W Ellisen.
J Clin Oncol, 2015 Apr 08; 33(17). PMID: 25847936    Free PMC article.
Highly Cited.
Markers for the identification of late breast cancer recurrence.
Ivana Sestak, Jack Cuzick.
Breast Cancer Res, 2015 Apr 08; 17. PMID: 25848913    Free PMC article.
Association of high obesity with PAM50 breast cancer intrinsic subtypes and gene expression.
Marilyn L Kwan, Candyce H Kroenke, +10 authors, Bette J Caan.
BMC Cancer, 2015 Apr 18; 15. PMID: 25884832    Free PMC article.
Quantification of HER family receptors in breast cancer.
Paolo Nuciforo, Nina Radosevic-Robin, Tony Ng, Maurizio Scaltriti.
Breast Cancer Res, 2015 Apr 19; 17. PMID: 25887735    Free PMC article.
Gene expression profiling of sequential metastatic biopsies for biomarker discovery in breast cancer.
Theodoros Foukakis, John Lövrot, +6 authors, Jonas Bergh.
Mol Oncol, 2015 Apr 19; 9(7). PMID: 25888067    Free PMC article.
Defining breast cancer intrinsic subtypes by quantitative receptor expression.
Maggie C U Cheang, Miguel Martin, +21 authors, Lisa A Carey.
Oncologist, 2015 Apr 25; 20(5). PMID: 25908555    Free PMC article.
Tailoring therapies--improving the management of early breast cancer: St Gallen International Expert Consensus on the Primary Therapy of Early Breast Cancer 2015.
A S Coates, E P Winer, +6 authors, Panel Members.
Ann Oncol, 2015 May 06; 26(8). PMID: 25939896    Free PMC article.
Highly Cited.
Identification of Novel Breast Cancer Subtype-Specific Biomarkers by Integrating Genomics Analysis of DNA Copy Number Aberrations and miRNA-mRNA Dual Expression Profiling.
Dongguo Li, Hong Xia, +2 authors, Lin Li.
Biomed Res Int, 2015 May 12; 2015. PMID: 25961039    Free PMC article.
MicroRNA networks regulated by all-trans retinoic acid and Lapatinib control the growth, survival and motility of breast cancer cells.
James Neil Fisher, Mineko Terao, +9 authors, Enrico Garattini.
Oncotarget, 2015 May 12; 6(15). PMID: 25961594    Free PMC article.
Peritoneal tumor spread in serous ovarian cancer-epithelial mesenchymal status and outcome.
Katharina Auer, Anna Bachmayr-Heyda, +6 authors, Dietmar Pils.
Oncotarget, 2015 May 21; 6(19). PMID: 25991672    Free PMC article.
From bench to bedside: What do we know about hormone receptor-positive and human epidermal growth factor receptor 2-positive breast cancer?
Victoria Shang Wu, Noriko Kanaya, +2 authors, Shiuan Chen.
J Steroid Biochem Mol Biol, 2015 May 23; 153. PMID: 25998416    Free PMC article.
Challenges in the management of advanced, ER-positive, HER2-negative breast cancer.
Christopher D Hart, Ilenia Migliaccio, +3 authors, Angelo Di Leo.
Nat Rev Clin Oncol, 2015 May 27; 12(9). PMID: 26011489
Plasma Autoantibodies Associated with Basal-like Breast Cancers.
Jie Wang, Jonine D Figueroa, +7 authors, Joshua LaBaer.
Cancer Epidemiol Biomarkers Prev, 2015 Jun 14; 24(9). PMID: 26070530    Free PMC article.
The Discovery of Novel Biomarkers Improves Breast Cancer Intrinsic Subtype Prediction and Reconciles the Labels in the METABRIC Data Set.
Heloisa Helena Milioli, Renato Vimieiro, +3 authors, Pablo Moscato.
PLoS One, 2015 Jul 02; 10(7). PMID: 26132585    Free PMC article.
Optimal approach in early breast cancer: Adjuvant and neoadjuvant treatment.
J Ribeiro, B Sousa, F Cardoso.
EJC Suppl, 2013 Sep 01; 11(2). PMID: 26217109    Free PMC article.
Low expression of ITIH5 in adenocarcinoma of the lung is associated with unfavorable patients' outcome.
Magnus Mathias Dötsch, Vera Kloten, +6 authors, Edgar Dahl.
Epigenetics, 2015 Aug 08; 10(10). PMID: 26252352    Free PMC article.
Targeting BCL-2 to enhance vulnerability to therapy in estrogen receptor-positive breast cancer.
D Merino, S W Lok, J E Visvader, G J Lindeman.
Oncogene, 2015 Aug 11; 35(15). PMID: 26257067
Deletion of the BMP receptor BMPR1a impairs mammary tumor formation and metastasis.
Michael W Pickup, Laura D Hover, +5 authors, Philip Owens.
Oncotarget, 2015 Aug 15; 6(26). PMID: 26274893    Free PMC article.
Exometabolom analysis of breast cancer cell lines: Metabolic signature.
Lucas Willmann, Thalia Erbes, +7 authors, Bernd Kammerer.
Sci Rep, 2015 Aug 22; 5. PMID: 26293811    Free PMC article.
Development and verification of the PAM50-based Prosigna breast cancer gene signature assay.
Brett Wallden, James Storhoff, +16 authors, Joel S Parker.
BMC Med Genomics, 2015 Aug 25; 8. PMID: 26297356    Free PMC article.
Highly Cited.
SEOM clinical guidelines in early-stage breast cancer 2015.
J A Garcia-Saenz, B Bermejo, +7 authors, E Ciruelos.
Clin Transl Oncol, 2015 Oct 27; 17(12). PMID: 26497356    Free PMC article.
Identifying patients at high risk of breast cancer recurrence: strategies to improve patient outcomes.
Yehoda M Martei, Jennifer M Matro.
Breast Cancer (Dove Med Press), 2015 Oct 28; 7. PMID: 26504408    Free PMC article.
Breast cancer metastasis and the lymphatic system.
Munazzah Rahman, Sulma Mohammed.
Oncol Lett, 2015 Dec 02; 10(3). PMID: 26622656    Free PMC article.
Intrinsic subtypes and genomic signatures of primary breast cancer and prognosis after systemic relapse.
Claudette Falato, Nicholas P Tobin, +3 authors, Theodoros Foukakis.
Mol Oncol, 2015 Dec 15; 10(4). PMID: 26651914    Free PMC article.
TP53 Mutational Analysis Enhances the Prognostic Accuracy of IHC4 and PAM50 Assays.
Ching-Hung Lin, I-Chiun Chen, +11 authors, Ann-Lii Cheng.
Sci Rep, 2015 Dec 17; 5. PMID: 26671300    Free PMC article.
Response and survival of breast cancer intrinsic subtypes following multi-agent neoadjuvant chemotherapy.
Aleix Prat, Cheng Fan, +11 authors, Charles M Perou.
BMC Med, 2015 Dec 20; 13. PMID: 26684470    Free PMC article.
Performance of Three-Biomarker Immunohistochemistry for Intrinsic Breast Cancer Subtyping in the AMBER Consortium.
Emma H Allott, Stephanie M Cohen, +19 authors, Melissa A Troester.
Cancer Epidemiol Biomarkers Prev, 2015 Dec 30; 25(3). PMID: 26711328    Free PMC article.
Discordant assessment of tumor biomarkers by histopathological and molecular assays in the EORTC randomized controlled 10041/BIG 03-04 MINDACT trial breast cancer : Intratumoral heterogeneity and DCIS or normal tissue components are unlikely to be the cause of discordance.
Giuseppe Viale, Leen Slaets, +9 authors, Fatima Cardoso.
Breast Cancer Res Treat, 2016 Jan 29; 155(3). PMID: 26820652    Free PMC article.
Expression of eag1 channel associated with the aggressive clinicopathological features and subtype of breast cancer.
Guang-Xu Liu, Yun-Cui Yu, +4 authors, Yan He.
Int J Clin Exp Pathol, 2016 Jan 30; 8(11). PMID: 26823849    Free PMC article.
Changes in intrinsic subtype of breast cancer during tumor progression in the same patient.
Chungyeul Kim, Jungjoo Lee, Wonyoung Lee, Aeree Kim.
Int J Clin Exp Pathol, 2016 Jan 30; 8(11). PMID: 26823864    Free PMC article.
Study design requirements for RNA sequencing-based breast cancer diagnostics.
Arvind Singh Mer, Daniel Klevebring, Henrik Grönberg, Mattias Rantalainen.
Sci Rep, 2016 Feb 03; 6. PMID: 26830453    Free PMC article.
Immune Signatures Following Single Dose Trastuzumab Predict Pathologic Response to PreoperativeTrastuzumab and Chemotherapy in HER2-Positive Early Breast Cancer.
Vinay Varadan, Hannah Gilmore, +11 authors, Lyndsay N Harris.
Clin Cancer Res, 2016 Feb 05; 22(13). PMID: 26842237    Free PMC article.
Targeted therapies with companion diagnostics in the management of breast cancer: current perspectives.
Meagan B Myers.
Pharmgenomics Pers Med, 2016 Feb 10; 9. PMID: 26858530    Free PMC 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.
Miguel Martin, Jan C Brase, +15 authors, Alvaro Rodriguez-Lescure.
Breast Cancer Res Treat, 2016 Feb 26; 156(1). PMID: 26909792    Free PMC article.
Signatures of breast cancer metastasis at a glance.
George S Karagiannis, Sumanta Goswami, +2 authors, John S Condeelis.
J Cell Sci, 2016 Apr 17; 129(9). PMID: 27084578    Free PMC article.
Nottingham prognostic index plus (NPI+) predicts risk of distant metastases in primary breast cancer.
Andrew R Green, D Soria, +9 authors, I O Ellis.
Breast Cancer Res Treat, 2016 Apr 27; 157(1). PMID: 27116185    Free PMC article.
Comparing Breast Cancer Multiparameter Tests in the OPTIMA Prelim Trial: No Test Is More Equal Than the Others.
John M S Bartlett, Jane Bayani, +18 authors, OPTIMA TMG.
J Natl Cancer Inst, 2016 May 01; 108(9). PMID: 27130929    Free PMC article.
High prevalence of luminal B breast cancer intrinsic subtype in Colombian women.
Silvia Juliana Serrano-Gomez, Maria Carolina Sanabria-Salas, +7 authors, Jovanny Zabaleta.
Carcinogenesis, 2016 May 22; 37(7). PMID: 27207651    Free PMC article.
Prognostic Impact of the Combination of Recurrence Score and Quantitative Estrogen Receptor Expression (ESR1) on Predicting Late Distant Recurrence Risk in Estrogen Receptor-Positive Breast Cancer After 5 Years of Tamoxifen: Results From NRG Oncology/National Surgical Adjuvant Breast and Bowel Project B-28 and B-14.
Norman Wolmark, Eleftherios P Mamounas, +6 authors, Soonmyung Paik.
J Clin Oncol, 2016 May 25; 34(20). PMID: 27217450    Free PMC article.
The Role of Proliferation in Determining Response to Neoadjuvant Chemotherapy in Breast Cancer: A Gene Expression-Based Meta-Analysis.
Daniel G Stover, Jonathan L Coloff, +3 authors, Laura M Selfors.
Clin Cancer Res, 2016 Jun 23; 22(24). PMID: 27330058    Free PMC article.
An international study comparing conventional versus mRNA level testing (TargetPrint) for ER, PR, and HER2 status of breast cancer.
Jelle Wesseling, Corrado Tinterri, +16 authors, Pino Cusumano.
Virchows Arch, 2016 Jul 06; 469(3). PMID: 27377889
Abundant NDRG2 Expression Is Associated with Aggressiveness and Unfavorable Patients' Outcome in Basal-Like Breast Cancer.
Vera Kloten, Martin Schlensog, +7 authors, Edgar Dahl.
PLoS One, 2016 Jul 12; 11(7). PMID: 27400234    Free PMC article.
Comparison of EndoPredict and EPclin With Oncotype DX Recurrence Score for Prediction of Risk of Distant Recurrence After Endocrine Therapy.
Richard Buus, Ivana Sestak, +7 authors, Mitch Dowsett.
J Natl Cancer Inst, 2016 Jul 13; 108(11). PMID: 27400969    Free PMC article.
Highly Cited.
Retrospective analysis of molecular scores for the prediction of distant recurrence according to baseline risk factors.
Ivana Sestak, Mitch Dowsett, +2 authors, Jack Cuzick.
Breast Cancer Res Treat, 2016 Jul 23; 159(1). PMID: 27447876    Free PMC article.
Performance of automated scoring of ER, PR, HER2, CK5/6 and EGFR in breast cancer tissue microarrays in the Breast Cancer Association Consortium.
William J Howat, Fiona M Blows, +49 authors, Montserrat García-Closas.
J Pathol Clin Res, 2015 Jan 01; 1(1). PMID: 27499890    Free PMC article.
Nottingham Prognostic Index Plus: Validation of a clinical decision making tool in breast cancer in an independent series.
Andrew R Green, Daniele Soria, +13 authors, Ian O Ellis.
J Pathol Clin Res, 2016 Aug 09; 2(1). PMID: 27499914    Free PMC article.
Tumour hypoxia causes DNA hypermethylation by reducing TET activity.
Bernard Thienpont, Jessica Steinbacher, +16 authors, Diether Lambrechts.
Nature, 2016 Aug 18; 537(7618). PMID: 27533040    Free PMC article.
Highly Cited.
Reliable gene expression profiling of formalin-fixed paraffin-embedded breast cancer tissue (FFPE) using cDNA-mediated annealing, extension, selection, and ligation whole-genome (DASL WG) assay.
Mahesh Iddawela, Oscar M Rueda, +3 authors, Carlos Caldas.
BMC Med Genomics, 2016 Aug 21; 9(1). PMID: 27542606    Free PMC article.
CrossLink: a novel method for cross-condition classification of cancer subtypes.
Chifeng Ma, Konduru S Sastry, +7 authors, Yufei Huang.
BMC Genomics, 2016 Aug 25; 17 Suppl 7. PMID: 27556419    Free PMC article.
From High-Throughput Microarray-Based Screening to Clinical Application: The Development of a Second Generation Multigene Test for Breast Cancer Prognosis.
Jan C Brase, Ralf Kronenwett, +2 authors, Marcus Schmidt.
Microarrays (Basel), 2013 Jan 01; 2(3). PMID: 27605191    Free PMC article.
Proximal and distal regulation of the HYAL1 gene cluster by the estrogen receptor α in breast cancer cells.
Lydia Edjekouane, Samira Benhadjeba, +4 authors, André Tremblay.
Oncotarget, 2016 Oct 21; 7(47). PMID: 27764788    Free PMC article.
A novel quantitative immunohistochemistry method for precise protein measurements directly in formalin-fixed, paraffin-embedded specimens: analytical performance measuring HER2.
Kristian Jensen, Rikke Krusenstjerna-Hafstrøm, +2 authors, Helene Derand.
Mod Pathol, 2016 Oct 22; 30(2). PMID: 27767098
Circular RNAs and their associations with breast cancer subtypes.
Asha A Nair, Nifang Niu, +5 authors, Krishna R Kalari.
Oncotarget, 2016 Nov 10; 7(49). PMID: 27829232    Free PMC article.
Highly Cited.
The molecular basis of breast cancer pathological phenotypes.
Yujing J Heng, Susan C Lester, +26 authors, Andrew H Beck.
J Pathol, 2016 Nov 20; 241(3). PMID: 27861902    Free PMC article.
Hormonal Modulation of Breast Cancer Gene Expression: Implications for Intrinsic Subtyping in Premenopausal Women.
Sarah M Bernhardt, Pallave Dasari, +3 authors, Wendy V Ingman.
Front Oncol, 2016 Nov 30; 6. PMID: 27896218    Free PMC article.
A PAM50-Based Chemoendocrine Score for Hormone Receptor-Positive Breast Cancer with an Intermediate Risk of Relapse.
Aleix Prat, Ana Lluch, +22 authors, Emilio Alba.
Clin Cancer Res, 2016 Dec 03; 23(12). PMID: 27903675    Free PMC article.
Detection of gene copy number alterations in DCIS and invasive breast cancer by QM-FISH.
Aifeng Pan, Yawei Zhou, +4 authors, Li Li.
Am J Transl Res, 2016 Dec 03; 8(11). PMID: 27904700    Free PMC article.
Do Patients with Luminal A Breast Cancer Profit from Adjuvant Systemic Therapy? A Retrospective Multicenter Study.
Joachim Diessner, Manfred Wischnewsky, +8 authors, Achim Wöckel.
PLoS One, 2016 Dec 20; 11(12). PMID: 27992550    Free PMC article.
An mRNA Gene Expression-Based Signature to Identify FGFR1-Amplified Estrogen Receptor-Positive Breast Tumors.
Jingqin Luo, Shuzhen Liu, +11 authors, Matthew J Ellis.
J Mol Diagn, 2016 Dec 21; 19(1). PMID: 27993329    Free PMC article.
Fewer Reoperations After Lumpectomy for Breast Cancer with Neoadjuvant Rather than Adjuvant Chemotherapy: A Report from the National Cancer Database.
Jeffrey Landercasper, Barbara Bennie, +4 authors, Jared H Linebarger.
Ann Surg Oncol, 2017 Jan 08; 24(6). PMID: 28062931    Free PMC article.
Individualized Breast Cancer Characterization through Single-Cell Analysis of Tumor and Adjacent Normal Cells.
Manjushree Anjanappa, Angelo Cardoso, +8 authors, Harikrishna Nakshatri.
Cancer Res, 2017 Mar 03; 77(10). PMID: 28249895    Free PMC article.
Intrinsic Subtypes and Gene Expression Profiles in Primary and Metastatic Breast Cancer.
Juan M Cejalvo, Eduardo Martínez de Dueñas, +24 authors, Aleix Prat.
Cancer Res, 2017 Mar 03; 77(9). PMID: 28249905    Free PMC article.
Highly Cited.
NeoPalAna: Neoadjuvant Palbociclib, a Cyclin-Dependent Kinase 4/6 Inhibitor, and Anastrozole for Clinical Stage 2 or 3 Estrogen Receptor-Positive Breast Cancer.
Cynthia X Ma, Feng Gao, +31 authors, Matthew J Ellis.
Clin Cancer Res, 2017 Mar 09; 23(15). PMID: 28270497    Free PMC article.
Highly Cited.
Integrin-β4 identifies cancer stem cell-enriched populations of partially mesenchymal carcinoma cells.
Brian Bierie, Sarah E Pierce, +8 authors, Robert A Weinberg.
Proc Natl Acad Sci U S A, 2017 Mar 09; 114(12). PMID: 28270621    Free PMC article.
Highly Cited.
A new molecular prognostic score for predicting the risk of distant metastasis in patients with HR+/HER2- early breast cancer.
Gyungyub Gong, Mi Jeong Kwon, +15 authors, Young Kee Shin.
Sci Rep, 2017 Mar 30; 7. PMID: 28350001    Free PMC article.
Network Analysis Reveals A Signaling Regulatory Loop in the PIK3CA-mutated Breast Cancer Predicting Survival Outcome.
Shauna R McGee, Chabane Tibiche, Mark Trifiro, Edwin Wang.
Genomics Proteomics Bioinformatics, 2017 Apr 11; 15(2). PMID: 28392480    Free PMC article.
Highly Cited.
S100β as a serum marker in endocrine resistant breast cancer.
Sara Charmsaz, Éamon Hughes, +10 authors, Leonie S Young.
BMC Med, 2017 Apr 13; 15(1). PMID: 28399921    Free PMC article.
MMP11 and CD2 as novel prognostic factors in hormone receptor-negative, HER2-positive breast cancer.
Jinil Han, Yoon-La Choi, +11 authors, Young Kee Shin.
Breast Cancer Res Treat, 2017 Apr 15; 164(1). PMID: 28409241    Free PMC article.
Gene regulatory pattern analysis reveals essential role of core transcriptional factors' activation in triple-negative breast cancer.
Li Min, Cheng Zhang, +6 authors, Chengchao Shou.
Oncotarget, 2017 Apr 21; 8(13). PMID: 28423538    Free PMC article.
Clinical utility of gene-expression signatures in early stage breast cancer.
Maryann Kwa, Andreas Makris, Francisco J Esteva.
Nat Rev Clin Oncol, 2017 Jun 01; 14(10). PMID: 28561071
Highly Cited. Review.
Development of a Ki-67-based clinical trial assay for neoadjuvant endocrine therapy response monitoring in breast cancer.
Rodrigo Goncalves, Katherine DeSchryver, +11 authors, Matthew J Ellis.
Breast Cancer Res Treat, 2017 Jun 15; 165(2). PMID: 28612227    Free PMC article.
Insights from Global Analyses of Long Noncoding RNAs in Breast Cancer.
Andrew J Warburton, David N Boone.
Curr Pathobiol Rep, 2017 Jun 16; 5(1). PMID: 28616363    Free PMC article.
Materials and microfluidics: enabling the efficient isolation and analysis of circulating tumour cells.
Joshua M Jackson, Małgorzata A Witek, Joyce W Kamande, Steven A Soper.
Chem Soc Rev, 2017 Jun 21; 46(14). PMID: 28632258    Free PMC article.
Molecular stratification of early breast cancer identifies drug targets to drive stratified medicine.
Jane Bayani, Cindy Q Yao, +13 authors, John M S Bartlett.
NPJ Breast Cancer, 2017 Jun 27; 3. PMID: 28649643    Free PMC article.
PAM50 gene signatures and breast cancer prognosis with adjuvant anthracycline- and taxane-based chemotherapy: correlative analysis of C9741 (Alliance).
Minetta C Liu, Brandelyn N Pitcher, +20 authors, William T Barry.
NPJ Breast Cancer, 2016 Jan 01; 2. PMID: 28691057    Free PMC article.
Integrative analysis of copy number and gene expression in breast cancer using formalin-fixed paraffin-embedded core biopsy tissue: a feasibility study.
Mahesh Iddawela, Oscar Rueda, +4 authors, Carlos Caldas.
BMC Genomics, 2017 Jul 13; 18(1). PMID: 28697743    Free PMC article.
South African Breast Cancer and HIV Outcomes Study: Methods and Baseline Assessment.
Herbert Cubasch, Paul Ruff, +13 authors, Alfred I Neugut.
J Glob Oncol, 2017 Jul 15; 3(2). PMID: 28706996    Free PMC article.
VGLL4 Selectively Represses YAP-Dependent Gene Induction and Tumorigenic Phenotypes in Breast Cancer.
Yinglong Zhang, He Shen, +8 authors, Jianmin Zhang.
Sci Rep, 2017 Jul 25; 7(1). PMID: 28733631    Free PMC article.
Identifying Biomarkers to Select Patients with Early Breast Cancer Suitable for Extended Adjuvant Endocrine Therapy.
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Breast Care (Basel), 2017 Aug 09; 12(3). PMID: 28785181    Free PMC article.
Racial Differences in PAM50 Subtypes in the Carolina Breast Cancer Study.
Melissa A Troester, Xuezheng Sun, +16 authors, Charles M Perou.
J Natl Cancer Inst, 2017 Sep 02; 110(2). PMID: 28859290    Free PMC article.
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Alberto Peláez-García, Laura Yébenes, +9 authors, David Hardisson.
PLoS One, 2017 Sep 09; 12(9). PMID: 28886093    Free PMC article.
Gene Expression Signatures and Immunohistochemical Subtypes Add Prognostic Value to Each Other in Breast Cancer Cohorts.
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Clin Cancer Res, 2017 Oct 04; 23(24). PMID: 28972043    Free PMC article.
Use of 21-gene recurrence score assay to individualize adjuvant chemotherapy recommendations in ER+/HER2- node positive breast cancer-A National Cancer Database study.
Prema P Peethambaram, Tanya L Hoskin, +3 authors, Judy C Boughey.
NPJ Breast Cancer, 2017 Oct 27; 3. PMID: 29067357    Free PMC article.
Impact of tumoral carbonic anhydrase IX and Ki-67 expression on survival in oral squamous cell carcinoma patients.
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Oncol Lett, 2017 Nov 04; 14(5). PMID: 29098033    Free PMC article.
Prediagnostic Smoking Is Associated with Binary and Quantitative Measures of ER Protein and ESR1 mRNA Expression in Breast Tumors.
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Cancer Epidemiol Biomarkers Prev, 2017 Nov 15; 27(1). PMID: 29133365    Free PMC article.
Prognostic value of PAM50 and risk of recurrence score in patients with early-stage breast cancer with long-term follow-up.
Hege O Ohnstad, Elin Borgen, +11 authors, Bjørn Naume.
Breast Cancer Res, 2017 Nov 16; 19(1). PMID: 29137653    Free PMC article.
A tissue microRNA signature that predicts the prognosis of breast cancer in young women.
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PLoS One, 2017 Nov 16; 12(11). PMID: 29141042    Free PMC article.
Nestin expression in breast cancer: association with prognosis and subtype on 3641 cases with long-term follow-up.
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Breast Cancer Res Treat, 2017 Nov 22; 168(1). PMID: 29159761    Free PMC article.
Measurement of molecular biomarkers that predict the tumor response in estrogen receptor-positive breast cancers after dose-dense (biweekly) paclitaxel/carboplatin neoadjuvant chemotherapy.
Teng Zhu, Fangping Xu, +5 authors, Kun Wang.
Oncotarget, 2017 Dec 20; 8(60). PMID: 29254147    Free PMC article.
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Can Interrogation of Tumour Characteristics Lead us to Safely Omit Adjuvant Radiotherapy in Patients with Early Breast Cancer?
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Clin Oncol (R Coll Radiol), 2018 Jan 15; 30(3). PMID: 29331262    Free PMC article.
Benefit of the addition of hormone therapy to neoadjuvant anthracycline-based chemotherapy for breast cancer: comparison of predicted and observed pCR.
Daniele Generali, Silvia Paola Corona, +6 authors, Albane Frati.
J Cancer Res Clin Oncol, 2018 Jan 19; 144(3). PMID: 29344722
Immune gene expression and response to chemotherapy in advanced breast cancer.
Theodoros Foukakis, John Lövrot, +14 authors, Thomas Hatschek.
Br J Cancer, 2018 Jan 26; 118(4). PMID: 29370583    Free PMC article.
A study of association of Oncotype DX recurrence score with DCE-MRI characteristics using multivariate machine learning models.
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J Cancer Res Clin Oncol, 2018 Feb 11; 144(5). PMID: 29427210    Free PMC article.
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PLoS Comput Biol, 2018 Feb 23; 14(2). PMID: 29470520    Free PMC article.
A hierarchical prognostic model for risk stratification in patients with early breast cancer according to 18 F-fludeoxyglucose uptake and clinicopathological parameters.
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Cancer Med, 2018 Feb 27; 7(4). PMID: 29479851    Free PMC article.
Expression of reactive species related genes is associated with patient survival in luminal B breast cancer.
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Free Radic Biol Med, 2018 Mar 17; 120. PMID: 29545070    Free PMC article.
Pathway-Based Analysis of Genome-Wide Association Data Identified SNPs in HMMR as Biomarker for Chemotherapy- Induced Neutropenia in Breast Cancer Patients.
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Front Pharmacol, 2018 Mar 30; 9. PMID: 29593529    Free PMC article.
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PLoS One, 2018 Mar 30; 13(3). PMID: 29596496    Free PMC article.
PAM50 and Risk of Recurrence Scores for Interval Breast Cancers.
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Cancer Prev Res (Phila), 2018 Apr 07; 11(6). PMID: 29622545    Free PMC article.
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Noncoding RNA, 2018 Apr 17; 3(4). PMID: 29657297    Free PMC article.
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Breast Cancer Res, 2018 Apr 19; 20(1). PMID: 29665859    Free PMC article.
Integration of Clinical Variables for the Prediction of Late Distant Recurrence in Patients With Estrogen Receptor-Positive Breast Cancer Treated With 5 Years of Endocrine Therapy: CTS5.
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J Clin Oncol, 2018 Apr 21; 36(19). PMID: 29676944    Free PMC article.
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South Asian J Cancer, 2018 May 04; 7(2). PMID: 29721478    Free PMC article.
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Genes (Basel), 2018 May 19; 9(5). PMID: 29772837    Free PMC article.
Protein-coding genes combined with long noncoding RNA as a novel transcriptome molecular staging model to predict the survival of patients with esophageal squamous cell carcinoma.
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Cancer Commun (Lond), 2018 May 23; 38(1). PMID: 29784063    Free PMC article.
Quantitative nuclear histomorphometry predicts oncotype DX risk categories for early stage ER+ breast cancer.
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BMC Cancer, 2018 Jun 01; 18(1). PMID: 29848291    Free PMC article.
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Sci Rep, 2018 Jun 16; 8(1). PMID: 29904148    Free PMC article.
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PLoS One, 2018 Jul 07; 13(7). PMID: 29979736    Free PMC article.
The Prosigna gene expression assay and responsiveness to adjuvant cyclophosphamide-based chemotherapy in premenopausal high-risk patients with breast cancer.
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Breast Cancer Res, 2018 Jul 29; 20(1). PMID: 30053900    Free PMC article.
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J Mol Med (Berl), 2018 Aug 03; 96(10). PMID: 30069746
APOBEC3B gene expression as a novel predictive factor for pathological complete response to neoadjuvant chemotherapy in breast cancer.
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Breast Cancer Res, 2018 Sep 07; 20(1). PMID: 30185216    Free PMC article.
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Oncoimmunology, 2018 Nov 06; 7(10). PMID: 30386679    Free PMC article.
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Sci Rep, 2018 Nov 14; 8(1). PMID: 30420728    Free PMC article.
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Deciphering HER2 Breast Cancer Disease: Biological and Clinical Implications.
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Front Oncol, 2019 Nov 19; 9. PMID: 31737566    Free PMC article.
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Ki-67 Expression is a Significant Prognostic Factor Only When Progesterone Receptor Expression is Low in Estrogen Receptor-Positive and HER2-Negative Early Breast Cancer.
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J Oncol, 2020 Jan 25; 2019. PMID: 31975992    Free PMC article.
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J Cancer, 2020 Feb 13; 11(6). PMID: 32047563    Free PMC article.
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FOXM1 Deubiquitination by USP21 Regulates Cell Cycle Progression and Paclitaxel Sensitivity in Basal-like Breast Cancer.
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