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Expert Opinion on Biological Therapy Volume 5, 2005 - Issue 8
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Review

Application of DNA microarray technology in determining breast cancer prognosis and therapeutic response

Donal J Brennan Conway Institute of Biomolecular and Biomedical Research, Department of Pharmacology, Centre for Molecular Medicine, University College Dublin, Dublin 4, Ireland. [email protected]
,
Sallyann L O’Brien Conway Institute of Biomolecular and Biomedical Research, Department of Pharmacology, Centre for Molecular Medicine, University College Dublin, Dublin 4, Ireland. [email protected]
,
Ailís Fagan Conway Institute of Biomolecular and Biomedical Research, Department of Bioinformatics, Centre for Molecular Medicine, University College Dublin, Dublin 4, Ireland
,
Aedín C Culhane Conway Institute of Biomolecular and Biomedical Research, Department of Surgery, Centre for Molecular Medicine, University College Dublin, Dublin 4, Ireland
,
Desmond G Higgins Conway Institute of Biomolecular and Biomedical Research, Department of Bioinformatics, Centre for Molecular Medicine, University College Dublin, Dublin 4, Ireland
,
Michael J Duffy St. Vincent’s University Hospital, Department of Nuclear Medicine, Dublin 4, Ireland
&
William M Gallagher Conway Institute of Biomolecular and Biomedical Research, Department of Pharmacology, Centre for Molecular Medicine, University College Dublin, Dublin 4, Ireland. [email protected]
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Pages 1069-1083 | Published online: 24 Nov 2005

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Thomas YK Lau, Darran P O’Connor, Donal J Brennan, Michael J Duffy, Stephen R Pennington & William M Gallagher. (2007) Breast cancer proteomics: clinical perspectives. Expert Opinion on Biological Therapy 7:2, pages 209-219.
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Sharon F McGee, Darran P O’Connor & William M Gallagher. (2006) Functional interrogation of breast cancer: from models to drugs. Expert Opinion on Drug Discovery 1:6, pages 569-584.
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Hanaa M. Hussain, Khaled Benkrid & Huseyin Seker. (2015) Dynamic partial reconfiguration implementation of the SVM/KNN multi-classifier on FPGA for bioinformatics application. Dynamic partial reconfiguration implementation of the SVM/KNN multi-classifier on FPGA for bioinformatics application.
Lin Wang, Jie Meng, Weipeng Cao, Qizhai Li, Yuqing Qiu, Baoyun Sun & Lei M. Li. (2014) Induction of apoptosis through ER stress and TP53 in MCF-7 cells by the nanoparticle [Gd@C82(OH)22]n: A systems biology study. Methods 67:3, pages 394-406.
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Patrick C O´Leary, Sarah A Penny, Roisin T Dolan, Catherine M Kelly, Stephen F Madden, Elton Rexhepaj, Donal J Brennan, Amanda H McCann, Fredrik Pontén, Mathias Uhlén, Radoslaw Zagozdzon, Michael J Duffy, Malcolm R Kell, Karin Jirström & William M Gallagher. (2013) Systematic antibody generation and validation via tissue microarray technology leading to identification of a novel protein prognostic panel in breast cancer. BMC Cancer 13:1.
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Yu-Wen Huang, Chung-Shu Wu, Cheng-Keng Chuang, See-Tong Pang, Tung-Ming Pan, Yuh-Shyong Yang & Fu-Hsiang Ko. (2013) Real-Time and Label-Free Detection of the Prostate-Specific Antigen in Human Serum by a Polycrystalline Silicon Nanowire Field-Effect Transistor Biosensor. Analytical Chemistry 85:16, pages 7912-7918.
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Emanuel F. PetricoinIIIIII, Brian Leyland-Jones, Julie Wulfkuhle, Marielena Pierobon, Claudius Mueller, Virginia Espina & Lance A. Liotta. 2013. Proteomic and Metabolomic Approaches to Biomarker Discovery. Proteomic and Metabolomic Approaches to Biomarker Discovery 349 361 .
Zhiwei Wang, Shavali Shaik, Hiroyuki Inuzuka & Wenyi Wei. 2013. Breast Cancer Metastasis and Drug Resistance. Breast Cancer Metastasis and Drug Resistance 329 340 .
Bettina Rudolph, Karina Weber & Robert Möller. 2013. Handbook of Biophotonics. Handbook of Biophotonics.
Hanaa Hussain, Khaled Benkrid, Chuan Hong & Huseyin Seker. (2012) An adaptive FPGA implementation of multi-core K-nearest neighbour ensemble classifier using dynamic partial reconfiguration. An adaptive FPGA implementation of multi-core K-nearest neighbour ensemble classifier using dynamic partial reconfiguration.
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Elton Rexhepaj, Karin Jirstrom, Darran P O'Connor, Sallyann L O'Brien, Goran Landberg, Michael J Duffy, Donal J Brennan & William M Gallagher. (2010) Validation of cytoplasmic-to-nuclear ratio of survivin as an indicator of improved prognosis in breast cancer. BMC Cancer 10:1.
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Ivan P Gorlov, Kanishka Sircar, Hongya Zhao, Sankar N Maity, Nora M Navone, Olga Y Gorlova, Patricia Troncoso, Curtis A Pettaway, Jin Young Byun & Christopher J Logothetis. (2010) Prioritizing genes associated with prostate cancer development. BMC Cancer 10:1.
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Seema Harichand-Herdt & Ruth M. O'Regan. (2010) Identifying Subsets of Metastatic Breast Cancer Patients Likely to Benefit From Treatment With the Epothilone B Analog Ixabepilone. American Journal of Clinical Oncology 33:6, pages 561-567.
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Claudius Mueller, Lance A. Liotta & Virginia Espina. (2010) Reverse phase protein microarrays advance to use in clinical trials. Molecular Oncology 4:6, pages 461-481.
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Donal J. Brennan, Darran P. O'Connor, Elton Rexhepaj, Fredrik Ponten & William M. Gallagher. (2010) Antibody-based proteomics: fast-tracking molecular diagnostics in oncology. Nature Reviews Cancer 10:9, pages 605-617.
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Edith A. Perez, Tejal Patel & Alvaro Moreno-Aspitia. (2010) Efficacy of ixabepilone in ER/PR/HER2-negative (triple-negative) breast cancer. Breast Cancer Research and Treatment 121:2, pages 261-271.
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Annika Jögi, Donal J Brennan, Lisa Rydén, Kristina Magnusson, Mårten Fernö, Olle Stål, Signe Borgquist, Mathias Uhlen, Göran Landberg, Sven Påhlman, Fredrik Pontén & Karin Jirström. (2009) Nuclear expression of the RNA-binding protein RBM3 is associated with an improved clinical outcome in breast cancer. Modern Pathology 22:12, pages 1564-1574.
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Luis E. C. Andrade. (2009) Future perspective for diagnosis in autoimmune diseases. Anais da Academia Brasileira de Ciências 81:3, pages 367-380.
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Jorng-Tzong Horng, Li-Cheng Wu, Baw-Juine Liu, Jun-Li Kuo, Wen-Horng Kuo & Jin-Jian Zhang. (2009) An expert system to classify microarray gene expression data using gene selection by decision tree. Expert Systems with Applications 36:5, pages 9072-9081.
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Donal J. Brennan, Sara Ek, Emma Doyle, Thomas Drew, Michael Foley, Grainne Flannelly, Darran P. O’Connor, William M. Gallagher, Sami Kilpinen, Olli-Pekka Kallioniemi, Karin Jirstrom, Colm O’Herlihy & Carl A.K. Borrebaeck. (2009) The transcription factor Sox11 is a prognostic factor for improved recurrence-free survival in epithelial ovarian cancer. European Journal of Cancer 45:8, pages 1510-1517.
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Elton Rexhepaj, Donal J Brennan, Peter Holloway, Elaine W Kay, Amanda H McCann, Goran Landberg, Michael J Duffy, Karin Jirstrom & William M Gallagher. (2008) Novel image analysis approach for quantifying expression of nuclear proteins assessed by immunohistochemistry: application to measurement of oestrogen and progesterone receptor levels in breast cancer. Breast Cancer Research 10:5.
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Nijaguna B. Prasad, Helina Somervell, Ralph P. Tufano, Alan P.B. Dackiw, Michael R. Marohn, Joseph A. Califano, Yongchun Wang, William H. Westra, Douglas P. Clark, Christopher B. Umbricht, Steven K. Libutti & Martha A. Zeiger. (2008) Identification of Genes Differentially Expressed in Benign versus Malignant Thyroid Tumors. Clinical Cancer Research 14:11, pages 3327-3337.
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Donal J. Brennan, Elton Rexhepaj, Sallyann L. O'Brien, Elaine McSherry, Darran P. O'Connor, Ailís Fagan, Aedín C. Culhane, Desmond G. Higgins, Karin Jirstrom, Robert C. Millikan, Goran Landberg, Michael J. Duffy, Stephen M. Hewitt & William M. Gallagher. (2008) Altered Cytoplasmic-to-Nuclear Ratio of Survivin Is a Prognostic Indicator in Breast Cancer. Clinical Cancer Research 14:9, pages 2681-2689.
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Donal J Brennan & William M Gallagher. (2008) Prognostic ability of a panel of immunohistochemistry markers ? retailoring of an 'old solution'. Breast Cancer Research 10:1.
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David Hong & Lakshmi Chintala. 2008. Targeted Cancer Therapy. Targeted Cancer Therapy 361 381 .
Catherine M. A. Kelly, Denise N. Ryan, Sarah A. Penny & William M. Gallagher. 2008. Methods of Cancer Diagnosis, Therapy and Prognosis. Methods of Cancer Diagnosis, Therapy and Prognosis 235 250 .
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Giovanni Lanza, Manuela Ferracin, Roberta Gafà, Angelo Veronese, Riccardo Spizzo, Flavia Pichiorri, Chang-gong Liu, George A Calin, Carlo M Croce & Massimo Negrini. (2007) mRNA/microRNA gene expression profile in microsatellite unstable colorectal cancer. Molecular Cancer 6:1.
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Michael J. Duffy. (2007) Role of tumor markers in patients with solid cancers: A critical review. European Journal of Internal Medicine 18:3, pages 175-184.
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Sallyann L. O'Brien, Ailís Fagan, Edward J.P. Fox, Robert C. Millikan, Aedín C. Culhane, Donal J. Brennan, Amanda H. McCann, Shauna Hegarty, Siobhan Moyna, Michael J. Duffy, Desmond G. Higgins, Karin Jirström, Göran Landberg & William M. Gallagher. (2007) CENP-F expression is associated with poor prognosis and chromosomal instability in patients with primary breast cancer. International Journal of Cancer 120:7, pages 1434-1443.
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Yu-Hsin Lin, Jan Friederichs, Michael A. Black, Jörg Mages, Robert Rosenberg, Parry J. Guilford, Vicky Phillips, Mark Thompson-Fawcett, Nikola Kasabov, Tumi Toro, Arend E. Merrie, Andre van Rij, Han-Seung Yoon, John L. McCall, Jörg Rüdiger Siewert, Bernhard Holzmann & Anthony E. Reeve. (2007) Multiple Gene Expression Classifiers from Different Array Platforms Predict Poor Prognosis of Colorectal Cancer. Clinical Cancer Research 13:2, pages 498-507.
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Sharon F McGee, Fiona Lanigan, Emer Gilligan & Bernd Groner. (2006) Mammary gland biology and breast cancer. EMBO reports 7:11, pages 1084-1088.
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David H GehoJames N CooperVirginia EspinaEnrico Garaci, Emanuel F Petricoin 3rdLance Liotta. (2006) Role of proteomics in personalized medicine. Personalized Medicine 3:3, pages 223-226.
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Julia D Wulfkuhle, Kirsten H Edmiston, Lance A Liotta & Emanuel F PetricoinIIIIII. (2006) Technology Insight: pharmacoproteomics for cancer—promises of patient-tailored medicine using protein microarrays. Nature Clinical Practice Oncology 3:5, pages 256-268.
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Richard B. Roth, Peter Hevezi, Jerry Lee, Dorian Willhite, Sandra M. Lechner, Alan C. Foster & Albert Zlotnik. (2006) Gene expression analyses reveal molecular relationships among 20 regions of the human CNS. Neurogenetics 7:2, pages 67-80.
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Christian Martin, Harmen grosse Deters & Tim W. Nattkemper. 2006. Artificial Neural Networks – ICANN 2006. Artificial Neural Networks – ICANN 2006 798 807 .

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