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Tumor purity adjusted beta values improve biological interpretability of high-dimensional DNA methylation data

PloS one, 2022-09, Vol.17 (9), p.e0265557-e0265557

2022

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A Molecular Taxonomy for Urothelial Carcinoma

Clinical cancer research, 2012-06, Vol.18 (12), p.3377-3386

2012

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Toward a Molecular Pathologic Classification of Urothelial Carcinoma

The American journal of pathology, 2013-09, Vol.183 (3), p.681-691

2013

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Tumour immune characterisation of primary triple-negative breast cancer using automated image quantification of immunohistochemistry-stained immune cells

Scientific reports, 2024-09, Vol.14 (1), p.21417-19, Article 21417

2024

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Comprehensive molecular comparison of BRCA1 hypermethylated and BRCA1 mutated triple negative breast cancers

Nature communications, 2020-07, Vol.11 (1), p.3747-3747, Article 3747

2020

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Molecular analyses of triple-negative breast cancer in the young and elderly

Breast cancer research : BCR, 2021-02, Vol.23 (1), p.20-20, Article 20

2021

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An integrated genomics analysis of epigenetic subtypes in human breast tumors links DNA methylation patterns to chromatin states in normal mammary cells

Breast cancer research : BCR, 2016-02, Vol.18 (1), p.27-27, Article 27

2016

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SRIQ clustering: A fusion of Random Forest, QT clustering, and KNN concepts

Computational and structural biotechnology journal, 2022-01, Vol.20, p.1567-1579

2022

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Integrative epigenomic analysis of differential DNA methylation in urothelial carcinoma

Genome medicine, 2015-03, Vol.7 (1), p.23-23, Article 23

2015

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Genome-Wide DNA Methylation Analysis in Melanoma Reveals the Importance of CpG Methylation in MITF Regulation

Journal of investigative dermatology, 2015-07, Vol.135 (7), p.1820-1828

2015

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Detailed Analysis of Focal Chromosome Arm 1q and 6p Amplifications in Urothelial Carcinoma Reveals Complex Genomic Events on 1q, and SOX4 as a Possible Auxiliary Target on 6p

PloS one, 2013-06, Vol.8 (6), p.e67222-e67222

2013

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Methylation Patterns and Chromatin Accessibility in Neuroendocrine Lung Cancer

Cancers, 2020-08, Vol.12 (8), p.2003

2020

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DNA methylation analyses of urothelial carcinoma reveal distinct epigenetic subtypes and an association between gene copy number and methylation status

Epigenetics, 2012-08, Vol.7 (8), p.858-867

2012

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Biological determinants of bladder cancer gene expression subtypes

Scientific reports, 2015-06, Vol.5 (1), p.10957-10957, Article 10957

2015

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A Consensus Molecular Classification of Muscle-invasive Bladder Cancer

European urology, 2020-04, Vol.77 (4), p.420-433

2020

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Genetic Alterations in the Molecular Subtypes of Bladder Cancer: Illustration in the Cancer Genome Atlas Dataset

European urology, 2017-09, Vol.72 (3), p.354-365

2017

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On Molecular Classification of Bladder Cancer: Out of One, Many

European urology, 2015-12, Vol.68 (6), p.921-923

2015

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Molecular characteristics of lung adenocarcinoma with respect to patient age at diagnosis

International journal of cancer, 2023-07, Vol.153 (1), p.197-209

2023

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A Molecular Pathologic Framework for Risk Stratification of Stage T1 Urothelial Carcinoma

European urology, 2015-11, Vol.68 (5), p.824-832

2015

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Comprehensive Transcriptional Analysis of Early-Stage Urothelial Carcinoma

Cancer cell, 2016-07, Vol.30 (1), p.27-42

2016

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Molecular subtypes of urothelial carcinoma are defined by specific gene regulatory systems

BMC medical genomics, 2015-05, Vol.8 (1), p.25-25, Article 25

2015

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Re: David J. McConkey, Woonyoung Choi, Colin P.N. Dinney. New Insights into Subtypes of Invasive Bladder Cancer: Considerations of the Clinician. Eur Urol 2014;66:609–10

European urology, 2015-04, Vol.67 (4), p.e73-e75

2015

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Reply from Authors re: Bas W.G. van Rhijn, Mark A. Behrendt, Kees Hendricksen, Theo H. van der Kwast. Toward Optimal Prediction of Prognosis in T1 Urothelial Carcinoma of the Bladder. Eur Urol 2015;68:833–4

European urology, 2015-11, Vol.68 (5), p.835-836

2015

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Reply To Kenneth B. Yatai, Mark J. Dunning, Dennis Wang. Consensus Genomic Subtypes of Muscle-invasive Bladder Cancer: A Step in the Right Direction but Still a Long Way To Go. Eur Urol 2020;77:434–5

European urology, 2020-04, Vol.77 (4), p.436-438

2020

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Tumor purity adjusted beta values improve biological interpretability of high-dimensional DNA methylation data

A Molecular Taxonomy for Urothelial Carcinoma

Toward a Molecular Pathologic Classification of Urothelial Carcinoma

Tumour immune characterisation of primary triple-negative breast cancer using automated image quantification of immunohistochemistry-stained immune cells

Comprehensive molecular comparison of BRCA1 hypermethylated and BRCA1 mutated triple negative breast cancers

Molecular analyses of triple-negative breast cancer in the young and elderly

An integrated genomics analysis of epigenetic subtypes in human breast tumors links DNA methylation patterns to chromatin states in normal mammary cells

SRIQ clustering: A fusion of Random Forest, QT clustering, and KNN concepts

Integrative epigenomic analysis of differential DNA methylation in urothelial carcinoma

Genome-Wide DNA Methylation Analysis in Melanoma Reveals the Importance of CpG Methylation in MITF Regulation

Detailed Analysis of Focal Chromosome Arm 1q and 6p Amplifications in Urothelial Carcinoma Reveals Complex Genomic Events on 1q, and SOX4 as a Possible Auxiliary Target on 6p

Methylation Patterns and Chromatin Accessibility in Neuroendocrine Lung Cancer

DNA methylation analyses of urothelial carcinoma reveal distinct epigenetic subtypes and an association between gene copy number and methylation status

Biological determinants of bladder cancer gene expression subtypes

A Consensus Molecular Classification of Muscle-invasive Bladder Cancer

Genetic Alterations in the Molecular Subtypes of Bladder Cancer: Illustration in the Cancer Genome Atlas Dataset

On Molecular Classification of Bladder Cancer: Out of One, Many

Molecular characteristics of lung adenocarcinoma with respect to patient age at diagnosis

A Molecular Pathologic Framework for Risk Stratification of Stage T1 Urothelial Carcinoma

Comprehensive Transcriptional Analysis of Early-Stage Urothelial Carcinoma

Molecular subtypes of urothelial carcinoma are defined by specific gene regulatory systems

Re: David J. McConkey, Woonyoung Choi, Colin P.N. Dinney. New Insights into Subtypes of Invasive Bladder Cancer: Considerations of the Clinician. Eur Urol 2014;66:609–10

Reply from Authors re: Bas W.G. van Rhijn, Mark A. Behrendt, Kees Hendricksen, Theo H. van der Kwast. Toward Optimal Prediction of Prognosis in T1 Urothelial Carcinoma of the Bladder. Eur Urol 2015;68:833–4

Proteogenomics of non-small cell lung cancer reveals molecular subtypes associated with specific therapeutic targets and immune evasion mechanisms

Reply To Kenneth B. Yatai, Mark J. Dunning, Dennis Wang. Consensus Genomic Subtypes of Muscle-invasive Bladder Cancer: A Step in the Right Direction but Still a Long Way To Go. Eur Urol 2020;77:434–5

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