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A consensus prognostic gene expression classifier for ER positive breast cancer
Andrew E Teschendorff, Ali Naderi, Nuno L Barbosa-Morais, Sarah E Pinder, Ian O Ellis, Sam Aparicio, James D Brenton, Carlos Caldas
Genome Biol. 2006; 7(10): R101. Published online 2006 October 31. doi: 10.1186/gb-2006-7-10-r101
PMCID:
PMC1794561
Abstract Full Text PDF–1.0M Supplementary Material
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 Is Cited by the Following 31 Articles in this Archive:
Integration of pre-normalized microarray data using quantile correction
Takashi Yoneya, Tatsuya Miyazawa
Bioinformation. 2011; 5(9): 382–385. Published online 2011 February 7.
PMCID:
PMC3044426
Abstract Full Text PDF–108K Supplementary Material
Prognostic gene network modules in breast cancer hold promise
Andrew E Teschendorff, Yan Jiao, Carlos Caldas
Breast Cancer Res. 2010; 12(6): 317. Published online 2010 December 8. doi: 10.1186/bcr2774
PMCID:
PMC3046436
Abstract Full Text PDF–128K
Improved prognostic classification of breast cancer defined by antagonistic activation patterns of immune response pathway modules
Andrew E Teschendorff, Sergio Gomez, Alex Arenas, Dorraya El-Ashry, Marcus Schmidt, Mathias Gehrmann, Carlos Caldas
BMC Cancer. 2010; 10: 604. Published online 2010 November 4. doi: 10.1186/1471-2407-10-604
PMCID:
PMC2991308
Abstract Full Text PDF–1.9M Supplementary Material
Analysing breast cancer microarrays from African Americans using shrinkage-based discriminant analysis
Herbert Pang, Keita Ebisu, Emi Watanabe, Laura Y. Sue, Tiejun Tong
Hum Genomics. Author manuscript; available in PMC 2011 October 1.
Published in final edited form as: Hum Genomics. 2010 October; 5(1): 5–16.
PMCID:
PMC3042882
Abstract Full Text PDF–471K
ANCCA/ATAD2 overexpression identifies breast cancer patients with poor prognosis, acting to drive proliferation and survival of triple-negative cells through control of B-Myb and EZH2
Ekaterina V. Kalashnikova, Alexey S. Revenko, Abigael T. Gemo, Nicolas P. Andrews, Clifford G. Tepper, June X. Zou, Robert D. Cardiff, Alexander D. Borowsky, Hong-Wu Chen
Cancer Res. Author manuscript; available in PMC 2011 November 15.
Published in final edited form as: Cancer Res. 2010 November 15; 70(22): 9402–9412. Published online 2010 September 23. doi: 10.1158/0008-5472.CAN-10-1199
PMCID:
PMC2982862
Abstract Full Text PDF–2.5M Supplementary Material
Prediction of breast cancer prognosis using gene set statistics provides signature stability and biological context
Gad Abraham, Adam Kowalczyk, Sherene Loi, Izhak Haviv, Justin Zobel
BMC Bioinformatics. 2010; 11: 277. Published online 2010 May 25. doi: 10.1186/1471-2105-11-277
PMCID:
PMC2895626
Abstract Full Text PDF–1.1M Supplementary Material
Correcting for intra-experiment variation in Illumina BeadChip data is necessary to generate robust gene-expression profiles
Robert R Kitchen, Vicky S Sabine, Andrew H Sims, E Jane Macaskill, Lorna Renshaw, Jeremy S Thomas, Jano I van Hemert, J Michael Dixon, John MS Bartlett
BMC Genomics. 2010; 11: 134. Published online 2010 February 24. doi: 10.1186/1471-2164-11-134
PMCID:
PMC2843619
Abstract Full Text PDF–1.8M Supplementary Material
Survival prediction from clinico-genomic models - a comparative study
Hege M Bøvelstad, Ståle Nygård, Ørnulf Borgan
BMC Bioinformatics. 2009; 10: 413. Published online 2009 December 13. doi: 10.1186/1471-2105-10-413
PMCID:
PMC2811121
Abstract Full Text PDF–687K
Immutable functional attributes of histologic grade revealed by context independent gene expression in primary breast cancer cells
Shanaz H. Dairkee, Aejaz Sayeed, Gloria Luciani, Stacey Champion, Zhenhang Meng, Lakshmi R. Jakkula, Heidi S. Feiler, Joe W. Gray, Dan H. Moore
Cancer Res. Author manuscript; available in PMC 2010 October 1.
Published in final edited form as: Cancer Res. 2009 October 1; 69(19): 7826–7834. Published online 2009 September 29. doi: 10.1158/0008-5472.CAN-09-1564
PMCID:
PMC2757757
Abstract Full Text PDF–3.8M Supplementary Material
A Systems Biology-Based Gene Expression Classifier of Glioblastoma Predicts Survival with Solid Tumors
Jing Zhang, Bing Liu, Xingpeng Jiang, Huizhi Zhao, Ming Fan, Zhenjie Fan, J. Jack Lee, Tao Jiang, Tianzi Jiang, Sonya Wei Song
PLoS One. 2009; 4(7): e6274. Published online 2009 July 17. doi: 10.1371/journal.pone.0006274
PMCID:
PMC2707631
Abstract Full Text PDF–841K Supplementary Material
Intrinsic bias in breast cancer gene expression data sets
Jonathan D Mosley, Ruth A Keri
BMC Cancer. 2009; 9: 214. Published online 2009 June 29. doi: 10.1186/1471-2407-9-214
PMCID:
PMC2711113
Abstract Full Text PDF–864K
Effects of sample size on robustness and prediction accuracy of a prognostic gene signature
Seon-Young Kim
BMC Bioinformatics. 2009; 10: 147. Published online 2009 May 16. doi: 10.1186/1471-2105-10-147
PMCID:
PMC2689196
Abstract Full Text PDF–734K Supplementary Material
Approaches towards expression profiling the response to treatment
Andrew H Sims, John MS Bartlett
Breast Cancer Res. 2008; 10(6): 115. Published online 2008 December 8. doi: 10.1186/bcr2196
PMCID:
PMC2656889
Abstract Full Text PDF–39K
A comprehensive analysis of prognostic signatures reveals the high predictive capacity of the Proliferation, Immune response and RNA splicing modules in breast cancer
Fabien Reyal, Martin H van Vliet, Nicola J Armstrong, Hugo M Horlings, Karin E de Visser, Marlen Kok, Andrew E Teschendorff, Stella Mook, Laura van 't Veer, Carlos Caldas, Remy J Salmon, Marc J van de Vijver, Lodewyk FA Wessels
Breast Cancer Res. 2008; 10(6): R93. Published online 2008 November 13. doi: 10.1186/bcr2192
PMCID:
PMC2656909
Abstract Full Text PDF–1.5M Supplementary Material
Prognostic Breast Cancer Signature Identified from 3D Culture Model Accurately Predicts Clinical Outcome across Independent Datasets
Katherine J. Martin, Denis R. Patrick, Mina J. Bissell, Marcia V. Fournier
PLoS ONE. 2008; 3(8): e2994. Published online 2008 August 20. doi: 10.1371/journal.pone.0002994
PMCID:
PMC2500166
Abstract Full Text PDF–327K Supplementary Material
Pooling breast cancer datasets has a synergetic effect on classification performance and improves signature stability
Martin H van Vliet, Fabien Reyal, Hugo M Horlings, Marc J van de Vijver, Marcel JT Reinders, Lodewyk FA Wessels
BMC Genomics. 2008; 9: 375. Published online 2008 August 6. doi: 10.1186/1471-2164-9-375
PMCID:
PMC2527336
Abstract Full Text PDF–536K Supplementary Material
Meta-analysis of gene expression profiles in breast cancer: toward a unified understanding of breast cancer subtyping and prognosis signatures
Pratyaksha Wirapati, Christos Sotiriou, Susanne Kunkel, Pierre Farmer, Sylvain Pradervand, Benjamin Haibe-Kains, Christine Desmedt, Michail Ignatiadis, Thierry Sengstag, Frédéric Schütz, Darlene R Goldstein, Martine Piccart, Mauro Delorenzi
Breast Cancer Res. 2008; 10(4): R65. Published online 2008 July 28. doi: 10.1186/bcr2124
PMCID:
PMC2575538
Abstract Full Text PDF–755K Supplementary Material
Meta-analysis confirms BCL2 is an independent prognostic marker in breast cancer
Grace M Callagy, Mark J Webber, Paul DP Pharoah, Carlos Caldas
BMC Cancer. 2008; 8: 153. Published online 2008 May 29. doi: 10.1186/1471-2407-8-153
PMCID:
PMC2430210
Abstract Full Text PDF–326K Supplementary Material
Effects of common germline genetic variation in cell cycle control genes on breast cancer survival: results from a population-based cohort
Elizabeth M Azzato, Kristy E Driver, Fabienne Lesueur, Mitul Shah, David Greenberg, Douglas F Easton, Andrew E Teschendorff, Carlos Caldas, Neil E Caporaso, Paul DP Pharoah
Breast Cancer Res. 2008; 10(3): R47. Published online 2008 May 28. doi: 10.1186/bcr2100
PMCID:
PMC2481496
Abstract Full Text PDF–574K Supplementary Material
Cell cycle correlated genes dictate the prognostic power of breast cancer gene lists
Jonathan D Mosley, Ruth A Keri
BMC Med Genomics. 2008; 1: 11. Published online 2008 April 25. doi: 10.1186/1755-8794-1-11
PMCID:
PMC2396170
Abstract Full Text PDF–683K Supplementary Material
Gene expression profiling in primary breast cancer distinguishes patients developing local recurrence after breast-conservation surgery, with or without postoperative radiotherapy
Emma Niméus-Malmström, Morten Krogh, Per Malmström, Carina Strand, Irma Fredriksson, Per Karlsson, Bo Nordenskjöld, Olle Stål, Görel Östberg, Carsten Peterson, Mårten Fernö
Breast Cancer Res. 2008; 10(2): R34. Published online 2008 April 22. doi: 10.1186/bcr1997
PMCID:
PMC2397536
Abstract Full Text PDF–735K
A gene sets approach for identifying prognostic gene signatures for outcome prediction
Seon-Young Kim, Yong Sung Kim
BMC Genomics. 2008; 9: 177. Published online 2008 April 16. doi: 10.1186/1471-2164-9-177
PMCID:
PMC2364634
Abstract Full Text PDF–435K Supplementary Material
A gene expression signature that can predict the recurrence of tamoxifen-treated primary breast cancer
Maïa Chanrion, Vincent Negre, Hélène Fontaine, Nicolas Salvetat, Frédéric Bibeau, Gaëtan Mac Grogan, Louis Mauriac, Dionyssios Katsaros, Franck Molina, Charles Theillet, Jean-Marie Darbon
Clin Cancer Res. Author manuscript; available in PMC 2010 July 30.
Published in final edited form as: Clin Cancer Res. 2008 March; 14(6): 1744–1752. doi: 10.1158/1078-0432.CCR-07-1833
PMCID:
PMC2912334
Abstract Full Text PDF–991K
Merging microarray data from separate breast cancer studies provides a robust prognostic test
Lei Xu, Aik Choon Tan, Raimond L Winslow, Donald Geman
BMC Bioinformatics. 2008; 9: 125. Published online 2008 February 27. doi: 10.1186/1471-2105-9-125
PMCID:
PMC2409450
Abstract Full Text PDF–629K Supplementary Material
Building pathway clusters from Random Forests classification using class votes
Herbert Pang, Hongyu Zhao
BMC Bioinformatics. 2008; 9: 87. Published online 2008 February 6. doi: 10.1186/1471-2105-9-87
PMCID:
PMC2335306
Abstract Full Text PDF–775K Supplementary Material
ANCCA, an estrogen-regulated AAA+ ATPase coactivator for ERα, is required for coregulator occupancy and chromatin modification
June X. Zou, Alexey S. Revenko, Li B. Li, Abigael T. Gemo, Hong-Wu Chen
Proc Natl Acad Sci U S A. 2007 November 13; 104(46): 18067–18072. Published online 2007 November 12. doi: 10.1073/pnas.0705814104
PMCID:
PMC2084297
Abstract Full Text PDF–703K Supplementary Material
Module-Based Outcome Prediction Using Breast Cancer Compendia
Martin H. van Vliet, Christiaan N. Klijn, Lodewyk F. A. Wessels, Marcel J. T. Reinders
PLoS ONE. 2007; 2(10): e1047. Published online 2007 October 17. doi: 10.1371/journal.pone.0001047
PMCID:
PMC2002511
Abstract Full Text PDF–409K Supplementary Material
High-resolution aCGH and expression profiling identifies a novel genomic subtype of ER negative breast cancer
Suet F Chin, Andrew E Teschendorff, John C Marioni, Yanzhong Wang, Nuno L Barbosa-Morais, Natalie P Thorne, Jose L Costa, Sarah E Pinder, Mark A van de Wiel, Andrew R Green, Ian O Ellis, Peggy L Porter, Simon Tavaré, James D Brenton, Bauke Ylstra, Carlos Caldas
Genome Biol. 2007; 8(10): R215. Published online 2007 October 7. doi: 10.1186/gb-2007-8-10-r215
PMCID:
PMC2246289
Abstract Full Text PDF–1.2M Supplementary Material
Integrated analysis of independent gene expression microarray datasets improves the predictability of breast cancer outcome
Zhe Zhang, Dechang Chen, David A Fenstermacher
BMC Genomics. 2007; 8: 331. Published online 2007 September 20. doi: 10.1186/1471-2164-8-331
PMCID:
PMC2064937
Abstract Full Text PDF–477K Supplementary Material
Elucidating the Altered Transcriptional Programs in Breast Cancer using Independent Component Analysis
Andrew E Teschendorff, Michel Journée, Pierre A Absil, Rodolphe Sepulchre, Carlos Caldas
PLoS Comput Biol. 2007 August; 3(8): e161. Prepublished online 2007 June 29. Published online 2007 August 17. doi: 10.1371/journal.pcbi.0030161
PMCID:
PMC1950343
Abstract Full Text PDF–919K Supplementary Material
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