Computational purification of individual tumor gene expression profiles leads to significant improvements in prognostic prediction

Tumour molecular profiling for deciding therapy—the French initiative

(2012) Frédérique Nowak et al.   Nature Reviews Clinical Oncology

Integrated genomic analyses of ovarian carcinoma

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A Quantitative Comparison of Cell-Type-Specific Microarray Gene Expression Profiling Methods in the Mouse Brain

(2011) Benjamin W. Okaty et al.   PLoS One

Robust unmixing of tumor states in array comparative genomic hybridization data

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Statistical expression deconvolution from mixed tissue samples

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Probabilistic analysis of gene expression measurements from heterogeneous tissues

(2010) Timo Erkkilä et al.   BIOINFORMATICS

The proportion of tumour cells is an independent predictor for survival in colorectal cancer patients

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In silico Estimates of Tissue Components in Surgical Samples Based on Expression Profiling Data

(2010) Y. Wang et al.   CANCER RESEARCH

Prognostic and Predictive Gene Signature for Adjuvant Chemotherapy in Resected Non–Small-Cell Lung Cancer

(2010) Chang-Qi Zhu et al.   JOURNAL OF CLINICAL ONCOLOGY

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

(2010) Cole Trapnell et al.   NATURE BIOTECHNOLOGY

Validated prediction of clinical outcome in sarcomas and multiple types of cancer on the basis of a gene expression signature related to genome complexity

(2010) Frédéric Chibon et al.   NATURE MEDICINE

Cell type–specific gene expression differences in complex tissues

(2010) Shai S Shen-Orr et al.   NATURE METHODS

ISOLATE: a computational strategy for identifying the primary origin of cancers using high-throughput sequencing

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Multicenter Validation of a 1,550-Gene Expression Profile for Identification of Tumor Tissue of Origin

(2009) Federico A. Monzon et al.   JOURNAL OF CLINICAL ONCOLOGY

Identification and Validation of a Gene Expression Signature That Predicts Outcome in Adult Men With Germ Cell Tumors

(2009) James E. Korkola et al.   JOURNAL OF CLINICAL ONCOLOGY

Nucleolus, Ribosomes, and Cancer

(2008) Lorenzo Montanaro et al.   AMERICAN JOURNAL OF PATHOLOGY

Tumor Immunobiological Differences in Prostate Cancer between African-American and European-American Men

(2008) T. A. Wallace et al.   CANCER RESEARCH

Molecular Profiling of Carcinoma of Unknown Primary and Correlation With Clinical Evaluation

(2008) Gauri R. Varadhachary et al.   JOURNAL OF CLINICAL ONCOLOGY

Deep surveying of alternative splicing complexity in the human transcriptome by high-throughput sequencing

(2008) Qun Pan et al.   NATURE GENETICS

Gene expression–based survival prediction in lung adenocarcinoma: a multi-site, blinded validation study

(2008) Kerby Shedden et al.   NATURE MEDICINE

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Lung Cancer

(2008) Roy S. Herbst et al.   NEW ENGLAND JOURNAL OF MEDICINE

Gene Expression Signature of Cigarette Smoking and Its Role in Lung Adenocarcinoma Development and Survival

(2008) Maria Teresa Landi et al.   PLoS One