Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity

Spatial heterogeneity in medulloblastoma

(2017) A Sorana Morrissy et al.   NATURE GENETICS

A pathology atlas of the human cancer transcriptome

(2017) Mathias Uhlen et al.   SCIENCE

Comprehensive analysis of normal adjacent to tumor transcriptomes

(2017) Dvir Aran et al.   Nature Communications

The clearance of dying cells: table for two

(2016) D R Green et al.   CELL DEATH AND DIFFERENTIATION

The Emerging Hallmarks of Cancer Metabolism

(2016) Natalya N. Pavlova et al.   Cell Metabolism

Grading of prostatic adenocarcinoma: current state and prognostic implications

(2016) Jennifer Gordetsky et al.   Diagnostic Pathology

PathwAX: a web server for network crosstalk based pathway annotation

(2016) Christoph Ogris et al.   NUCLEIC ACIDS RESEARCH

Visualization and analysis of gene expression in tissue sections by spatial transcriptomics

(2016) P. L. Stahl et al.   SCIENCE

Integrative Clinical Genomics of Advanced Prostate Cancer

(2015) Dan Robinson et al.   CELL

Single-Cell Transcriptomics Enters the Age of Mass Production

(2015) Jan Philipp Junker et al.   MOLECULAR CELL

Single-cell messenger RNA sequencing reveals rare intestinal cell types

(2015) Dominic Grün et al.   NATURE

The evolutionary history of lethal metastatic prostate cancer

(2015) Gunes Gundem et al.   NATURE

Spatial reconstruction of single-cell gene expression data

(2015) Rahul Satija et al.   NATURE BIOTECHNOLOGY

High-throughput spatial mapping of single-cell RNA-seq data to tissue of origin

(2015) Kaia Achim et al.   NATURE BIOTECHNOLOGY

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

DNA-Repair Defects and Olaparib in Metastatic Prostate Cancer

(2015) Joaquin Mateo et al.   NEW ENGLAND JOURNAL OF MEDICINE

Tracking the origins and drivers of subclonal metastatic expansion in prostate cancer

(2015) Matthew K.H. Hong et al.   Nature Communications

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

(2014) S. Anders et al.   BIOINFORMATICS

Single-cell RNA-seq highlights intratumoral heterogeneity in primary glioblastoma

(2014) A. P. Patel et al.   SCIENCE

Spatial and temporal diversity in genomic instability processes defines lung cancer evolution

(2014) E. C. de Bruin et al.   SCIENCE

Highly Multiplexed Subcellular RNA Sequencing in Situ

(2014) J. H. Lee et al.   SCIENCE

Regulation of the pentose phosphate pathway by an androgen receptor–mTOR-mediated mechanism and its role in prostate cancer cell growth

(2014) E Tsouko et al.   Oncogenesis

Oxygen Sensing, Hypoxia-Inducible Factors, and Disease Pathophysiology

(2013) Gregg L. Semenza   Annual Review of Pathology-Mechanisms of Disease

Tumor protein translationally controlled 1 is a p53 target gene that promotes cell survival

(2013) Weimin Chen et al.   CELL CYCLE

In situ sequencing for RNA analysis in preserved tissue and cells

(2013) Rongqin Ke et al.   NATURE METHODS

Exome Sequencing of Prostate Cancer Supports the Hypothesis of Independent Tumour Origins

(2012) Johan Lindberg et al.   EUROPEAN UROLOGY

Global estimates of cancer prevalence for 27 sites in the adult population in 2008

(2012) Freddie Bray et al.   INTERNATIONAL JOURNAL OF CANCER

Intratumor Heterogeneity and Branched Evolution Revealed by Multiregion Sequencing

(2012) Marco Gerlinger et al.   NEW ENGLAND JOURNAL OF MEDICINE

Hallmarks of Cancer: The Next Generation

(2011) Douglas Hanahan et al.   CELL

ReadDepth: A Parallel R Package for Detecting Copy Number Alterations from Short Sequencing Reads

(2011) Christopher A. Miller et al.   PLoS One

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

(2010) Heng Li et al.   BIOINFORMATICS

Macrophage Diversity Enhances Tumor Progression and Metastasis

(2010) Bin-Zhi Qian et al.   CELL

Novel common copy number variation for early onset extreme obesity on chromosome 11q11 identified by a genome-wide analysis

(2010) Ivonne Jarick et al.   HUMAN MOLECULAR GENETICS

Markers of fibrosis and epithelial to mesenchymal transition demonstrate field cancerization in histologically normal tissue adjacent to breast tumors

(2010) Kristina A. Trujillo et al.   INTERNATIONAL JOURNAL OF CANCER

Poly(ADP)-Ribose Polymerase Inhibition: Frequent Durable Responses inBRCACarrier Ovarian Cancer Correlating With Platinum-Free Interval

(2010) Peter C. Fong et al.   JOURNAL OF CLINICAL ONCOLOGY

Wnt/β-Catenin activation promotes prostate tumor progression in a mouse model

(2010) X Yu et al.   ONCOGENE

The rs10993994 Risk Allele for Prostate Cancer Results in Clinically Relevant Changes in Microseminoprotein-Beta Expression in Tissue and Urine

(2010) Hayley C. Whitaker et al.   PLoS One

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Expression of the actin-associated protein transgelin (SM22) is decreased in prostate cancer

(2009) Priya D. Prasad et al.   CELL AND TISSUE RESEARCH

Modulation of the antitumor immune response by complement

(2008) Maciej M Markiewski et al.   NATURE IMMUNOLOGY