Journal Article
. 2015 Aug; 8:54.
doi: 10.1186/s12920-015-0129-6.

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

Brett Wallden 1 James Storhoff 2 Torsten Nielsen 3 Naeem Dowidar 4 Carl Schaper 5 Sean Ferree 6 Shuzhen Liu 7 Samuel Leung 8 Gary Geiss 9 Jacqueline Snider 10 Tammi Vickery 11 Sherri R Davies 12 Elaine R Mardis 13 Michael Gnant 14 Ivana Sestak 15 Matthew J Ellis 16 Charles M Perou 17 Philip S Bernard 18 Joel S Parker 19 
  • PMID: 26297356
  •     52 References
  •     127 citations


Background: The four intrinsic subtypes of breast cancer, defined by differential expression of 50 genes (PAM50), have been shown to be predictive of risk of recurrence and benefit of hormonal therapy and chemotherapy. Here we describe the development of Prosigna™, a PAM50-based subtype classifier and risk model on the NanoString nCounter Dx Analysis System intended for decentralized testing in clinical laboratories.

Methods: 514 formalin-fixed, paraffin-embedded (FFPE) breast cancer patient samples were used to train prototypical centroids for each of the intrinsic subtypes of breast cancer on the NanoString platform. Hierarchical cluster analysis of gene expression data was used to identify the prototypical centroids defined in previous PAM50 algorithm training exercises. 304 FFPE patient samples from a well annotated clinical cohort in the absence of adjuvant systemic therapy were then used to train a subtype-based risk model (i.e. Prosigna ROR score). 232 samples from a tamoxifen-treated patient cohort were used to verify the prognostic accuracy of the algorithm prior to initiating clinical validation studies.

Results: The gene expression profiles of each of the four Prosigna subtype centroids were consistent with those previously published using the PCR-based PAM50 method. Similar to previously published classifiers, tumor samples classified as Luminal A by Prosigna had the best prognosis compared to samples classified as one of the three higher-risk tumor subtypes. The Prosigna Risk of Recurrence (ROR) score model was verified to be significantly associated with prognosis as a continuous variable and to add significant information over both commonly available IHC markers and Adjuvant! Online.

Conclusions: The results from the training and verification data sets show that the FDA-cleared and CE marked Prosigna test provides an accurate estimate of the risk of distant recurrence in hormone receptor positive breast cancer and is also capable of identifying a tumor's intrinsic subtype that is consistent with the previously published PCR-based PAM50 assay. Subsequent analytical and clinical validation studies confirm the clinical accuracy and technical precision of the Prosigna PAM50 assay in a decentralized setting.

PAM50 proliferation score as a predictor of weekly paclitaxel benefit in breast cancer.
Miguel Martín, Aleix Prat, +24 authors, Philip S Bernard.
Breast Cancer Res Treat, 2013 Feb 21; 138(2). PMID: 23423445    Free PMC article.
Met induces diverse mammary carcinomas in mice and is associated with human basal breast cancer.
Carrie R Graveel, Jack D DeGroot, +12 authors, George F Vande Woude.
Proc Natl Acad Sci U S A, 2009 Jul 02; 106(31). PMID: 19567831    Free PMC article.
Direct multiplexed measurement of gene expression with color-coded probe pairs.
Gary K Geiss, Roger E Bumgarner, +18 authors, Krassen Dimitrov.
Nat Biotechnol, 2008 Feb 19; 26(3). PMID: 18278033
Highly Cited.
A diagnostic gene profile for molecular subtyping of breast cancer associated with treatment response.
Oscar Krijgsman, Paul Roepman, +6 authors, Annuska M Glas.
Breast Cancer Res Treat, 2011 Aug 05; 133(1). PMID: 21814749
Determining cell-of-origin subtypes of diffuse large B-cell lymphoma using gene expression in formalin-fixed paraffin-embedded tissue.
David W Scott, George W Wright, +21 authors, Lisa M Rimsza.
Blood, 2014 Jan 09; 123(8). PMID: 24398326    Free PMC article.
Highly Cited.
The PAM50 risk-of-recurrence score predicts risk for late distant recurrence after endocrine therapy in postmenopausal women with endocrine-responsive early breast cancer.
Martin Filipits, Torsten O Nielsen, +22 authors, Austrian Breast and Colorectal Cancer Study Group.
Clin Cancer Res, 2014 Feb 13; 20(5). PMID: 24520097
PAM50 breast cancer subtyping by RT-qPCR and concordance with standard clinical molecular markers.
Roy R L Bastien, Álvaro Rodríguez-Lescure, +29 authors, Miguel Martín.
BMC Med Genomics, 2012 Oct 06; 5. PMID: 23035882    Free PMC article.
Highly Cited.
Comparison of PAM50 risk of recurrence score with oncotype DX and IHC4 for predicting risk of distant recurrence after endocrine therapy.
Mitch Dowsett, Ivana Sestak, +7 authors, Jack Cuzick.
J Clin Oncol, 2013 Jul 03; 31(22). PMID: 23816962
Highly Cited.
Multivariable prognostic models: issues in developing models, evaluating assumptions and adequacy, and measuring and reducing errors.
F E Harrell, K L Lee, D B Mark.
Stat Med, 1996 Feb 28; 15(4). PMID: 8668867
Highly Cited. Review.
mRNA transcript quantification in archival samples using multiplexed, color-coded probes.
Patricia P Reis, Levi Waldron, +7 authors, Suzanne Kamel-Reid.
BMC Biotechnol, 2011 May 10; 11. PMID: 21549012    Free PMC article.
Highly Cited.
Supervised risk predictor of breast cancer based on intrinsic subtypes.
Joel S Parker, Michael Mullins, +17 authors, Philip S Bernard.
J Clin Oncol, 2009 Feb 11; 27(8). PMID: 19204204    Free PMC article.
Highly Cited.
Molecular portraits of human breast tumours.
C M Perou, T Sørlie, +15 authors, D Botstein.
Nature, 2000 Aug 30; 406(6797). PMID: 10963602
Highly Cited.
A 13-gene signature prognostic of HPV-negative OSCC: discovery and external validation.
Pawadee Lohavanichbutr, Eduardo Méndez, +8 authors, Chu Chen.
Clin Cancer Res, 2013 Jan 16; 19(5). PMID: 23319825    Free PMC article.
Systematic bias in genomic classification due to contaminating non-neoplastic tissue in breast tumor samples.
Fathi Elloumi, Zhiyuan Hu, +4 authors, Melissa A Troester.
BMC Med Genomics, 2011 Jul 02; 4. PMID: 21718502    Free PMC article.
Molecular characterization of basal-like and non-basal-like triple-negative breast cancer.
Aleix Prat, Barbara Adamo, +3 authors, Charles M Perou.
Oncologist, 2013 Feb 14; 18(2). PMID: 23404817    Free PMC article.
Highly Cited. Review.
A new molecular predictor of distant recurrence in ER-positive, HER2-negative breast cancer adds independent information to conventional clinical risk factors.
Martin Filipits, Margaretha Rudas, +25 authors, EP Investigators.
Clin Cancer Res, 2011 Aug 03; 17(18). PMID: 21807638
Highly Cited.
Penalized likelihood in Cox regression.
P J Verweij, H C Van Houwelingen.
Stat Med, 1994 Dec 15; 13(23-24). PMID: 7701144
Predicting distant recurrence in receptor-positive breast cancer patients with limited clinicopathological risk: using the PAM50 Risk of Recurrence score in 1478 postmenopausal patients of the ABCSG-8 trial treated with adjuvant endocrine therapy alone.
M Gnant, M Filipits, +22 authors, Austrian Breast and Colorectal Cancer Study Group.
Ann Oncol, 2013 Dec 19; 25(2). PMID: 24347518
Highly Cited.
Personalizing the treatment of women with early breast cancer: highlights of the St Gallen International Expert Consensus on the Primary Therapy of Early Breast Cancer 2013.
A Goldhirsch, E P Winer, +5 authors, Panel members.
Ann Oncol, 2013 Aug 07; 24(9). PMID: 23917950    Free PMC article.
Highly Cited.
Responsiveness of intrinsic subtypes to adjuvant anthracycline substitution in the NCIC.CTG MA.5 randomized trial.
Maggie C U Cheang, K David Voduc, +15 authors, Torsten O Nielsen.
Clin Cancer Res, 2012 Feb 22; 18(8). PMID: 22351696    Free PMC article.
PAM50 assay and the three-gene model for identifying the major and clinically relevant molecular subtypes of breast cancer.
A Prat, J S Parker, C Fan, C M Perou.
Breast Cancer Res Treat, 2012 Jul 04; 135(1). PMID: 22752290    Free PMC article.
TFRC and ACTB as the best reference genes to quantify Urokinase Plasminogen Activator in breast cancer.
Keivan Majidzadeh-A, Rezvan Esmaeili, Nasrin Abdoli.
BMC Res Notes, 2011 Jun 28; 4. PMID: 21702980    Free PMC article.
Use of archived specimens in evaluation of prognostic and predictive biomarkers.
Richard M Simon, Soonmyung Paik, Daniel F Hayes.
J Natl Cancer Inst, 2009 Oct 10; 101(21). PMID: 19815849    Free PMC article.
Highly Cited.
Assessment of Ki67 in breast cancer: recommendations from the International Ki67 in Breast Cancer working group.
Mitch Dowsett, Torsten O Nielsen, +19 authors, International Ki-67 in Breast Cancer Working Group.
J Natl Cancer Inst, 2011 Oct 01; 103(22). PMID: 21960707    Free PMC article.
Highly Cited.
Repeated observation of breast tumor subtypes in independent gene expression data sets.
Therese Sorlie, Robert Tibshirani, +13 authors, David Botstein.
Proc Natl Acad Sci U S A, 2003 Jun 28; 100(14). PMID: 12829800    Free PMC article.
Highly Cited.
PAM50 breast cancer intrinsic subtypes and effect of gemcitabine in advanced breast cancer patients.
Charlotte L T Jørgensen, Torsten O Nielsen, +5 authors, Bent Ejlertsen.
Acta Oncol, 2013 Dec 24; 53(6). PMID: 24359601
Trial assessing individualized options for treatment for breast cancer: the TAILORx trial.
Jo Anne Zujewski, Leah Kamin.
Future Oncol, 2008 Oct 17; 4(5). PMID: 18922117
A comparison of PAM50 intrinsic subtyping with immunohistochemistry and clinical prognostic factors in tamoxifen-treated estrogen receptor-positive breast cancer.
Torsten O Nielsen, Joel S Parker, +12 authors, Matthew J Ellis.
Clin Cancer Res, 2010 Sep 15; 16(21). PMID: 20837693    Free PMC article.
Highly Cited.
The molecular portraits of breast tumors are conserved across microarray platforms.
Zhiyuan Hu, Cheng Fan, +28 authors, Charles M Perou.
BMC Genomics, 2006 Apr 29; 7. PMID: 16643655    Free PMC article.
Highly Cited.
An international Ki67 reproducibility study.
Mei-Yin C Polley, Samuel C Y Leung, +16 authors, International Ki67 in Breast Cancer Working Group of the Breast International Group and North American Breast Cancer Group.
J Natl Cancer Inst, 2013 Nov 10; 105(24). PMID: 24203987    Free PMC article.
Highly Cited.
Analytical validation of the PAM50-based Prosigna Breast Cancer Prognostic Gene Signature Assay and nCounter Analysis System using formalin-fixed paraffin-embedded breast tumor specimens.
Torsten Nielsen, Brett Wallden, +7 authors, James Storhoff.
BMC Cancer, 2014 Mar 15; 14. PMID: 24625003    Free PMC article.
Highly Cited.
A genomic and clinical prognostic index for hepatitis C-related early-stage cirrhosis that predicts clinical deterioration.
Lindsay Y King, Claudia Canasto-Chibuque, +20 authors, Yujin Hoshida.
Gut, 2014 Aug 22; 64(8). PMID: 25143343    Free PMC article.
Is molecular profiling ready for use in clinical decision making?
John P A Ioannidis.
Oncologist, 2007 Apr 05; 12(3). PMID: 17405894
Research-based PAM50 subtype predictor identifies higher responses and improved survival outcomes in HER2-positive breast cancer in the NOAH study.
Aleix Prat, Giampaolo Bianchini, +13 authors, José Baselga.
Clin Cancer Res, 2014 Jan 21; 20(2). PMID: 24443618
Highly Cited.
Gene expression profiles of estrogen receptor-positive and estrogen receptor-negative breast cancers are detectable in histologically normal breast epithelium.
Kelly Graham, Xijin Ge, +2 authors, Carol L Rosenberg.
Clin Cancer Res, 2010 Nov 10; 17(2). PMID: 21059815    Free PMC article.
Gene expression and benefit of chemotherapy in women with node-negative, estrogen receptor-positive breast cancer.
Soonmyung Paik, Gong Tang, +11 authors, Norman Wolmark.
J Clin Oncol, 2006 May 25; 24(23). PMID: 16720680
Highly Cited.
A multigene assay to predict recurrence of tamoxifen-treated, node-negative breast cancer.
Soonmyung Paik, Steven Shak, +12 authors, Norman Wolmark.
N Engl J Med, 2004 Dec 14; 351(27). PMID: 15591335
Highly Cited.
Nanostring-based multigene assay to predict recurrence for gastric cancer patients after surgery.
Jeeyun Lee, Insuk Sohn, +20 authors, Sung Kim.
PLoS One, 2014 Mar 07; 9(3). PMID: 24598828    Free PMC article.
The External RNA Controls Consortium: a progress report.
Shawn C Baker, Steven R Bauer, +51 authors, External RNA Controls Consortium.
Nat Methods, 2005 Sep 24; 2(10). PMID: 16179916
Highly Cited.
Intraclass correlations: uses in assessing rater reliability.
P E Shrout, J L Fleiss.
Psychol Bull, 1979 Mar 01; 86(2). PMID: 18839484
Highly Cited. Review.
American society of clinical oncology/college of american pathologists guideline recommendations for immunohistochemical testing of estrogen and progesterone receptors in breast cancer.
M Elizabeth H Hammond, Daniel F Hayes, +2 authors, Sarah Temin.
J Oncol Pract, 2010 Nov 03; 6(4). PMID: 21037871    Free PMC article.
Highly Cited.
Absolute assignment of breast cancer intrinsic molecular subtype.
Eric R Paquet, Michael T Hallett.
J Natl Cancer Inst, 2014 Dec 07; 107(1). PMID: 25479802
Ki67 index, HER2 status, and prognosis of patients with luminal B breast cancer.
Maggie C U Cheang, Stephen K Chia, +10 authors, Torsten O Nielsen.
J Natl Cancer Inst, 2009 May 14; 101(10). PMID: 19436038    Free PMC article.
Highly Cited.
A gene-expression signature as a predictor of survival in breast cancer.
Marc J van de Vijver, Yudong D He, +18 authors, René Bernards.
N Engl J Med, 2002 Dec 20; 347(25). PMID: 12490681
Highly Cited.
Molecular subtyping for clinically defined breast cancer subgroups.
Xi Zhao, Einar Andreas Rødland, Robert Tibshirani, Sylvia Plevritis.
Breast Cancer Res, 2015 Apr 08; 17. PMID: 25849221    Free PMC article.
A 50-gene intrinsic subtype classifier for prognosis and prediction of benefit from adjuvant tamoxifen.
Stephen K Chia, Vivien H Bramwell, +12 authors, Torsten O Nielsen.
Clin Cancer Res, 2012 Jun 20; 18(16). PMID: 22711706    Free PMC article.
Highly Cited.
Recommendations for human epidermal growth factor receptor 2 testing in breast cancer: American Society of Clinical Oncology/College of American Pathologists clinical practice guideline update.
Antonio C Wolff, M Elizabeth H Hammond, +19 authors, College of American Pathologists.
J Clin Oncol, 2013 Oct 09; 31(31). PMID: 24101045
Highly Cited.
Clinical application of the 70-gene profile: the MINDACT trial.
Fatima Cardoso, Laura Van't Veer, +3 authors, Martine J Piccart-Gebhart.
J Clin Oncol, 2008 Feb 09; 26(5). PMID: 18258980
Highly Cited.
Factors predicting late recurrence for estrogen receptor-positive breast cancer.
Ivana Sestak, Mitch Dowsett, +4 authors, Jack Cuzick.
J Natl Cancer Inst, 2013 Sep 14; 105(19). PMID: 24029245    Free PMC article.
Highly Cited.
Statistical modeling for selecting housekeeper genes.
Aniko Szabo, Charles M Perou, +4 authors, Philip S Bernard.
Genome Biol, 2004 Aug 04; 5(8). PMID: 15287981    Free PMC article.
Gene expression patterns of breast carcinomas distinguish tumor subclasses with clinical implications.
T Sørlie, C M Perou, +14 authors, A L Børresen-Dale.
Proc Natl Acad Sci U S A, 2001 Sep 13; 98(19). PMID: 11553815    Free PMC article.
Highly Cited.
Prediction of benefit from chemotherapy in ER-positive/HER2-negative breast cancer--a problem still to be solved.
M Schmidt, M Untch.
Ann Oncol, 2014 Feb 07; 25(3). PMID: 24500980    Free PMC article.
Translating RNA sequencing into clinical diagnostics: opportunities and challenges.
Sara A Byron, Kendall R Van Keuren-Jensen, +2 authors, David W Craig.
Nat Rev Genet, 2016 Mar 22; 17(5). PMID: 26996076    Free PMC article.
Highly Cited. Review.
Chromatin Regulators as a Guide for Cancer Treatment Choice.
Zachary A Gurard-Levin, Laurence O W Wilson, +9 authors, Geneviève Almouzni.
Mol Cancer Ther, 2016 May 20; 15(7). PMID: 27196757    Free PMC article.
Consensus of gene expression phenotypes and prognostic risk predictors in primary lung adenocarcinoma.
Markus Ringnér, Johan Staaf.
Oncotarget, 2016 Jul 21; 7(33). PMID: 27437773    Free PMC article.
ESR1 and PGR polymorphisms are associated with estrogen and progesterone receptor expression in breast tumors.
Daniel L Hertz, N Lynn Henry, +12 authors, James M Rae.
Physiol Genomics, 2016 Aug 21; 48(9). PMID: 27542969    Free PMC article.
Prognostic Value of a BCSC-associated MicroRNA Signature in Hormone Receptor-Positive HER2-Negative Breast Cancer.
Chang Gong, Weige Tan, +16 authors, Erwei Song.
EBioMedicine, 2016 Aug 28; 11. PMID: 27566954    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.
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.
Comparison of triple-negative breast cancer molecular subtyping using RNA from matched fresh-frozen versus formalin-fixed paraffin-embedded tissue.
Bojana Jovanović, Quanhu Sheng, +8 authors, Brian D Lehmann.
BMC Cancer, 2017 Apr 06; 17(1). PMID: 28376728    Free PMC article.
Limitations in predicting PAM50 intrinsic subtype and risk of relapse score with Ki67 in estrogen receptor-positive HER2-negative breast cancer.
Aranzazu Fernandez-Martinez, Tomás Pascual, +30 authors, Miguel Martin.
Oncotarget, 2017 Apr 21; 8(13). PMID: 28423537    Free PMC article.
Associations of Luminal and Basal Subtyping of Prostate Cancer With Prognosis and Response to Androgen Deprivation Therapy.
Shuang G Zhao, S Laura Chang, +25 authors, Felix Y Feng.
JAMA Oncol, 2017 May 12; 3(12). PMID: 28494073    Free PMC article.
Highly Cited.
Improved prediction of PARP inhibitor response and identification of synergizing agents through use of a novel gene expression signature generation algorithm.
Daniel J McGrail, Curtis Chun-Jen Lin, +11 authors, Shiaw-Yih Lin.
NPJ Syst Biol Appl, 2017 Jun 27; 3. PMID: 28649435    Free PMC article.
Internet tools to enhance breast cancer care.
Shlomit Strulov Shachar, Hyman B Muss.
NPJ Breast Cancer, 2016 Apr 27; 2. PMID: 28721377    Free PMC article.
Integrating RNA sequencing into neuro-oncology practice.
David S Rogawski, Nicholas A Vitanza, +2 authors, Carl Koschmann.
Transl Res, 2017 Jul 27; 189. PMID: 28746860    Free PMC article.
Treg depletion potentiates checkpoint inhibition in claudin-low breast cancer.
Nicholas A Taylor, Sarah C Vick, +10 authors, Jonathan S Serody.
J Clin Invest, 2017 Aug 22; 127(9). PMID: 28825599    Free PMC article.
Highly Cited.
Male breast cancer: correlation between immunohistochemical subtyping and PAM50 intrinsic subtypes, and the subsequent clinical outcomes.
Alfonso Sánchez-Muñoz, Luis Vicioso, +12 authors, Emilio Alba.
Mod Pathol, 2017 Oct 07; 31(2). PMID: 28984296
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.
Reliable Biomarkers to Identify New and Recurrent Cancer.
Edward R Sauter.
Eur J Breast Health, 2017 Oct 31; 13(4). PMID: 29082372    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.
Intra-tumor heterogeneity in breast cancer has limited impact on transcriptomic-based molecular profiling.
Govindasamy-Muralidharan Karthik, Mattias Rantalainen, +9 authors, Johan Hartman.
BMC Cancer, 2017 Dec 01; 17(1). PMID: 29187174    Free PMC article.
microRNA Expression in Ethnic Specific Early Stage Breast Cancer: an Integration and Comparative Analysis.
Farah J Nassar, Rabih Talhouk, +15 authors, Rihab Nasr.
Sci Rep, 2017 Dec 06; 7(1). PMID: 29203780    Free PMC article.
Tissue-based biomarkers in prostate cancer.
Timothy N Clinton, Aditya Bagrodia, +3 authors, Solomon L Woldu.
Expert Rev Precis Med Drug Dev, 2017 Dec 12; 2(5). PMID: 29226251    Free PMC article.
Optimization of RNA Extraction from Formalin-Fixed Paraffin-Embedded Blocks for Targeted Next-Generation Sequencing.
Yoojin Choi, Aeree Kim, +3 authors, Chungyeul Kim.
J Breast Cancer, 2017 Dec 30; 20(4). PMID: 29285045    Free PMC article.
Upper Respiratory Symptoms, Gut Health and Mucosal Immunity in Athletes.
Candice Colbey, Amanda J Cox, +3 authors, Nicholas P West.
Sports Med, 2018 Jan 25; 48(Suppl 1). PMID: 29363055    Free PMC article.
Luminal A Breast Cancer and Molecular Assays: A Review.
Jennifer J Gao, Sandra M Swain.
Oncologist, 2018 Feb 24; 23(5). PMID: 29472313    Free PMC article.
Integrated RNA and DNA sequencing reveals early drivers of metastatic breast cancer.
Marni B Siegel, Xiaping He, +18 authors, Charles M Perou.
J Clin Invest, 2018 Feb 27; 128(4). PMID: 29480819    Free PMC article.
Highly Cited.
Developing a genetic signature to predict drug response in ovarian cancer.
Stephen Hyter, Jeff Hirst, +5 authors, Andrew K Godwin.
Oncotarget, 2018 Mar 31; 9(19). PMID: 29599910    Free PMC article.
RNA Oncoimmune Phenotyping of HPV-Positive p16-Positive Oropharyngeal Squamous Cell Carcinomas by Nodal Status.
Wesley H Stepp, Douglas Farquhar, +5 authors, Jose P Zevallos.
JAMA Otolaryngol Head Neck Surg, 2018 May 02; 144(11). PMID: 29710215    Free PMC article.
TGFβ signaling limits lineage plasticity in prostate cancer.
Yi Hao, Glen A Bjerke, +5 authors, David Wotton.
PLoS Genet, 2018 May 22; 14(5). PMID: 29782499    Free PMC article.
Patient Similarity Networks for Precision Medicine.
Shraddha Pai, Gary D Bader.
J Mol Biol, 2018 Jun 04; 430(18 Pt A). PMID: 29860027    Free PMC article.
AR negative triple negative or "quadruple negative" breast cancers in African American women have an enriched basal and immune signature.
Melissa Davis, Shweta Tripathi, +8 authors, Clayton Yates.
PLoS One, 2018 Jun 19; 13(6). PMID: 29912871    Free PMC article.
High-accuracy determination of internal circadian time from a single blood sample.
Nicole Wittenbrink, Bharath Ananthasubramaniam, +17 authors, Achim Kramer.
J Clin Invest, 2018 Jun 29; 128(9). PMID: 29953415    Free PMC article.
Highly Cited.
The Dilemma of HER2 Double-equivocal Breast Carcinomas: Genomic Profiling and Implications for Treatment.
Caterina Marchiò, Patrizia Dell'Orto, +23 authors, Anna Sapino.
Am J Surg Pathol, 2018 Jul 06; 42(9). PMID: 29975246    Free PMC article.
Gene Expression Detection Assay for Cancer Clinical Use.
Shavira Narrandes, Wayne Xu.
J Cancer, 2018 Jul 22; 9(13). PMID: 30026820    Free PMC article.
The Prosigna gene expression assay and responsiveness to adjuvant cyclophosphamide-based chemotherapy in premenopausal high-risk patients with breast cancer.
Maj-Britt Jensen, Anne-Vibeke Lænkholm, +7 authors, Bent Ejlertsen.
Breast Cancer Res, 2018 Jul 29; 20(1). PMID: 30053900    Free PMC article.
Microenvironmental immune cell signatures dictate clinical outcomes for PTCL-NOS.
Takeshi Sugio, Kohta Miyawaki, +8 authors, Koichi Akashi.
Blood Adv, 2018 Sep 09; 2(17). PMID: 30194138    Free PMC article.
An Effect of Culture Media on Epithelial Differentiation Markers in Breast Cancer Cell Lines MCF7, MDA-MB-436 and SkBr3.
Valdis Pirsko, Inese Cakstina, +6 authors, Edvins Miklasevics.
Medicina (Kaunas), 2018 Oct 23; 54(2). PMID: 30344242    Free PMC article.
Gene prioritization, communality analysis, networking and metabolic integrated pathway to better understand breast cancer pathogenesis.
Andrés López-Cortés, César Paz-Y-Miño, +6 authors, Eduardo Tejera.
Sci Rep, 2018 Nov 14; 8(1). PMID: 30420728    Free PMC article.
Methylation of LINE-1 in cell-free DNA serves as a liquid biopsy biomarker for human breast cancers and dog mammary tumors.
Kang-Hoon Lee, Tae-Jin Shin, Wan-Hee Kim, Je-Yoel Cho.
Sci Rep, 2019 Jan 19; 9(1). PMID: 30655558    Free PMC article.
Prospective Validation of a Transcriptomic Metric in Severe Trauma.
Steven L Raymond, Russell B Hawkins, +15 authors, Lyle L Moldawer.
Ann Surg, 2019 Jan 29; 271(5). PMID: 30688688    Free PMC article.
Agreement between molecular subtyping and surrogate subtype classification: a contemporary population-based study of ER-positive/HER2-negative primary breast cancer.
Christine Lundgren, Pär-Ola Bendahl, +15 authors, Maria Ekholm.
Breast Cancer Res Treat, 2019 Aug 23; 178(2). PMID: 31432367    Free PMC article.
A Predictor of Pathological Complete Response to Neoadjuvant Chemotherapy Stratifies Triple Negative Breast Cancer Patients with High Risk of Recurrence.
Marcia V Fournier, Edward C Goodwin, +3 authors, Adam M Brufsky.
Sci Rep, 2019 Oct 18; 9(1). PMID: 31619719    Free PMC article.
Region-specific glucocorticoid receptor promoter methylation has both positive and negative prognostic value in patients with estrogen receptor-positive breast cancer.
Hilary Snider, Brithica Villavarajan, +3 authors, Christopher R Mueller.
Clin Epigenetics, 2019 Nov 05; 11(1). PMID: 31675993    Free PMC article.
Droplet digital polymerase chain reaction offers an improvisation over conventional immunohistochemistry and fluorescent in situ hybridization for ascertaining Her2 status of breast cancer.
Moushumi Suryavanshi, Jiten Jaipuria, +8 authors, Bhudev C Das.
South Asian J Cancer, 2019 Dec 07; 8(4). PMID: 31807475    Free PMC article.
Decision of Adjuvant Systemic Treatment in HR+ HER2- Early Invasive Breast Cancer: Which Biomarkers Could Help?
Marie Alexandre, Aurélie Maran-Gonzalez, +6 authors, Séverine Guiu.
Cancer Manag Res, 2019 Dec 19; 11. PMID: 31849525    Free PMC article.
Review of applications of high-throughput sequencing in personalized medicine: barriers and facilitators of future progress in research and clinical application.
Gaye Lightbody, Valeriia Haberland, +4 authors, Jaine K Blayney.
Brief Bioinform, 2018 Aug 08; 20(5). PMID: 30084865    Free PMC article.
Microarray and RNA in situ hybridization assay for recurrence risk markers of breast carcinoma and ductal carcinoma in situ: Evidence supporting the use of diverse pathways panels.
Mark Francis Evans, Pamela Mary Vacek, +3 authors, Donald Lee Weaver.
J Cell Biochem, 2019 Oct 09; 121(2). PMID: 31595577    Free PMC article.
Comparing NGS and NanoString platforms in peripheral blood mononuclear cell transcriptome profiling for advanced heart failure biomarker development.
Galyna Bondar, Wenjie Xu, +6 authors, Mario C Deng.
J Biol Methods, 2020 Jan 25; 7(1). PMID: 31976350    Free PMC article.
A deep learning image-based intrinsic molecular subtype classifier of breast tumors reveals tumor heterogeneity that may affect survival.
Mustafa I Jaber, Bing Song, +5 authors, Christopher W Szeto.
Breast Cancer Res, 2020 Jan 30; 22(1). PMID: 31992350    Free PMC article.
Research-based PAM50 signature and long-term breast cancer survival.
Minya Pu, Karen Messer, +10 authors, Loki Natarajan.
Breast Cancer Res Treat, 2019 Sep 23; 179(1). PMID: 31542876    Free PMC article.
miRNAs and Long-term Breast Cancer Survival: Evidence from the WHEL Study.
Loki Natarajan, Minya Pu, +10 authors, Karen Messer.
Cancer Epidemiol Biomarkers Prev, 2019 Jun 13; 28(9). PMID: 31186261    Free PMC article.
Schwann cell transcript biomarkers for hereditary neuropathy skin biopsies.
John Svaren, John J Moran, +8 authors, Michael E Shy.
Ann Neurol, 2019 Apr 05; 85(6). PMID: 30945774    Free PMC article.
Analytical Validation of Multiplex Biomarker Assay to Stratify Colorectal Cancer into Molecular Subtypes.
Chanthirika Ragulan, Katherine Eason, +17 authors, Anguraj Sadanandam.
Sci Rep, 2019 May 23; 9(1). PMID: 31113981    Free PMC article.
Overexpression and alternative splicing of NF-YA in breast cancer.
Diletta Dolfini, Valentina Andrioletti, Roberto Mantovani.
Sci Rep, 2019 Sep 12; 9(1). PMID: 31506469    Free PMC article.
Carboplatin in BRCA1/2-mutated and triple-negative breast cancer BRCAness subgroups: the TNT Trial.
Andrew Tutt, Holly Tovey, +35 authors, Judith M Bliss.
Nat Med, 2018 May 02; 24(5). PMID: 29713086    Free PMC article.
Highly Cited.
The Prosigna 50-gene profile and responsiveness to adjuvant anthracycline-based chemotherapy in high-risk breast cancer patients.
Maj-Britt Jensen, Anne-Vibeke Lænkholm, +9 authors, Bent Ejlertsen.
NPJ Breast Cancer, 2020 Mar 07; 6. PMID: 32140564    Free PMC article.
A Human Adult Stem Cell Signature Marks Aggressive Variants across Epithelial Cancers.
Bryan A Smith, Nikolas G Balanis, +8 authors, Thomas G Graeber.
Cell Rep, 2018 Sep 21; 24(12). PMID: 30232014    Free PMC article.
A Gene Expression Classifier from Whole Blood Distinguishes Benign from Malignant Lung Nodules Detected by Low-Dose CT.
Andrew V Kossenkov, Rehman Qureshi, +18 authors, Louise C Showe.
Cancer Res, 2018 Nov 30; 79(1). PMID: 30487137    Free PMC article.
Pan-cancer analysis of transcriptional metabolic dysregulation using The Cancer Genome Atlas.
S R Rosario, M D Long, +3 authors, D J Smiraglia.
Nat Commun, 2018 Dec 16; 9(1). PMID: 30552315    Free PMC article.
Highly Cited.
PAM50 Molecular Intrinsic Subtypes in the Nurses' Health Study Cohorts.
Kevin H Kensler, Venkat N Sankar, +13 authors, Yujing J Heng.
Cancer Epidemiol Biomarkers Prev, 2018 Dec 29; 28(4). PMID: 30591591    Free PMC article.
Next generation sequencing of PD-L1 for predicting response to immune checkpoint inhibitors.
Jeffrey M Conroy, Sarabjot Pabla, +37 authors, Carl Morrison.
J Immunother Cancer, 2019 Jan 27; 7(1). PMID: 30678715    Free PMC article.
Integrating Germline and Somatic Mutation Information for the Discovery of Biomarkers in Triple-Negative Breast Cancer.
Jiande Wu, Tarun Karthik Kumar Mamidi, Lu Zhang, Chindo Hicks.
Int J Environ Res Public Health, 2019 Mar 27; 16(6). PMID: 30909550    Free PMC article.
Combined quantitative measures of ER, PR, HER2, and KI67 provide more prognostic information than categorical combinations in luminal breast cancer.
Mustapha Abubakar, Jonine Figueroa, +8 authors, Paul D Pharoah.
Mod Pathol, 2019 Apr 13; 32(9). PMID: 30976105    Free PMC article.
A new normalization for Nanostring nCounter gene expression data.
Ramyar Molania, Johann A Gagnon-Bartsch, Alexander Dobrovic, Terence P Speed.
Nucleic Acids Res, 2019 May 23; 47(12). PMID: 31114909    Free PMC article.
On-treatment biomarkers can improve prediction of response to neoadjuvant chemotherapy in breast cancer.
Richard J Bownes, Arran K Turnbull, +3 authors, Olga Oikonomidou.
Breast Cancer Res, 2019 Jun 16; 21(1). PMID: 31200764    Free PMC article.
GAIL: An interactive webserver for inference and dynamic visualization of gene-gene associations based on gene ontology guided mining of biomedical literature.
Daniel Couch, Zhenning Yu, +8 authors, Dongjun Chung.
PLoS One, 2019 Jul 02; 14(7). PMID: 31260503    Free PMC article.
Landscape of transcriptomic interactions between breast cancer and its microenvironment.
Natalie S Fox, Syed Haider, Adrian L Harris, Paul C Boutros.
Nat Commun, 2019 Jul 17; 10(1). PMID: 31308365    Free PMC article.
Acquisition of Invasiveness by Breast Adenocarcinoma Cells Engages Established Hallmarks and Novel Regulatory Mechanisms.
Hanaa Mousa, Mahmoud Elgamal, +3 authors, Serhiy Souchelnytskyi.
Cancer Genomics Proteomics, 2019 Oct 30; 16(6). PMID: 31659104    Free PMC article.
A Multigene Assay Determines Risk of Recurrence in Patients with Triple-Negative Breast Cancer.
Rachel L Stewart, Katherine L Updike, +4 authors, Katherine E Varley.
Cancer Res, 2019 May 03; 79(13). PMID: 31048497    Free PMC article.
Refinement of breast cancer molecular classification by miRNA expression profiles.
Rolf Søkilde, Helena Persson, +11 authors, Carlos Rovira.
BMC Genomics, 2019 Jun 19; 20(1). PMID: 31208318    Free PMC article.
Ductal Carcinoma In Situ Progression in Dog Model of Breast Cancer.
Sulma I Mohammed, Sagar Utturkar, +7 authors, Margaret A Miller.
Cancers (Basel), 2020 Feb 15; 12(2). PMID: 32053966    Free PMC article.
The orphan nuclear receptor estrogen-related receptor beta (ERRβ) in triple-negative breast cancer.
Aileen I Fernandez, Xue Geng, +9 authors, Rebecca B Riggins.
Breast Cancer Res Treat, 2019 Nov 20; 179(3). PMID: 31741180    Free PMC article.
Breast Cancer: A Molecularly Heterogenous Disease Needing Subtype-Specific Treatments.
Ugo Testa, Germana Castelli, Elvira Pelosi.
Med Sci (Basel), 2020 Mar 27; 8(1). PMID: 32210163    Free PMC article.
RDGN-based predictive model for the prognosis of breast cancer.
Bing Dong, Ming Yi, +2 authors, Kongming Wu.
Exp Hematol Oncol, 2020 Jun 19; 9. PMID: 32550045    Free PMC article.
Molecular determinants of drug response in TNBC cell lines.
Nathan M Merrill, Eric J Lachacz, +7 authors, Matthew B Soellner.
Breast Cancer Res Treat, 2019 Oct 28; 179(2). PMID: 31655920    Free PMC article.
A subset of activated fibroblasts is associated with distant relapse in early luminal breast cancer.
Claire Bonneau, Antoine Eliès, +9 authors, Fatima Mechta-Grigoriou.
Breast Cancer Res, 2020 Jul 16; 22(1). PMID: 32665033    Free PMC article.
Nodal positivity decreases with age in women with early-stage, hormone receptor-positive breast cancer.
Stephanie M Downs-Canner, Charles E Gaber, +4 authors, David W Ollila.
Cancer, 2019 Dec 21; 126(6). PMID: 31860136    Free PMC article.
Unraveling the Genomic-Epigenomic Interaction Landscape in Triple Negative and Non-Triple Negative Breast Cancer.
Jiande Wu, Tarun Karthik Kumar Mamidi, Lu Zhang, Chindo Hicks.
Cancers (Basel), 2020 Jun 18; 12(6). PMID: 32545594    Free PMC article.
Delineation of the Germline and Somatic Mutation Interaction Landscape in Triple-Negative and Non-Triple-Negative Breast Cancer.
Jiande Wu, Tarun K K Mamidi, Lu Zhang, Chindo Hicks.
Int J Genomics, 2020 Jul 30; 2020. PMID: 32724790    Free PMC article.
Overview of Breast Cancer and Implications of Overtreatment of Early-Stage Breast Cancer: An Indian Perspective.
Gouri Shankar Bhattacharyya, Dinesh C Doval, +3 authors, S P Somashekhar.
JCO Glob Oncol, 2020 Jun 09; 6. PMID: 32511068    Free PMC article.
Machine learning for RNA sequencing-based intrinsic subtyping of breast cancer.
Silvia Cascianelli, Ivan Molineris, +2 authors, Enzo Medico.
Sci Rep, 2020 Aug 23; 10(1). PMID: 32826944    Free PMC article.
FGFR4 regulates tumor subtype differentiation in luminal breast cancer and metastatic disease.
Susana Garcia-Recio, Aatish Thennavan, +22 authors, Charles M Perou.
J Clin Invest, 2020 Jun 24; 130(9). PMID: 32573490    Free PMC article.
Computational approaches to support comparative analysis of multiparametric tests: Modelling versus Training.
John M S Bartlett, Jane Bayani, +8 authors, OPTIMA Trial Management Group.
PLoS One, 2020 Sep 04; 15(9). PMID: 32881987    Free PMC article.
Association of germline variation with the survival of women with BRCA1/2 pathogenic variants and breast cancer.
Taru A Muranen, Sofia Khan, +41 authors, Heli Nevanlinna.
NPJ Breast Cancer, 2020 Sep 24; 6. PMID: 32964118    Free PMC article.
Quadruple Negative Breast Cancers (QNBC) Demonstrate Subtype Consistency among Primary and Recurrent or Metastatic Breast Cancer.
Anusha Angajala, Essynce Mothershed, +5 authors, Clayton Yates.
Transl Oncol, 2018 Dec 30; 12(3). PMID: 30594038    Free PMC article.
Profiling of Invasive Breast Carcinoma Circulating Tumour Cells-Are We Ready for the 'Liquid' Revolution?
Marcin Braun, Aleksandra Markiewicz, +2 authors, Hanna Romańska.
Cancers (Basel), 2019 Jan 30; 11(2). PMID: 30691008    Free PMC article.
Should a Multigene Signature be Used in all Luminal Early Breast Cancers.
Nawale Hajjaji, Yves Marie Robin, Jacques Bonneterre.
Front Oncol, 2019 Jun 20; 9. PMID: 31214499    Free PMC article.
BCScreen: A gene panel to test for breast carcinogenesis in chemical safety screening.
Rachel G Grashow, Vanessa Y De La Rosa, +2 authors, Ruthann A Rudel.
Comput Toxicol, 2018 Feb 01; 5. PMID: 31218268    Free PMC article.
The Oncotype Dx Assay in ER-Positive, HER2-Negative Breast Cancer Patients: A Real Life Experience from a Single Cancer Center.
Stephane Thibodeau, Ioannis A Voutsadakis.
Eur J Breast Health, 2019 Jul 18; 15(3). PMID: 31312792    Free PMC article.
Development and Validation of the Gene Expression Predictor of High-grade Serous Ovarian Carcinoma Molecular SubTYPE (PrOTYPE).
Aline Talhouk, Joshy George, +122 authors, Michael S Anglesio.
Clin Cancer Res, 2020 Jun 20; 26(20). PMID: 32554541    Free PMC article.
A pan-cancer analysis of HER2 index revealed transcriptional pattern for precise selection of HER2-targeted therapy.
Ziteng Li, Siyuan Chen, +8 authors, Xiaodong Zhu.
EBioMedicine, 2020 Nov 09; 62. PMID: 33161227    Free PMC article.
The Expression Profiles of ADME Genes in Human Cancers and Their Associations with Clinical Outcomes.
Dong Gui Hu, Peter I Mackenzie, +2 authors, Robyn Meech.
Cancers (Basel), 2020 Nov 19; 12(11). PMID: 33202946    Free PMC article.
Mutational signatures and mutable motifs in cancer genomes.
Igor B Rogozin, Youri I Pavlov, +5 authors, David N Cooper.
Brief Bioinform, 2017 May 13; 19(6). PMID: 28498882    Free PMC article.
Resistance to endocrine therapy in breast cancer: molecular mechanisms and future goals.
Małgorzata Szostakowska, Alicja Trębińska-Stryjewska, Ewa Anna Grzybowska, Anna Fabisiewicz.
Breast Cancer Res Treat, 2018 Nov 02; 173(3). PMID: 30382472    Free PMC article.
Quantification of intrinsic subtype ambiguity in Luminal A breast cancer and its relationship to clinical outcomes.
Neeraj Kumar, Dan Zhao, +2 authors, Peter H Gann.
BMC Cancer, 2019 Mar 10; 19(1). PMID: 30849944    Free PMC article.
Analytical validation of CanAssist-Breast: an immunohistochemistry based prognostic test for hormone receptor positive breast cancer patients.
Arun Kumar Attuluri, Chandra Prakash V Serkad, +9 authors, Manjiri M Bakre.
BMC Cancer, 2019 Mar 22; 19(1). PMID: 30894144    Free PMC article.
Characterization of molecular scores and gene expression signatures in primary breast cancer, local recurrences and brain metastases.
Mariana Bustamante Eduardo, Vlad Popovici, +5 authors, Rolf Jaggi.
BMC Cancer, 2019 Jun 09; 19(1). PMID: 31174485    Free PMC article.
Hormonal modulation of ESR1 mutant metastasis.
Guowei Gu, Lin Tian, +28 authors, Suzanne A W Fuqua.
Oncogene, 2020 Dec 17; 40(5). PMID: 33323970    Free PMC article.
An Improved, Assay Platform Agnostic, Absolute Single Sample Breast Cancer Subtype Classifier.
Mi-Kyoung Seo, Soonmyung Paik, Sangwoo Kim.
Cancers (Basel), 2020 Dec 02; 12(12). PMID: 33255759    Free PMC article.
MaTAR25 lncRNA regulates the Tensin1 gene to impact breast cancer progression.
Kung-Chi Chang, Sarah D Diermeier, +11 authors, David L Spector.
Nat Commun, 2020 Dec 24; 11(1). PMID: 33353933    Free PMC article.
Development and validation of a NanoString BASE47 bladder cancer gene classifier.
Jordan Kardos, Tracy L Rose, +7 authors, William Y Kim.
PLoS One, 2020 Dec 18; 15(12). PMID: 33332422    Free PMC article.
Invasive lobular carcinoma of the breast: the increasing importance of this special subtype.
Amy E McCart Reed, Lauren Kalinowski, Peter T Simpson, Sunil R Lakhani.
Breast Cancer Res, 2021 Jan 09; 23(1). PMID: 33413533    Free PMC article.
Triple Negative Breast Cancer: A Review of Present and Future Diagnostic Modalities.
Sylvia Annabel Dass, Kim Liu Tan, +5 authors, Venugopal Balakrishnan.
Medicina (Kaunas), 2021 Jan 16; 57(1). PMID: 33445543    Free PMC article.
Autophagy is associated with a robust specific transcriptional signature in breast cancer subtypes.
Céline Grandvallet, Jean Paul Feugeas, +5 authors, Paul Peixoto.
Genes Cancer, 2021 Jan 26; 11(3-4). PMID: 33488952    Free PMC article.
Molecular downstaging: a new paradigm for neoadjuvant endocrine therapy.
Emanuela Ferraro, Monica N Fornier.
Ann Transl Med, 2021 Jan 26; 8(24). PMID: 33490206    Free PMC article.
Significance of Oncotype DX 21-Gene Test and Expression of Long Non-Coding RNA MALAT1 in Early and Estrogen Receptor-Positive Breast Cancer Patients.
Zhen Huang, Qinghong Qin, +4 authors, Qinguo Mo.
Cancer Manag Res, 2021 Feb 02; 13. PMID: 33519238    Free PMC article.
Retrospective Validation of a 168-Gene Expression Signature for Glioma Classification on a Single Molecule Counting Platform.
Paul Minh Huy Tran, Lynn Kim Hoang Tran, +8 authors, Jin Xiong She.
Cancers (Basel), 2021 Jan 29; 13(3). PMID: 33503830    Free PMC article.
Current Achievements and Applications of Transcriptomics in Personalized Cancer Medicine.
Stanislaw Supplitt, Pawel Karpinski, Maria Sasiadek, Izabela Laczmanska.
Int J Mol Sci, 2021 Feb 13; 22(3). PMID: 33572595    Free PMC article.
A Phenomic Perspective on Factors Influencing Breast Cancer Treatment: Integrating Aging and Lifestyle in Blood and Tissue Biomarker Profiling.
Ainhoa Arana Echarri, Mark Beresford, +6 authors, James E Turner.
Front Immunol, 2021 Feb 19; 11. PMID: 33597950    Free PMC article.
bc-GenExMiner 4.5: new mining module computes breast cancer differential gene expression analyses.
Pascal Jézéquel, Wilfried Gouraud, +4 authors, Mario Campone.
Database (Oxford), 2021 Feb 19; 2021. PMID: 33599248    Free PMC article.
Recent Advances in Integrative Multi-Omics Research in Breast and Ovarian Cancer.
Christen A Khella, Gaurav A Mehta, Rushabh N Mehta, Michael L Gatza.
J Pers Med, 2021 Mar 07; 11(2). PMID: 33669749    Free PMC article.
Correlation of immune infiltration with clinical outcomes in breast cancer patients: The 25-gene prognostic signatures model.
Yushan Liu, Wenfen Fu, +3 authors, Chuangui Song.
Cancer Med, 2021 Feb 25; 10(6). PMID: 33626234    Free PMC article.
Extensive analysis of the molecular biomarkers excision repair cross complementing 1, ribonucleotide reductase M1, β-tubulin III, thymidylate synthetase, and topoisomerase IIα in breast cancer: Association with clinicopathological characteristics.
Juncheng Li, Peng Sun, +3 authors, Gang Xue.
Medicine (Baltimore), 2021 Apr 10; 100(14). PMID: 33832110    Free PMC article.
Characterizing advanced breast cancer heterogeneity and treatment resistance through serial biopsies and comprehensive analytics.
Allen Li, Jamie M Keck, +15 authors, Zahi I Mitri.
NPJ Precis Oncol, 2021 Mar 28; 5(1). PMID: 33772089    Free PMC article.
Predicting tumor response to drugs based on gene-expression biomarkers of sensitivity learned from cancer cell lines.
Yuanyuan Li, David M Umbach, +3 authors, Leping Li.
BMC Genomics, 2021 Apr 17; 22(1). PMID: 33858332    Free PMC article.
Molecular Drivers of Oncotype DX, Prosigna, EndoPredict, and the Breast Cancer Index: A TransATAC Study.
Richard Buus, Ivana Sestak, +6 authors, Mitch Dowsett.
J Clin Oncol, 2020 Oct 28; 39(2). PMID: 33108242    Free PMC article.
DeCompress: tissue compartment deconvolution of targeted mRNA expression panels using compressed sensing.
Arjun Bhattacharya, Alina M Hamilton, Melissa A Troester, Michael I Love.
Nucleic Acids Res, 2021 Feb 02; 49(8). PMID: 33524140    Free PMC article.
Luminal Breast Cancer: Risk of Recurrence and Tumor-Associated Immune Suppression.
Benedetta Pellegrino, Zuzana Hlavata, +5 authors, Cinzia Solinas.
Mol Diagn Ther, 2021 May 12; 25(4). PMID: 33974235    Free PMC article.
Integration of Urinary EN2 Protein & Cell-Free RNA Data in the Development of a Multivariable Risk Model for the Detection of Prostate Cancer Prior to Biopsy.
Shea P Connell, Robert Mills, +5 authors, The Movember Gap Urine Biomarker Consortium.
Cancers (Basel), 2021 May 01; 13(9). PMID: 33925381    Free PMC article.
Precision Oncology via NMR-Based Metabolomics: A Review on Breast Cancer.
Alessia Vignoli, Emanuela Risi, +6 authors, Leonardo Tenori.
Int J Mol Sci, 2021 May 01; 22(9). PMID: 33925233    Free PMC article.
An approach for normalization and quality control for NanoString RNA expression data.
Arjun Bhattacharya, Alina M Hamilton, +5 authors, Michael I Love.
Brief Bioinform, 2020 Aug 14; 22(3). PMID: 32789507    Free PMC article.
A Systemic Inflammation Response Score for Prognostic Prediction of Breast Cancer Patients Undergoing Surgery.
Kaiming Zhang, Liqin Ping, +2 authors, Xiangsheng Xiao.
J Pers Med, 2021 Jun 03; 11(5). PMID: 34069272    Free PMC article.
The temporal mutational and immune tumour microenvironment remodelling of HER2-negative primary breast cancers.
Leticia De Mattos-Arruda, Javier Cortes, +17 authors, Carlos Caldas.
NPJ Breast Cancer, 2021 Jun 09; 7(1). PMID: 34099718    Free PMC article.
High-Throughput NanoString Analysis of Oncogenic Human Papillomavirus and Tumor Microenvironment Transcription in Head and Neck Squamous Cell Carcinoma.
Wesley H Stepp.
Curr Protoc, 2021 May 26; 1(5). PMID: 34033698    Free PMC article.
INSTIGO Trial: Evaluation of a Plasma Protein Profile as a Predictive Biomarker for Metastatic Relapse of Triple Negative Breast Cancer.
Hugo Veyssière, Sejdi Lusho, +6 authors, Xavier Durando.
Front Oncol, 2021 Jul 13; 11. PMID: 34249690    Free PMC article.
Uncovering the Subtype-Specific Molecular Characteristics of Breast Cancer by Multiomics Analysis of Prognosis-Associated Genes, Driver Genes, Signaling Pathways, and Immune Activity.
Xinhui Li, Jian Zhou, +11 authors, Jing Tang.
Front Cell Dev Biol, 2021 Jul 20; 9. PMID: 34277633    Free PMC article.
Kinectin 1 promotes the growth of triple-negative breast cancer via directly co-activating NF-kappaB/p65 and enhancing its transcriptional activity.
Lin Gao, Shanze Chen, +13 authors, Chang Zou.
Signal Transduct Target Ther, 2021 Jul 06; 6(1). PMID: 34219129    Free PMC article.
DysPIA: A Novel Dysregulated Pathway Identification Analysis Method.
Limei Wang, Weixin Xie, +4 authors, Jin Li.
Front Genet, 2021 Jul 23; 12. PMID: 34290733    Free PMC article.