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John Quackenbush
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Journal Articles

Data Analysis Strategies in Medical Imaging

Chintan Parmar, Joseph D. Barry, Ahmed Hosny, John Quackenbush, Hugo J.W.L. Aerts
Journal: Clinical Cancer Research
Series: Author Choice
Clin Cancer Res (2018) 24 (15): 3492–3499.
https://doi.org/10.1158/1078-0432.CCR-18-0385
Published: 31 July 2018
View articletitled, Data Analysis Strategies in Medical Imaging
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Journal Articles

Abstract B8: Why is there no consensus on GBM subgroups? Understanding the nature of biological and statistical variability in The Cancer Genome Atlas GBM data and the implications for molecular tumor classification

Nicholas F. Marko, John Quackenbush, Robert J. Weil
Journal: Clinical Cancer Research
Clin Cancer Res (2010) 16 (7_Supplement): B8.
https://doi.org/10.1158/1078-0432.TCME10-B8
Published: 02 February 2016
View articletitled, Abstract B8: Why is there no consensus on GBM subgroups? Understanding the nature of biological and statistical variability in The Cancer Genome Atlas GBM data and the implications for molecular tumor classification
Journal Articles

A Genome-Wide Aberrant RNA Splicing in Patients with Acute Myeloid Leukemia Identifies Novel Potential Disease Markers and Therapeutic Targets

Sophia Adamia, Benjamin Haibe-Kains, Patrick M. Pilarski, Michal Bar-Natan, Samuel Pevzner, Herve Avet-Loiseau, Laurence Lode, Sigitas Verselis, Edward A. Fox, John Burke, Ilene Galinsky, Ibiayi Dagogo-Jack, Martha Wadleigh, David P. Steensma, Gabriela Motyckova, Daniel J. Deangelo, John Quackenbush, Richard Stone, James D. Griffin
Journal: Clinical Cancer Research
Clin Cancer Res (2014) 20 (5): 1135–1145.
https://doi.org/10.1158/1078-0432.CCR-13-0956
Published: 02 March 2014
View articletitled, A Genome-Wide Aberrant RNA Splicing in Patients with Acute Myeloid Leukemia Identifies Novel Potential Disease Markers and Therapeutic Targets
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Includes: Supplementary data
Journal Articles

Sequential Binary Gene Ratio Tests Define a Novel Molecular Diagnostic Strategy for Malignant Pleural Mesothelioma

Assunta De Rienzo, William G. Richards, Beow Y. Yeap, Melissa H. Coleman, Peter E. Sugarbaker, Lucian R. Chirieac, Yaoyu E. Wang, John Quackenbush, Roderick V. Jensen, Raphael Bueno
Journal: Clinical Cancer Research
Clin Cancer Res (2013) 19 (9): 2493–2502.
https://doi.org/10.1158/1078-0432.CCR-12-2117
Published: 30 April 2013
View articletitled, Sequential Binary Gene Ratio Tests Define a Novel Molecular Diagnostic Strategy for Malignant Pleural Mesothelioma
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Includes: Supplementary data
Journal Articles

Expression Profiling of Archival Tumors for Long-term Health Studies

Levi Waldron, Shuji Ogino, Yujin Hoshida, Kaori Shima, Amy E. McCart Reed, Peter T. Simpson, Yoshifumi Baba, Katsuhiko Nosho, Nicola Segata, Ana Cristina Vargas, Margaret C. Cummings, Sunil R. Lakhani, Gregory J. Kirkner, Edward Giovannucci, John Quackenbush, Todd R. Golub, Charles S. Fuchs, Giovanni Parmigiani, Curtis Huttenhower
Journal: Clinical Cancer Research
Clin Cancer Res (2012) 18 (22): 6136–6146.
https://doi.org/10.1158/1078-0432.CCR-12-1915
Published: 14 November 2012
View articletitled, Expression Profiling of Archival Tumors for Long-term Health Studies
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Includes: Supplementary data
Journal Articles

Profiles of Genomic Instability in High-Grade Serous Ovarian Cancer Predict Treatment Outcome

Zhigang C. Wang, Nicolai Juul Birkbak, Aedín C. Culhane, Ronny Drapkin, Aquila Fatima, Ruiyang Tian, Matthew Schwede, Kathryn Alsop, Kathryn E. Daniels, Huiying Piao, Joyce Liu, Dariush Etemadmoghadam, Alexander Miron, Helga B. Salvesen, Gillian Mitchell, Anna DeFazio, John Quackenbush, Ross S. Berkowitz, J. Dirk Iglehart, David D.L. Bowtell, for the Australian Ovarian Cancer Study Group, Ursula A. Matulonis
Journal: Clinical Cancer Research
Clin Cancer Res (2012) 18 (20): 5806–5815.
https://doi.org/10.1158/1078-0432.CCR-12-0857
Published: 14 October 2012
View articletitled, Profiles of Genomic Instability in High-Grade Serous Ovarian Cancer Predict Treatment Outcome
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Includes: Supplementary data
Journal Articles

Characterization and Clinical Evaluation of CD10+ Stroma Cells in the Breast Cancer Microenvironment

Christine Desmedt, Samira Majjaj, Naima Kheddoumi, Sandeep K. Singhal, Benjamin Haibe-Kains, Frank El Ouriaghli, Carole Chaboteaux, Stefan Michiels, Françoise Lallemand, Fabrice Journe, Hughes Duvillier, Sherene Loi, John Quackenbush, Sophie Dekoninck, Cédric Blanpain, Laurence Lagneaux, Nawal Houhou, Mauro Delorenzi, Denis Larsimont, Martine Piccart, Christos Sotiriou
Journal: Clinical Cancer Research
Clin Cancer Res (2012) 18 (4): 1004–1014.
https://doi.org/10.1158/1078-0432.CCR-11-0383
Published: 14 February 2012
View articletitled, Characterization and Clinical Evaluation of CD10+ Stroma Cells in the Breast Cancer Microenvironment
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Includes: Supplementary data
Journal Articles

Identification of Novel Kinase Targets for the Treatment of Estrogen Receptor–Negative Breast Cancer

Corey Speers, Anna Tsimelzon, Krystal Sexton, Ashley M. Herrick, Carolina Gutierrez, Aedin Culhane, John Quackenbush, Susan Hilsenbeck, Jenny Chang, Powel Brown
Journal: Clinical Cancer Research
Clin Cancer Res (2009) 15 (20): 6327–6340.
https://doi.org/10.1158/1078-0432.CCR-09-1107
Published: 14 October 2009
View articletitled, Identification of Novel Kinase Targets for the Treatment of Estrogen Receptor–Negative Breast Cancer
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Includes: Supplementary data