Appraising the relevance of DNA copy number loss and gain in prostate cancer using whole genome DNA sequence data

Coordinate Loss of MAP3K7 and CHD1 Promotes Aggressive Prostate Cancer

(2015) L. U. Rodrigues et al.   CANCER RESEARCH

Integrative Clinical Genomics of Advanced Prostate Cancer

(2015) Dan Robinson et al.   CELL

The Molecular Taxonomy of Primary Prostate Cancer

(2015) Adam Abeshouse et al.   CELL

Prevalence of chromosomal rearrangements involving non-ETS genes in prostate cancer

(2015) MARTINA KLUTH et al.   INTERNATIONAL JOURNAL OF ONCOLOGY

Elevated kinesin family member 26B is a prognostic biomarker and a potential therapeutic target for colorectal cancer

(2015) Jingtao Wang et al.   JOURNAL OF EXPERIMENTAL & CLINICAL CANCER RESEARCH

Data analysis: Create a cloud commons

(2015) Lincoln D. Stein et al.   NATURE

The evolutionary history of lethal metastatic prostate cancer

(2015) Gunes Gundem et al.   NATURE

The landscape of long noncoding RNAs in the human transcriptome

(2015) Matthew K Iyer et al.   NATURE GENETICS

Analysis of the genetic phylogeny of multifocal prostate cancer identifies multiple independent clonal expansions in neoplastic and morphologically normal prostate tissue

(2015) Colin S Cooper et al.   NATURE GENETICS

A comprehensive assessment of somatic mutation detection in cancer using whole-genome sequencing

(2015) Tyler S. Alioto et al.   Nature Communications

NBN gain is predictive for adverse outcome following image-guided radiotherapy for localized prostate cancer

(2015) Alejandro Berlin et al.   Oncotarget

Novel 5′ Fusion Partners of ETV1 and ETV4 in Prostate Cancer

(2015) Joao D. Barros-Silva et al.   NEOPLASIA

PCAT-1 , a Long Noncoding RNA, Regulates BRCA2 and Controls Homologous Recombination in Cancer

(2014) John R. Prensner et al.   CANCER RESEARCH

Human colorectal cancer-specific CCAT1-L lncRNA regulates long-range chromatin interactions at the MYC locus

(2014) Jian-Feng Xiang et al.   CELL RESEARCH

Cancer incidence and mortality worldwide: Sources, methods and major patterns in GLOBOCAN 2012

(2014) Jacques Ferlay et al.   INTERNATIONAL JOURNAL OF CANCER

Decreased expression of the long non-coding RNA FENDRR is associated with poor prognosis in gastric cancer and FENDRR regulates gastric cancer cell metastasis by affecting fibronectin1 expression

(2014) Tong-peng Xu et al.   Journal of Hematology & Oncology

Tumour genomic and microenvironmental heterogeneity for integrated prediction of 5-year biochemical recurrence of prostate cancer: a retrospective cohort study

(2014) Emilie Lalonde et al.   LANCET ONCOLOGY

Comparative analysis of regulatory information and circuits across distant species

(2014) Alan P. Boyle et al.   NATURE

Copy number alteration burden predicts prostate cancer relapse

(2014) H. Hieronymus et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Aberrant Methylation of Protocadherin 17 and its Clinical Significance in Patients with Prostate Cancer after Radical Prostatectomy

(2014) Jian-Guo Ma   MEDICAL SCIENCE MONITOR

Prognostic value of PTEN loss in men with conservatively managed localised prostate cancer

(2013) J Cuzick et al.   BRITISH JOURNAL OF CANCER

Genetic markers associated with early cancer-specific mortality following prostatectomy

(2013) Wennuan Liu et al.   CANCER

Long noncoding RNAs: New players in prostate cancer

(2013) Wen Cheng et al.   CANCER LETTERS

CHD1 Is a 5q21 Tumor Suppressor Required for ERG Rearrangement in Prostate Cancer

(2013) L. Burkhardt et al.   CANCER RESEARCH

Punctuated Evolution of Prostate Cancer Genomes

(2013) Sylvan C. Baca et al.   CELL

Noncoding RNAs in Prostate Cancer: The Long and the Short of It

(2013) E. M. Bolton et al.   CLINICAL CANCER RESEARCH

Long Noncoding RNA in Prostate, Bladder, and Kidney Cancer

(2013) Elena S. Martens-Uzunova et al.   EUROPEAN UROLOGY

Genomic deletion of MAP3K7 at 6q12-22 is associated with early PSA recurrence in prostate cancer and absence of TMPRSS2:ERG fusions

(2013) Martina Kluth et al.   MODERN PATHOLOGY

High Expression of KIF26B in Breast Cancer Associates with Poor Prognosis

(2013) Qun Wang et al.   PLoS One

Software for Computing and Annotating Genomic Ranges

(2013) Michael Lawrence et al.   PLoS Computational Biology

A travel guide to Cytoscape plugins

(2012) Rintaro Saito et al.   NATURE METHODS

Method for sampling tissue for research which preserves pathological data in radical prostatectomy

(2012) Anne Y. Warren et al.   PROSTATE

Recurrent Hemizygous Deletions in Cancers May Optimize Proliferative Potential

(2012) N. L. Solimini et al.   SCIENCE

Adaptor Protein Self-Assembly Drives the Control of a Cullin-RING Ubiquitin Ligase

(2012) Wesley J. Errington et al.   STRUCTURE

Reliable detection of subclonal single-nucleotide variants in tumour cell populations

(2012) Moritz Gerstung et al.   Nature Communications

Allelic Variation and Differential Expression of the mSIN3A Histone Deacetylase Complex Gene Arid4b Promote Mammary Tumor Growth and Metastasis

(2012) Scott F. Winter et al.   PLoS Genetics

TCF21andPCDH17methylation: An innovative panel of biomarkers for a simultaneous detection of urological cancers

(2011) Vera L. Costa et al.   Epigenetics

Prognostic value of an RNA expression signature derived from cell cycle proliferation genes in patients with prostate cancer: a retrospective study

(2011) Jack Cuzick et al.   LANCET ONCOLOGY

DNA replication timing and long-range DNA interactions predict mutational landscapes of cancer genomes

(2011) Subhajyoti De et al.   NATURE BIOTECHNOLOGY

High order chromatin architecture shapes the landscape of chromosomal alterations in cancer

(2011) Geoff Fudenberg et al.   NATURE BIOTECHNOLOGY

Transcriptome sequencing across a prostate cancer cohort identifies PCAT-1, an unannotated lincRNA implicated in disease progression

(2011) John R Prensner et al.   NATURE BIOTECHNOLOGY

GISTIC2.0 facilitates sensitive and confident localization of the targets of focal somatic copy-number alteration in human cancers

(2011) Craig H Mermel et al.   GENOME BIOLOGY

Fast and accurate long-read alignment with Burrows–Wheeler transform

(2010) Heng Li et al.   BIOINFORMATICS

Integrative Genomic Profiling of Human Prostate Cancer

(2010) Barry S. Taylor et al.   CANCER CELL

Distinct Genomic Alterations in Prostate Cancers in Chinese and Western Populations Suggest Alternative Pathways of Prostate Carcinogenesis

(2010) X. Mao et al.   CANCER RESEARCH

Copy number and targeted mutational analysis reveals novel somatic events in metastatic prostate tumors

(2010) C. M. Robbins et al.   GENOME RESEARCH

The landscape of somatic copy-number alteration across human cancers

(2010) Rameen Beroukhim et al.   NATURE

Allele-specific copy number analysis of tumors

(2010) P. Van Loo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Pindel: a pattern growth approach to detect break points of large deletions and medium sized insertions from paired-end short reads

(2009) K. Ye et al.   BIOINFORMATICS

Copy number analysis indicates monoclonal origin of lethal metastatic prostate cancer

(2009) Wennuan Liu et al.   NATURE MEDICINE

ETS gene fusions in prostate cancer

(2009) Jeremy P. Clark et al.   Nature Reviews Urology

Distinct High-Profile Methylated Genes in Colorectal Cancer

(2009) Pooneh Mokarram et al.   PLoS One

Genome-Wide Promoter Analysis Uncovers Portions of the Cancer Methylome

(2008) M. O. Hoque et al.   CANCER RESEARCH

Genomic Alterations Indicate Tumor Origin and Varied Metastatic Potential of Disseminated Cells from Prostate Cancer Patients

(2008) I. N. Holcomb et al.   CANCER RESEARCH

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

(2008) D. R. Zerbino et al.   GENOME RESEARCH

Identification of Chromatin Remodeling Genes Arid4a and Arid4b as Leukemia Suppressor Genes

(2008) M.-Y. Wu et al.   JNCI-Journal of the National Cancer Institute