Reshaping of the androgen-driven chromatin landscape in normal prostate cells by early cancer drivers and effect on therapeutic sensitivity

A genomic and epigenomic atlas of prostate cancer in Asian populations

(2020) Jing Li et al.   NATURE

Association of SPOP Mutations with Outcomes in Men with De Novo Metastatic Castration-sensitive Prostate Cancer

(2020) Umang Swami et al.   EUROPEAN UROLOGY

CHD1 Loss Alters AR Binding at Lineage-Specific Enhancers and Modulates Distinct Transcriptional Programs to Drive Prostate Tumorigenesis

(2019) Michael A. Augello et al.   CANCER CELL

Cistrome-GO: a web server for functional enrichment analysis of transcription factor ChIP-seq peaks

(2019) Shaojuan Li et al.   NUCLEIC ACIDS RESEARCH

Genomic correlates of clinical outcome in advanced prostate cancer

(2019) Wassim Abida et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

FOXA1 mutations alter pioneering activity, differentiation and prostate cancer phenotypes

(2019) Elizabeth J. Adams et al.   NATURE

Distinct structural classes of activating FOXA1 alterations in advanced prostate cancer

(2019) Abhijit Parolia et al.   NATURE

Factors that influence the androgen receptor cistrome in benign and malignant prostate cells

(2019) Ben T Copeland et al.   Molecular Oncology

Cancer Mutations of the Tumor Suppressor SPOP Disrupt the Formation of Active, Phase-Separated Compartments

(2018) Jill J. Bouchard et al.   MOLECULAR CELL

Integrative epigenetic taxonomy of primary prostate cancer

(2018) Suzan Stelloo et al.   Nature Communications

SPOP mutation drives prostate neoplasia without stabilizing oncogenic transcription factor ERG

(2017) Jonathan Shoag et al.   JOURNAL OF CLINICAL INVESTIGATION

High expression of PDLIM5 facilitates cell tumorigenesis and migration by maintaining AMPK activation in prostate cancer

(2017) Xi Liu et al.   Oncotarget

Organoid culture systems for prostate epithelial and cancer tissue

(2016) Jarno Drost et al.   Nature Protocols

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

The Molecular Taxonomy of Primary Prostate Cancer

(2015) Adam Abeshouse et al.   CELL

The androgen receptor cistrome is extensively reprogrammed in human prostate tumorigenesis

(2015) Mark M Pomerantz et al.   NATURE GENETICS

SPOP mutation leads to genomic instability in prostate cancer

(2015) Gunther Boysen et al.   eLife

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Androgen Receptor Is the Key Transcriptional Mediator of the Tumor Suppressor SPOP in Prostate Cancer

(2014) C. Geng et al.   CANCER RESEARCH

Identification of Multipotent Luminal Progenitor Cells in Human Prostate Organoid Cultures

(2014) Wouter R. Karthaus et al.   CELL

Ubiquitylome analysis identifies dysregulation of effector substrates in SPOP-mutant prostate cancer

(2014) J.-P. P. Theurillat et al.   SCIENCE

Destruction of Full-Length Androgen Receptor by Wild-Type SPOP, but Not Prostate-Cancer-Associated Mutants

(2014) Jian An et al.   Cell Reports

Punctuated Evolution of Prostate Cancer Genomes

(2013) Sylvan C. Baca et al.   CELL

Prostate cancer-associated mutations in speckle-type POZ protein (SPOP) regulate steroid receptor coactivator 3 protein turnover

(2013) C. Geng et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

The Androgen Receptor Induces a Distinct Transcriptional Program in Castration-Resistant Prostate Cancer in Man

(2012) Naomi L. Sharma et al.   CANCER CELL

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

(2012) S. G. Landt et al.   GENOME RESEARCH

Differential oestrogen receptor binding is associated with clinical outcome in breast cancer

(2012) Caryn S. Ross-Innes et al.   NATURE

Exome sequencing identifies recurrent SPOP, FOXA1 and MED12 mutations in prostate cancer

(2012) Christopher E Barbieri et al.   NATURE GENETICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Differential expression analysis of multifactor RNA-Seq experiments with respect to biological variation

(2012) Davis J. McCarthy et al.   NUCLEIC ACIDS RESEARCH

The cBio Cancer Genomics Portal: An Open Platform for Exploring Multidimensional Cancer Genomics Data: Figure 1.

(2012) Ethan Cerami et al.   Cancer Discovery

Cell Autonomous Role of PTEN in Regulating Castration-Resistant Prostate Cancer Growth

(2011) David J. Mulholland et al.   CANCER CELL

Reciprocal Feedback Regulation of PI3K and Androgen Receptor Signaling in PTEN-Deficient Prostate Cancer

(2011) Brett S. Carver et al.   CANCER CELL

The AR dependent cell cycle: Mechanisms and cancer relevance

(2011) Matthew J. Schiewer et al.   MOLECULAR AND CELLULAR ENDOCRINOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Nucleosome dynamics define transcriptional enhancers

(2010) Housheng Hansen He et al.   NATURE GENETICS

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Structures of SPOP-Substrate Complexes: Insights into Molecular Architectures of BTB-Cul3 Ubiquitin Ligases

(2009) Min Zhuang et al.   MOLECULAR CELL

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY