N-Myc–mediated epigenetic reprogramming drives lineage plasticity in advanced prostate cancer

Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation

(2018) Tathiane M. Malta et al.   CELL

Developmental History Provides a Roadmap for the Emergence of Tumor Plasticity

(2018) Purushothama Rao Tata et al.   DEVELOPMENTAL CELL

Clinical and Genomic Characterization of Treatment-Emergent Small-Cell Neuroendocrine Prostate Cancer: A Multi-institutional Prospective Study

(2018) Rahul Aggarwal et al.   JOURNAL OF CLINICAL ONCOLOGY

Enhancer invasion shapes MYCN-dependent transcriptional amplification in neuroblastoma

(2018) Rhamy Zeid et al.   NATURE GENETICS

Asf1a resolves bivalent chromatin domains for the induction of lineage-specific genes during mouse embryonic stem cell differentiation

(2018) Yuan Gao et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Diverse AR-V7 cistromes in castration-resistant prostate cancer are governed by HoxB13

(2018) Zhong Chen et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Patient derived organoids to model rare prostate cancer phenotypes

(2018) Loredana Puca et al.   Nature Communications

The Expanding World of N-MYC–Driven Tumors

(2018) David S. Rickman et al.   Cancer Discovery

A Human Adult Stem Cell Signature Marks Aggressive Variants across Epithelial Cancers

(2018) Bryan A. Smith et al.   Cell Reports

Reprogramming normal human epithelial tissues to a common, lethal neuroendocrine cancer lineage

(2018) Jung Wook Park et al.   SCIENCE

Cbx3 maintains lineage specificity during neural differentiation

(2017) Chengyang Huang et al.   GENES & DEVELOPMENT

TMPRSS2–ERG fusion co-opts master transcription factors and activates NOTCH signaling in primary prostate cancer

(2017) Ken J Kron et al.   NATURE GENETICS

Biology and evolution of poorly differentiated neuroendocrine tumors

(2017) David S Rickman et al.   NATURE MEDICINE

SOX2 promotes lineage plasticity and antiandrogen resistance in TP53 - and RB1 -deficient prostate cancer

(2017) Ping Mu et al.   SCIENCE

Rb1 and Trp53 cooperate to suppress prostate cancer lineage plasticity, metastasis, and antiandrogen resistance

(2017) Sheng Yu Ku et al.   SCIENCE

Blinatumomab-induced lineage switch of B-ALL with t(4:11)(q21;q23) KMT2A/AFF1 into an aggressive AML: pre- and post-switch phenotypic, cytogenetic and molecular analysis

(2017) C L Haddox et al.   Blood Cancer Journal

Transdifferentiation as a Mechanism of Treatment Resistance in a Mouse Model of Castration-Resistant Prostate Cancer

(2017) Min Zou et al.   Cancer Discovery

Association with Aurora-A Controls N-MYC-Dependent Promoter Escape and Pause Release of RNA Polymerase II during the Cell Cycle

(2017) Gabriele Büchel et al.   Cell Reports

Single-Cell Transcriptomic Analysis Defines Heterogeneity and Transcriptional Dynamics in the Adult Neural Stem Cell Lineage

(2017) Ben W. Dulken et al.   Cell Reports

N-Myc Induces an EZH2-Mediated Transcriptional Program Driving Neuroendocrine Prostate Cancer

(2016) Etienne Dardenne et al.   CANCER CELL

N-Myc Drives Neuroendocrine Prostate Cancer Initiated from Human Prostate Epithelial Cells

(2016) John K. Lee et al.   CANCER CELL

Genetic requirement forMycland efficacy of RNA Pol I inhibition in mouse models of small cell lung cancer

(2016) Dong-Wook Kim et al.   GENES & DEVELOPMENT

The ubiquitin ligase Huwe1 regulates the maintenance and lymphoid commitment of hematopoietic stem cells

(2016) Bryan King et al.   NATURE IMMUNOLOGY

Divergent clonal evolution of castration-resistant neuroendocrine prostate cancer

(2016) Himisha Beltran et al.   NATURE MEDICINE

Rapid immunoprecipitation mass spectrometry of endogenous proteins (RIME) for analysis of chromatin complexes

(2016) Hisham Mohammed et al.   Nature Protocols

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

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

FOXA1 acts upstream of GATA2 and AR in hormonal regulation of gene expression

(2016) J C Zhao et al.   ONCOGENE

The Master Neural Transcription Factor BRN2 Is an Androgen Receptor–Suppressed Driver of Neuroendocrine Differentiation in Prostate Cancer

(2016) Jennifer L. Bishop et al.   Cancer Discovery

Characterization of pancreatic glucagon-producing tumors and pituitary gland tumors in transgenic mice overexpressing MYCN in hGFAP-positive cells

(2016) Kathrin Fielitz et al.   Oncotarget

Different promoter affinities account for specificity in MYC-dependent gene regulation

(2016) Francesca Lorenzin et al.   eLife

Combined Tumor Suppressor Defects Characterize Clinically Defined Aggressive Variant Prostate Cancers

(2015) A. M. Aparicio et al.   CLINICAL CANCER RESEARCH

SRRM4 Expression and the Loss of REST Activity May Promote the Emergence of the Neuroendocrine Phenotype in Castration-Resistant Prostate Cancer

(2015) X. Zhang et al.   CLINICAL CANCER RESEARCH

The androgen receptor cistrome is extensively reprogrammed in human prostate tumorigenesis

(2015) Mark M Pomerantz et al.   NATURE GENETICS

RB loss in resistant EGFR mutant lung adenocarcinomas that transform to small-cell lung cancer

(2015) Matthew J. Niederst et al.   Nature Communications

Whole-Exome Sequencing of Metastatic Cancer and Biomarkers of Treatment Response

(2015) Himisha Beltran et al.   JAMA Oncology

Concurrent AURKA and MYCN Gene Amplifications Are Harbingers of Lethal TreatmentRelated Neuroendocrine Prostate Cancer

(2015) Juan Miguel Mosquera et al.   NEOPLASIA

Proposed Morphologic Classification of Prostate Cancer With Neuroendocrine Differentiation

(2014) Jonathan I. Epstein et al.   AMERICAN JOURNAL OF SURGICAL PATHOLOGY

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

(2014) S. Anders et al.   BIOINFORMATICS

Trimmomatic: a flexible trimmer for Illumina sequence data

(2014) Anthony M. Bolger et al.   BIOINFORMATICS

Rapid target gene validation in complex cancer mouse models using re-derived embryonic stem cells

(2014) Ivo J Huijbers et al.   EMBO Molecular Medicine

A Cre-conditional MYCN-driven neuroblastoma mouse model as an improved tool for preclinical studies

(2014) K Althoff et al.   ONCOGENE

Acinar cell carcinomas of the pancreas: a molecular analysis in a series of 57 cases

(2014) Frank Bergmann et al.   VIRCHOWS ARCHIV

The oestrogen receptor alpha-regulated lncRNA NEAT1 is a critical modulator of prostate cancer

(2014) Dimple Chakravarty et al.   Nature Communications

MYC, MAX, and Small Cell Lung Cancer

(2014) C. M. Rudin et al.   Cancer Discovery

Animal Models of Human Prostate Cancer: The Consensus Report of the New York Meeting of the Mouse Models of Human Cancers Consortium Prostate Pathology Committee

(2013) M. Ittmann et al.   CANCER RESEARCH

Rb Loss Is Characteristic of Prostatic Small Cell Neuroendocrine Carcinoma

(2013) H.-L. Tan et al.   CLINICAL CANCER RESEARCH

ETS factors reprogram the androgen receptor cistrome and prime prostate tumorigenesis in response to PTEN loss

(2013) Yu Chen et al.   NATURE MEDICINE

The sva package for removing batch effects and other unwanted variation in high-throughput experiments

(2012) Jeffrey T. Leek et al.   BIOINFORMATICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Distinct Neural Stem Cell Populations Give Rise to Disparate Brain Tumors in Response to N-MYC

(2012) Fredrik J. Swartling et al.   CANCER CELL

MYC on the Path to Cancer

(2012) Chi V. Dang   CELL

Integrative genome analyses identify key somatic driver mutations of small-cell lung cancer

(2012) Martin Peifer et al.   NATURE GENETICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

A framework for identification of actionable cancer genome dependencies in small cell lung cancer

(2012) M. L. Sos et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Prostate Epithelial Pten/TP53 Loss Leads to Transformation of Multipotential Progenitors and Epithelial to Mesenchymal Transition

(2011) Philip Martin et al.   AMERICAN JOURNAL OF PATHOLOGY

Modeling a Lethal Prostate Cancer Variant with Small-Cell Carcinoma Features

(2011) V. Tzelepi et al.   CLINICAL CANCER RESEARCH

Molecular profiling reveals frequent gain of MYCN and anaplasia-specific loss of 4q and 14q in wilms tumor

(2011) Richard D. Williams et al.   GENES CHROMOSOMES & CANCER

MYC Cooperates with AKT in Prostate Tumorigenesis and Alters Sensitivity to mTOR Inhibitors

(2011) Nicola J. Clegg et al.   PLoS One

Genotypic and Histological Evolution of Lung Cancers Acquiring Resistance to EGFR Inhibitors

(2011) L. V. Sequist et al.   Science Translational Medicine

Molecular Characterization of Neuroendocrine Prostate Cancer and Identification of New Drug Targets

(2011) H. Beltran et al.   Cancer Discovery

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

A Tissue-Specific Atlas of Mouse Protein Phosphorylation and Expression

(2010) Edward L. Huttlin et al.   CELL

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

Neuroendocrine prostate cancer xenografts with large-cell and small-cell features derived from a single patient's tumor: Morphological, immunohistochemical, and gene expression profiles

(2010) Ana Aparicio et al.   PROSTATE

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Androgen Receptor Regulates a Distinct Transcription Program in Androgen-Independent Prostate Cancer

(2009) Qianben Wang et al.   CELL

Nuclear MYC protein overexpression is an early alteration in human prostate carcinogenesis

(2008) Bora Gurel et al.   MODERN PATHOLOGY

Genome-scale DNA methylation maps of pluripotent and differentiated cells

(2008) Alexander Meissner et al.   NATURE

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY