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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

Is Cited by the Following 57 Articles in this Archive:

Basal Breast Cancer: A Complex and Deadly Molecular Subtype
F Bertucci, P Finetti, D Birnbaum
Curr Mol Med. 2012 January; 12(1): 96–110. Published online 2012 January. doi: 10.2174/156652412798376134
PMCID:
PMC3343384
Abstract Full Text PDF–871K
The breast cancer genome - a key for better oncology
Hans Kristian Moen Vollan, Carlos Caldas
BMC Cancer. 2011; 11: 501. Published online 2011 November 30. doi: 10.1186/1471-2407-11-501
PMCID:
PMC3268769
Abstract Full Text PDF–333K
Patient-Specific Data Fusion Defines Prognostic Cancer Subtypes
Yinyin Yuan, Richard S. Savage, Florian Markowetz
PLoS Comput Biol. 2011 October; 7(10): e1002227. Published online 2011 October 20. doi: 10.1371/journal.pcbi.1002227
PMCID:
PMC3197649
Abstract Full Text PDF–2.4M
Sprouty 2 Is an Independent Prognostic Factor in Breast Cancer and May Be Useful in Stratifying Patients for Trastuzumab Therapy
Dana Faratian, Andrew H. Sims, Peter Mullen, Charlene Kay, InHwa Um, Simon P. Langdon, David J. Harrison
PLoS One. 2011; 6(8): e23772. Published online 2011 August 31. doi: 10.1371/journal.pone.0023772
PMCID:
PMC3166119
Abstract Full Text PDF–833K Supplementary Material
Evidence of a Role for Antizyme and Antizyme Inhibitor as Regulators of Human Cancer
Rachelle R. Olsen, Bruce R. Zetter
Mol Cancer Res. Author manuscript; available in PMC 2012 October 1.
Published in final edited form as: Mol Cancer Res. 2011 October; 9(10): 1285–1293. Published online 2011 August 17. doi: 10.1158/1541-7786.MCR-11-0178
PMCID:
PMC3196680
Free in PMC on 2012/10/01
Selective Genomic Copy Number Imbalances and Probability of Recurrence in Early-Stage Breast Cancer
Patricia A. Thompson, Abenaa M. Brewster, Do Kim-Anh, Veerabhadran Baladandayuthapani, Bradley M. Broom, Mary E. Edgerton, Karin M. Hahn, James L. Murray, Aysegul Sahin, Spyros Tsavachidis, Yuker Wang, Li Zhang, Gabriel N. Hortobagyi, Gordon B. Mills, Melissa L. Bondy
PLoS One. 2011; 6(8): e23543. Published online 2011 August 12. doi: 10.1371/journal.pone.0023543
PMCID:
PMC3155554
Abstract Full Text PDF–869K Supplementary Material
A Novel Molecular Signature Identified by Systems Genetics Approach Predicts Prognosis in Oral Squamous Cell Carcinoma
Chien-Hua Peng, Chun-Ta Liao, Shih-Chi Peng, Yin-Ju Chen, Ann-Joy Cheng, Jyh-Lyh Juang, Chi-Ying Tsai, Tse-Ching Chen, Yung-Jen Chuang, Chuan-Yi Tang, Wen-Ping Hsieh, Tzu-Chen Yen
PLoS One. 2011; 6(8): e23452. Published online 2011 August 11. doi: 10.1371/journal.pone.0023452
PMCID:
PMC3154947
Abstract Full Text PDF–342K Supplementary Material
Consistent metagenes from cancer expression profiles yield agent specific predictors of chemotherapy response
Qiyuan Li, Aron C Eklund, Nicolai J Birkbak, Christine Desmedt, Benjamin Haibe-Kains, Christos Sotiriou, W Fraser Symmans, Lajos Pusztai, Søren Brunak, Andrea L Richardson, Zoltan Szallasi
BMC Bioinformatics. 2011; 12: 310. Published online 2011 July 28. doi: 10.1186/1471-2105-12-310
PMCID:
PMC3155975
Abstract Full Text PDF–498K Supplementary Material
Relationship of Extreme Chromosomal Instability with Long-term Survival in a Retrospective Analysis of Primary Breast Cancer
Rebecca Roylance, David Endesfelder, Patricia Gorman, Rebecca A. Burrell, Jil Sander, Ian Tomlinson, Andrew M Hanby, Valerie Speirs, Andrea L. Richardson, Nicolai J. Birkbak, Aron C. Eklund, Julian Downward, Maik Kschischo, Zoltan Szallasi, Charles Swanton
Cancer Epidemiol Biomarkers Prev. Author manuscript; available in PMC 2012 April 1.
Published in final edited form as: Cancer Epidemiol Biomarkers Prev. 2011 October; 20(10): 2183–2194. Published online 2011 July 22. doi: 10.1158/1055-9965.EPI-11-0343
PMCID:
PMC3199437
Abstract Full Text PDF–1.2M Supplementary Material
A Methyl-Deviator Epigenotype of Estrogen Receptor–Positive Breast Carcinoma Is Associated with Malignant Biology
J.. Keith Killian, Sven Bilke, Sean Davis, Robert L. Walker, Erich Jaeger, M. Scott Killian, Joshua J. Waterfall, Marina Bibikova, Jian-Bing Fan, William I. Smith, Jr, Paul S. Meltzer
Am J Pathol. 2011 July; 179(1): 55–65. doi: 10.1016/j.ajpath.2011.03.022
PMCID:
PMC3123808
Free in PMC on 2012/07/01
Future medical applications of single-cell sequencing in cancer
Nicholas Navin, James Hicks
Genome Med. 2011; 3(5): 31. Published online 2011 May 31. doi: 10.1186/gm247
PMCID:
PMC3219072
Abstract Full Text PDF–4.2M
Linear and non-linear dependencies between copy number aberrations and mRNA expression reveal distinct molecular pathways in breast cancer
Hiroko K Solvang, Ole Christian Lingjærde, Arnoldo Frigessi, Anne-Lise Børresen-Dale, Vessela N Kristensen
BMC Bioinformatics. 2011; 12: 197. Published online 2011 May 24. doi: 10.1186/1471-2105-12-197
PMCID:
PMC3128865
Abstract Full Text PDF–594K Supplementary Material
High levels of the Mps1 checkpoint protein are protective of aneuploidy in breast cancer cells
Jewel Daniel, Jonathan Coulter, Ju-Hyung Woo, Kathleen Wilsbach, Edward Gabrielson
Proc Natl Acad Sci U S A. 2011 March 29; 108(13): 5384–5389. Published online 2011 March 14. doi: 10.1073/pnas.1007645108
PMCID:
PMC3069188
Abstract Full Text PDF–627K Supplementary Material
SIRT3 opposes reprogramming of cancer cell metabolism through HIF1α destabilization
Lydia W.S. Finley, Arkaitz Carracedo, Jaewon Lee, Amanda Souza, Ainara Egia, Jiangwen Zhang, Julie Teruya-Feldstein, Paula I. Moreira, Sandra M. Cardoso, Clary B. Clish, Pier Paolo Pandolfi, Marcia C. Haigis
Cancer Cell. Author manuscript; available in PMC 2012 March 8.
Published in final edited form as: Cancer Cell. 2011 March 8; 19(3): 416–428. doi: 10.1016/j.ccr.2011.02.014
PMCID:
PMC3065720
Abstract Full Text PDF–1.2M Supplementary Material
Chromosomal Instability Confers Intrinsic Multi-Drug Resistance
Alvin J X Lee, David Endesfelder, Andrew J Rowan, Axel Walther, Nicolai J Birkbak, P Andrew Futreal, Julian Downward, Zoltan Szallasi, Ian P M Tomlinson, Maik Kschischo, Charles Swanton
Cancer Res. Author manuscript; available in PMC 2011 September 1.
Published in final edited form as: Cancer Res. 2011 March 1; 71(5): 1858–1870. doi: 10.1158/0008-5472.CAN-10-3604
PMCID:
PMC3059493
Abstract Full Text PDF–1.4M Supplementary Material
Systems Biology and Genomics of Breast Cancer
Charles M. Perou, Anne-Lise Børresen-Dale
Cold Spring Harb Perspect Biol. 2011 February; 3(2): a003293. doi: 10.1101/cshperspect.a003293
PMCID:
PMC3039533
Free in PMC on 2013/02/01
Paradoxical relationship between chromosomal instability and survival outcome in cancer
Nicolai J. Birkbak, Aron C. Eklund, Qiyuan Li, Sarah E. McClelland, David Endesfelder, Patrick Tan, Iain B Tan, Andrea L. Richardson, Zoltan Szallasi, Charles Swanton
Cancer Res. Author manuscript; available in PMC 2011 November 15.
Published in final edited form as: Cancer Res. 2011 May 15; 71(10): 3447–3452. Published online 2011 January 26. doi: 10.1158/0008-5472.CAN-10-3667
PMCID:
PMC3096721
Abstract Full Text PDF–404K Supplementary Material
Transcription Factor IIS Cooperates with the E3 Ligase UBR5 to Ubiquitinate the CDK9 Subunit of the Positive Transcription Elongation Factor B
Marilena Cojocaru, Annie Bouchard, Philippe Cloutier, Jeff J. Cooper, Katayoun Varzavand, David H. Price, Benoit Coulombe
J Biol Chem. 2011 February 18; 286(7): 5012–5022. Published online 2010 December 2. doi: 10.1074/jbc.M110.176628
PMCID:
PMC3037613
Abstract Full Text
RNAi-based screening identifies the Mms22L–Nfkbil2 complex as a novel regulator of DNA replication in human cells
Wojciech Piwko, Michael H Olma, Michael Held, Julien N Bianco, Patrick G A Pedrioli, Kay Hofmann, Philippe Pasero, Daniel W Gerlich, Matthias Peter
EMBO J. 2010 December 15; 29(24): 4210–4222. Published online 2010 November 26. doi: 10.1038/emboj.2010.304
PMCID:
PMC3018799
Abstract Full Text PDF–2.1M Supplementary Material
The UCSC cancer genomics browser: update 2011
J. Zachary Sanborn, Stephen C. Benz, Brian Craft, Christopher Szeto, Kord M. Kober, Laurence Meyer, Charles J. Vaske, Mary Goldman, Kayla E. Smith, Robert M. Kuhn, Donna Karolchik, W. James Kent, Joshua M. Stuart, David Haussler, Jingchun Zhu
Nucleic Acids Res. 2011 January; 39(Database issue): D951–D959. Published online 2010 November 8. doi: 10.1093/nar/gkq1113
PMCID:
PMC3013705
Abstract Full Text PDF–6.7M
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
Genome profiling of ERBB2-amplified breast cancers
Fabrice Sircoulomb, Ismahane Bekhouche, Pascal Finetti, José Adélaïde, Azza Ben Hamida, Julien Bonansea, Stéphane Raynaud, Charlène Innocenti, Emmanuelle Charafe-Jauffret, Carole Tarpin, Farhat Ben Ayed, Patrice Viens, Jocelyne Jacquemier, François Bertucci, Daniel Birnbaum, Max Chaffanet
BMC Cancer. 2010; 10: 539. Published online 2010 October 8. doi: 10.1186/1471-2407-10-539
PMCID:
PMC2958950
Abstract Full Text PDF–2.3M Supplementary Material
Dysregulated miR-183 inhibits migration in breast cancer cells
Aoife J Lowery, Nicola Miller, Roisin M Dwyer, Michael J Kerin
BMC Cancer. 2010; 10: 502. Published online 2010 September 21. doi: 10.1186/1471-2407-10-502
PMCID:
PMC2955037
Abstract Full Text PDF–1.8M Supplementary Material
Copy Number Analysis Identifies Novel Interactions Between Genomic Loci in Ovarian Cancer
Kylie L. Gorringe, Joshy George, Michael S. Anglesio, Manasa Ramakrishna, Dariush Etemadmoghadam, Prue Cowin, Anita Sridhar, Louise H. Williams, Samantha E. Boyle, Nozomu Yanaihara, Aikou Okamoto, Mitsuyoshi Urashima, Australian Ovarian Cancer Study, Gordon K. Smyth, Ian G. Campbell, David D. L. Bowtell
PLoS One. 2010; 5(9): e11408. Published online 2010 September 10. doi: 10.1371/journal.pone.0011408
PMCID:
PMC2937017
Abstract Full Text PDF–679K Supplementary Material
Proteomic Changes Resulting from Gene Copy Number Variations in Cancer Cells
Tamar Geiger, Juergen Cox, Matthias Mann
PLoS Genet. 2010 September; 6(9): e1001090. Published online 2010 September 2. doi: 10.1371/journal.pgen.1001090
PMCID:
PMC2932691
Abstract Full Text PDF–1.8M Supplementary Material
Integration of transcript expression, copy number and LOH analysis of infiltrating ductal carcinoma of the breast
Lesleyann Hawthorn, Jesse Luce, Leighton Stein, Jenniffer Rothschild
BMC Cancer. 2010; 10: 460. Published online 2010 August 27. doi: 10.1186/1471-2407-10-460
PMCID:
PMC2939551
Abstract Full Text PDF–1.7M Supplementary Material
Determining Frequent Patterns of Copy Number Alterations in Cancer
Franck Rapaport, Christina Leslie
PLoS One. 2010; 5(8): e12028. Published online 2010 August 12. doi: 10.1371/journal.pone.0012028
PMCID:
PMC2920822
Abstract Full Text PDF–705K Supplementary Material
Increased entropy of signal transduction in the cancer metastasis phenotype
Andrew E Teschendorff, Simone Severini
BMC Syst Biol. 2010; 4: 104. Published online 2010 July 30. doi: 10.1186/1752-0509-4-104
PMCID:
PMC2925356
Abstract Full Text PDF–1.2M Supplementary Material
CGHpower: exploring sample size calculations for chromosomal copy number experiments
Ilari Scheinin, José A Ferreira, Sakari Knuutila, Gerrit A Meijer, Mark A van de Wiel, Bauke Ylstra
BMC Bioinformatics. 2010; 11: 331. Published online 2010 June 17. doi: 10.1186/1471-2105-11-331
PMCID:
PMC2911457
Abstract Full Text PDF–541K
Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM
Charles J. Vaske, Stephen C. Benz, J. Zachary Sanborn, Dent Earl, Christopher Szeto, Jingchun Zhu, David Haussler, Joshua M. Stuart
Bioinformatics. 2010 June 15; 26(12): i237–i245. Published online 2010 June 1. doi: 10.1093/bioinformatics/btq182
PMCID:
PMC2881367
Abstract Full Text PDF–999K Supplementary Material
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