4.8 Article

Multi-omic machine learning predictor of breast cancer therapy response

相关参考文献

注意:仅列出部分参考文献,下载原文获取全部文献信息。
Review Oncology

Intratumor Heterogeneity: The Rosetta Stone of Therapy Resistance

Andriy Marusyk et al.

CANCER CELL (2020)

Article Biochemistry & Molecular Biology

The Reactome Pathway Knowledgebase

Antonio Fabregat et al.

NUCLEIC ACIDS RESEARCH (2018)

Article Statistics & Probability

The relative performance of ensemble methods with deep convolutional neural networks for image classification

Cheng Ju et al.

JOURNAL OF APPLIED STATISTICS (2018)

Article Biochemistry & Molecular Biology

Signatures of T cell dysfunction and exclusion predict cancer immunotherapy response

Peng Jiang et al.

NATURE MEDICINE (2018)

Article Biochemistry & Molecular Biology

Ensembl 2017

Bronwen L. Aken et al.

NUCLEIC ACIDS RESEARCH (2017)

Article Oncology

Gene expression markers of Tumor Infiltrating Leukocytes

Patrick Danaher et al.

JOURNAL FOR IMMUNOTHERAPY OF CANCER (2017)

Article Biochemistry & Molecular Biology

Allele-Specific HLA Loss and Immune Escape in Lung Cancer Evolution

Nicholas McGranahan et al.

Article Biochemistry & Molecular Biology

ReactomePA: an R/Bioconductor package for reactome pathway analysis and visualization

Guangchuang Yu et al.

MOLECULAR BIOSYSTEMS (2016)

Article Multidisciplinary Sciences

Landscape of somatic mutations in 560 breast cancer whole-genome sequences

Serena Nik-Zainal et al.

NATURE (2016)

Article Multidisciplinary Sciences

The somatic mutation profiles of 2,433 breast cancers refines their genomic and transcriptomic landscapes

Bernard Pereira et al.

NATURE COMMUNICATIONS (2016)

Article Genetics & Heredity

pVAC-Seq: A genome-guided in silico approach to identifying tumor neoantigens

Jasreet Hundal et al.

GENOME MEDICINE (2016)

Article Biotechnology & Applied Microbiology

The Ensembl Variant Effect Predictor

William McLaren et al.

GENOME BIOLOGY (2016)

Article Biochemistry & Molecular Biology

Molecular and Genetic Properties of Tumors Associated with Local Immune Cytolytic Activity

Michael S. Rooney et al.

Article Biotechnology & Applied Microbiology

Comprehensive analysis of cancer-associated somatic mutations in class I HLA genes

Sachet A. Shukla et al.

NATURE BIOTECHNOLOGY (2015)

Review Multidisciplinary Sciences

T cell exclusion, immune privilege, and the tumor microenvironment

Johanna A. Joyce et al.

SCIENCE (2015)

Article Cell Biology

Clonal status of actionable driver events and the timing of mutational processes in cancer evolution

Nicholas McGranahan et al.

SCIENCE TRANSLATIONAL MEDICINE (2015)

Article Biochemistry & Molecular Biology

The Molecular Signatures Database Hallmark Gene Set Collection

Arthur Liberzon et al.

CELL SYSTEMS (2015)

Article Biochemical Research Methods

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

Simon Anders et al.

BIOINFORMATICS (2015)

Article Biochemistry & Molecular Biology

The immune epitope database (IEDB) 3.0

Randi Vita et al.

NUCLEIC ACIDS RESEARCH (2015)

Article Biotechnology & Applied Microbiology

Genome-driven integrated classification of breast cancer validated in over 7,500 samples

H. Raza Ali et al.

GENOME BIOLOGY (2014)

Article Biochemical Research Methods

STAR: ultrafast universal RNA-seq aligner

Alexander Dobin et al.

BIOINFORMATICS (2013)

Article Biochemical Research Methods

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

Sonja Haenzelmann et al.

BMC BIOINFORMATICS (2013)

Review Biochemistry & Molecular Biology

A new genome-driven integrated classification of breast cancer and its implications

Sarah-Jane Dawson et al.

EMBO JOURNAL (2013)

Article Multidisciplinary Sciences

Signatures of mutational processes in human cancer

Ludmil B. Alexandrov et al.

NATURE (2013)

Review Immunology

Innate and adaptive immune cells in the tumor microenvironment

Thomas F. Gajewski et al.

NATURE IMMUNOLOGY (2013)

Article Multidisciplinary Sciences

The genomic and transcriptomic architecture of 2,000 breast tumours reveals novel subgroups

Christina Curtis et al.

NATURE (2012)

Article Biochemistry & Molecular Biology

Camera: a competitive gene set test accounting for inter-gene correlation

Di Wu et al.

NUCLEIC ACIDS RESEARCH (2012)

Article Biochemistry & Molecular Biology

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

Davis J. McCarthy et al.

NUCLEIC ACIDS RESEARCH (2012)

Review Biochemistry & Molecular Biology

Hallmarks of Cancer: The Next Generation

Douglas Hanahan et al.

Article Biochemistry & Molecular Biology

Natural genetic variation caused by small insertions and deletions in the human genome

Ryan E. Mills et al.

GENOME RESEARCH (2011)

Article Medicine, General & Internal

A Genomic Predictor of Response and Survival Following Taxane-Anthracycline Chemotherapy for Invasive Breast Cancer

Christos Hatzis et al.

JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION (2011)

Article Genetics & Heredity

A framework for variation discovery and genotyping using next-generation DNA sequencing data

Mark A. DePristo et al.

NATURE GENETICS (2011)

Article Multidisciplinary Sciences

Autophagy-Dependent Anticancer Immune Responses Induced by Chemotherapeutic Agents in Mice

Mickael Michaud et al.

SCIENCE (2011)

Article Biochemical Research Methods

RNA-Seq gene expression estimation with read mapping uncertainty

Bo Li et al.

BIOINFORMATICS (2010)

Article Biochemical Research Methods

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

Mark D. Robinson et al.

BIOINFORMATICS (2010)

Article Biochemistry & Molecular Biology

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

Aaron McKenna et al.

GENOME RESEARCH (2010)

Article Computer Science, Interdisciplinary Applications

Regularization Paths for Generalized Linear Models via Coordinate Descent

Jerome Friedman et al.

JOURNAL OF STATISTICAL SOFTWARE (2010)

Article Multidisciplinary Sciences

Allele-specific copy number analysis of tumors

Peter Van Loo et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2010)

Article Biotechnology & Applied Microbiology

A scaling normalization method for differential expression analysis of RNA-seq data

Mark D. Robinson et al.

GENOME BIOLOGY (2010)

Review Immunology

Immunogenic and tolerogenic cell death

Douglas R. Green et al.

NATURE REVIEWS IMMUNOLOGY (2009)

Article Cell & Tissue Engineering

Module map of stem cell genes guides creation of epithelial cancer stem cells

David J. Wong et al.

CELL STEM CELL (2008)

Article Oncology

Measurement of residual breast cancer burden to predict survival after Neoadjuvant chemotherapy

W. Fraser Symmans et al.

JOURNAL OF CLINICAL ONCOLOGY (2007)

Article Multidisciplinary Sciences

Gene set enrichment analysis: A knowledge-based approach for interpreting genome-wide expression profiles

A Subramanian et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2005)

Article Multidisciplinary Sciences

Gene expression profiling predicts clinical outcome of breast cancer

LJ van't Veer et al.

NATURE (2002)

Article Computer Science, Artificial Intelligence

Random forests

L Breiman

MACHINE LEARNING (2001)