Integrative clinical genomics of metastatic cancer

Translating RNA sequencing into clinical diagnostics: opportunities and challenges

(2016) Sara A. Byron et al.   NATURE REVIEWS GENETICS

Inherited DNA-Repair Gene Mutations in Men with Metastatic Prostate Cancer

(2016) Colin C. Pritchard et al.   NEW ENGLAND JOURNAL OF MEDICINE

Metastasis as an evolutionary process

(2016) S. Turajlic et al.   SCIENCE

Integrative Clinical Genomics of Advanced Prostate Cancer

(2015) Dan Robinson et al.   CELL

The use of exome capture RNA-seq for highly degraded RNA with application to clinical cancer sequencing

(2015) Marcin Cieslik et al.   GENOME RESEARCH

Integrative Clinical Sequencing in the Management of Refractory or Relapsed Cancer in Youth

(2015) Rajen J. Mody et al.   JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION

PD-L1 Expression as a Predictive Biomarker in Cancer Immunotherapy

(2015) S. P. Patel et al.   MOLECULAR CANCER THERAPEUTICS

MAGI: visualization and collaborative annotation of genomic aberrations

(2015) Mark D M Leiserson et al.   NATURE METHODS

Robust enumeration of cell subsets from tissue expression profiles

(2015) Aaron M Newman et al.   NATURE METHODS

DNA-Repair Defects and Olaparib in Metastatic Prostate Cancer

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

Mutational landscape determines sensitivity to PD-1 blockade in non-small cell lung cancer

(2015) N. A. Rizvi et al.   SCIENCE

Personalized genomic analyses for cancer mutation discovery and interpretation

(2015) Siân Jones et al.   Science Translational Medicine

Next-generation sequencing to guide cancer therapy

(2015) Jeffrey Gagan et al.   Genome Medicine

The Molecular Signatures Database Hallmark Gene Set Collection

(2015) Arthur Liberzon et al.   Cell Systems

NovelPRKDgene rearrangements and variant fusions in cribriform adenocarcinoma of salivary gland origin

(2014) Ilan Weinreb et al.   GENES CHROMOSOMES & CANCER

Extraskeletal myxoid chondrosarcoma with non–EWSR1-NR4A3 variant fusions correlate with rhabdoid phenotype and high-grade morphology

(2014) Narasimhan P. Agaram et al.   HUMAN PATHOLOGY

The landscape of kinase fusions in cancer

(2014) Nicolas Stransky et al.   Nature Communications

The translation of cancer genomics: time for a revolution in clinical cancer care

(2014) Elaine R Mardis   Genome Medicine

GSVA: gene set variation analysis for microarray and RNA-Seq data

(2013) Sonja Hänzelmann et al.   BMC BIOINFORMATICS

The integration of next-generation sequencing panels in the clinical cancer genetics practice: an institutional experience

(2013) Caitlin B. Mauer et al.   GENETICS IN MEDICINE

Predictive Gene Signature in MAGE-A3 Antigen-Specific Cancer Immunotherapy

(2013) Fernando Ulloa-Montoya et al.   JOURNAL OF CLINICAL ONCOLOGY

viSNE enables visualization of high dimensional single-cell data and reveals phenotypic heterogeneity of leukemia

(2013) El-ad David Amir et al.   NATURE BIOTECHNOLOGY

The Cancer Genome Atlas Pan-Cancer analysis project

(2013) John N Weinstein et al.   NATURE GENETICS

The Genotype-Tissue Expression (GTEx) project

(2013) John Lonsdale et al.   NATURE GENETICS

Inferring tumour purity and stromal and immune cell admixture from expression data

(2013) Kosuke Yoshihara et al.   Nature Communications

Molecular signatures database (MSigDB) 3.0

(2011) A. Liberzon et al.   BIOINFORMATICS

Functionally recurrent rearrangements of the MAST kinase and Notch gene families in breast cancer

(2011) Dan R Robinson et al.   NATURE MEDICINE

Personalized Oncology Through Integrative High-Throughput Sequencing: A Pilot Study

(2011) S. Roychowdhury et al.   Science Translational Medicine

High-Throughput Detection of Actionable Genomic Alterations in Clinical Tumor Samples by Targeted, Massively Parallel Sequencing

(2011) Nikhil Wagle et al.   Cancer Discovery

Inference of patient-specific pathway activities from multi-dimensional cancer genomics data using PARADIGM

(2010) Charles J. Vaske et al.   BIOINFORMATICS

Rearrangements of the RAF kinase pathway in prostate cancer, gastric cancer and melanoma

(2010) Nallasivam Palanisamy et al.   NATURE MEDICINE

Clinical Significance of Tumor-Infiltrating Lymphocytes in Lung Neoplasms

(2009) Enrico Ruffini et al.   ANNALS OF THORACIC SURGERY

Simultaneous Infiltration of Polyfunctional Effector and Suppressor T Cells into Renal Cell Carcinomas

(2009) S. Attig et al.   CANCER RESEARCH

Inflammation and EMT: an alliance towards organ fibrosis and cancer progression

(2009) Jose Miguel López-Novoa et al.   EMBO Molecular Medicine

Favorable outcome in clinically stage II melanoma patients is associated with the presence of activated tumor infiltrating T-lymphocytes and preserved MHC class I antigen expression

(2008) Inge S. van Houdt et al.   INTERNATIONAL JOURNAL OF CANCER