Applications of systems biology in cancer immunotherapy: from target discovery to biomarkers of clinical outcome
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Title
Applications of systems biology in cancer immunotherapy: from target discovery to biomarkers of clinical outcome
Authors
Keywords
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Journal
Expert Review of Clinical Pharmacology
Volume 6, Issue 4, Pages 387-401
Publisher
Informa UK Limited
Online
2013-07-31
DOI
10.1586/17512433.2013.811814
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Note: Only part of the references are listed.- Cancer Regression and Neurological Toxicity Following Anti-MAGE-A3 TCR Gene Therapy
- (2013) Richard A. Morgan et al. JOURNAL OF IMMUNOTHERAPY
- Transcriptional insights into the CD8+ T cell response to infection and memory T cell formation
- (2013) J Adam Best et al. NATURE IMMUNOLOGY
- Immuno-oncology: understanding the function and dysfunction of the immune system in cancer
- (2012) O. J. Finn ANNALS OF ONCOLOGY
- PAGED: a pathway and gene-set enrichment database to enable molecular phenotype discoveries
- (2012) Hui Huang et al. BMC BIOINFORMATICS
- Immunotherapy of cancer in 2012
- (2012) John M. Kirkwood et al. CA-A CANCER JOURNAL FOR CLINICIANS
- Sipuleucel-T immune parameters correlate with survival: an analysis of the randomized phase 3 clinical trials in men with castration-resistant prostate cancer
- (2012) Nadeem A. Sheikh et al. CANCER IMMUNOLOGY IMMUNOTHERAPY
- An Integrated Genome-Wide Approach to Discover Tumor-Specific Antigens as Potential Immunologic and Clinical Targets in Cancer
- (2012) Q.-W. Xu et al. CANCER RESEARCH
- Exploiting the Mutanome for Tumor Vaccination
- (2012) J. C. Castle et al. CANCER RESEARCH
- Adoptive Transfer of Autologous T Cells Improves T-cell Repertoire Diversity and Long-term B-cell Function in Pediatric Patients with Neuroblastoma
- (2012) S. A. Grupp et al. CLINICAL CANCER RESEARCH
- Brachyury, a Driver of the Epithelial-Mesenchymal Transition, Is Overexpressed in Human Lung Tumors: An Opportunity for Novel Interventions against Lung Cancer
- (2012) M. Roselli et al. CLINICAL CANCER RESEARCH
- Wrestling with the repertoire: The promise and perils of next generation sequencing for antigen receptors
- (2012) Paul D. Baum et al. EUROPEAN JOURNAL OF IMMUNOLOGY
- Next generation sequencing for TCR repertoire profiling: Platform-specific features and correction algorithms
- (2012) Dmitry A. Bolotin et al. EUROPEAN JOURNAL OF IMMUNOLOGY
- Diversity of Antigen-Specific Responses Induced In Vivo with CTLA-4 Blockade in Prostate Cancer Patients
- (2012) S. S. Kwek et al. JOURNAL OF IMMUNOLOGY
- Prognostic value of blood mRNA expression signatures in castration-resistant prostate cancer: a prospective, two-stage study
- (2012) David Olmos et al. LANCET ONCOLOGY
- A whole-blood RNA transcript-based prognostic model in men with castration-resistant prostate cancer: a prospective study
- (2012) Robert W Ross et al. LANCET ONCOLOGY
- Statistical inference of the generation probability of T-cell receptors from sequence repertoires
- (2012) A. Murugan et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- High-Throughput Sequencing Detects Minimal Residual Disease in Acute T Lymphoblastic Leukemia
- (2012) D. Wu et al. Science Translational Medicine
- NEW: Network-Enabled Wisdom in Biology, Medicine, and Health Care
- (2012) E. E. Schadt et al. Science Translational Medicine
- Targeting the tumor mutanome for personalized vaccination therapy
- (2012) Sebastian Kreiter et al. OncoImmunology
- Systems Biology in Immunology: A Computational Modeling Perspective
- (2011) Ronald N. Germain et al. Annual Review of Immunology
- Predicting peptide binding to Major Histocompatibility Complex molecules
- (2011) Webber W.P. Liao et al. AUTOIMMUNITY REVIEWS
- Gene set enrichment analysis: performance evaluation and usage guidelines
- (2011) J.-H. Hung et al. BRIEFINGS IN BIOINFORMATICS
- Gene expression profiles in peripheral blood as a biomarker in cancer patients receiving peptide vaccination
- (2011) Nobukazu Komatsu et al. CANCER
- Immunologic biomarkers as correlates of clinical response to cancer immunotherapy
- (2011) Mary L. Disis CANCER IMMUNOLOGY IMMUNOTHERAPY
- An immune-active tumor microenvironment favors clinical response to ipilimumab
- (2011) Rui-Ru Ji et al. CANCER IMMUNOLOGY IMMUNOTHERAPY
- Hallmarks of Cancer: The Next Generation
- (2011) Douglas Hanahan et al. CELL
- Ipilimumab: An Anti-CTLA-4 Antibody for Metastatic Melanoma
- (2011) E. J. Lipson et al. CLINICAL CANCER RESEARCH
- Recommendations from the iSBTc-SITC/FDA/NCI Workshop on Immunotherapy Biomarkers
- (2011) L. H. Butterfield et al. CLINICAL CANCER RESEARCH
- PROVENGE (Sipuleucel-T) in Prostate Cancer: The First FDA-Approved Therapeutic Cancer Vaccine
- (2011) M. A. Cheever et al. CLINICAL CANCER RESEARCH
- Tumor-infiltrating immune cells and prognosis: the potential link between conventional cancer therapy and immunity
- (2011) Caroline Jochems et al. EXPERIMENTAL BIOLOGY AND MEDICINE
- Predictions versus high-throughput experiments in T-cell epitope discovery: competition or synergy?
- (2011) Claus Lundegaard et al. Expert Review of Vaccines
- Exhaustive T-cell repertoire sequencing of human peripheral blood samples reveals signatures of antigen selection and a directly measured repertoire size of at least 1 million clonotypes
- (2011) R. L. Warren et al. GENOME RESEARCH
- Cancer Immunotherapy Comes of Age
- (2011) Suzanne L. Topalian et al. JOURNAL OF CLINICAL ONCOLOGY
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- (2011) M. W. Painter et al. JOURNAL OF IMMUNOLOGY
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- (2011) Leonia Bozzacco et al. JOURNAL OF PROTEOME RESEARCH
- Defining the critical hurdles in cancer immunotherapy
- (2011) Bernard A Fox et al. Journal of Translational Medicine
- Cancer immunotherapy comes of age
- (2011) Ira Mellman et al. NATURE
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- (2011) Michael J. Bamshad et al. NATURE REVIEWS GENETICS
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- (2011) Can Alkan et al. NATURE REVIEWS GENETICS
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- (2011) Anders Holm et al. New Biotechnology
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- (2011) A. C. Culhane et al. NUCLEIC ACIDS RESEARCH
- KEGG for integration and interpretation of large-scale molecular data sets
- (2011) M. Kanehisa et al. NUCLEIC ACIDS RESEARCH
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- (2011) A. C. Logan et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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- (2011) Helder I. Nakaya et al. Wiley Interdisciplinary Reviews-Systems Biology and Medicine
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- (2010) Han-Yu Chuang et al. Annual Review of Cell and Developmental Biology
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- Overall Survival Analysis of a Phase II Randomized Controlled Trial of a Poxviral-Based PSA-Targeted Immunotherapy in Metastatic Castration-Resistant Prostate Cancer
- (2010) Philip W. Kantoff et al. JOURNAL OF CLINICAL ONCOLOGY
- Improved Endpoints for Cancer Immunotherapy Trials
- (2010) A. Hoos et al. JNCI-Journal of the National Cancer Institute
- Immuno-Oncology biomarkers 2010 and beyond: Perspectives from the iSBTc/SITC biomarker task force
- (2010) Lisa H Butterfield et al. Journal of Translational Medicine
- An interferon-inducible neutrophil-driven blood transcriptional signature in human tuberculosis
- (2010) Matthew P. R. Berry et al. NATURE
- Cell type–specific gene expression differences in complex tissues
- (2010) Shai S Shen-Orr et al. NATURE METHODS
- RNA sequencing: advances, challenges and opportunities
- (2010) Fatih Ozsolak et al. NATURE REVIEWS GENETICS
- Advances in understanding cancer genomes through second-generation sequencing
- (2010) Matthew Meyerson et al. NATURE REVIEWS GENETICS
- Improved Survival with Ipilimumab in Patients with Metastatic Melanoma
- (2010) F. Stephen Hodi et al. NEW ENGLAND JOURNAL OF MEDICINE
- Sipuleucel-T Immunotherapy for Castration-Resistant Prostate Cancer
- (2010) Philip W. Kantoff et al. NEW ENGLAND JOURNAL OF MEDICINE
- NCBI GEO: archive for functional genomics data sets--10 years on
- (2010) T. Barrett et al. NUCLEIC ACIDS RESEARCH
- COSMIC: mining complete cancer genomes in the Catalogue of Somatic Mutations in Cancer
- (2010) S. A. Forbes et al. NUCLEIC ACIDS RESEARCH
- Reactome: a database of reactions, pathways and biological processes
- (2010) D. Croft et al. NUCLEIC ACIDS RESEARCH
- Therapeutic Cancer Vaccines in Prostate Cancer: The Paradox of Improved Survival Without Changes in Time to Progression
- (2010) R. A. Madan et al. ONCOLOGIST
- Unraveling human complexity and disease with systems biology and personalized medicine
- (2010) Stephen Naylor et al. Personalized Medicine
- Seromic profiling of ovarian and pancreatic cancer
- (2010) S. Gnjatic et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- High throughput sequencing reveals a complex pattern of dynamic interrelationships among human T cell subsets
- (2010) C. Wang et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- The Road We Must Take: Multidisciplinary Team Science
- (2010) M. L. Disis et al. Science Translational Medicine
- Gene set enrichment analysis made simple
- (2010) Rafael A Irizarry et al. STATISTICAL METHODS IN MEDICAL RESEARCH
- Unveiling the role of network and systems biology in drug discovery
- (2010) Albert Pujol et al. TRENDS IN PHARMACOLOGICAL SCIENCES
- Trait-Associated SNPs Are More Likely to Be eQTLs: Annotation to Enhance Discovery from GWAS
- (2010) Dan L. Nicolae et al. PLoS Genetics
- Proteomics by Mass Spectrometry: Approaches, Advances, and Applications
- (2009) John R. Yates et al. Annual Review of Biomedical Engineering
- Comprehensive assessment of T-cell receptor -chain diversity in T cells
- (2009) H. S. Robins et al. BLOOD
- Cancer/testis (CT) antigens: Potential targets for immunotherapy
- (2009) Otavia L. Caballero et al. CANCER SCIENCE
- The Prioritization of Cancer Antigens: A National Cancer Institute Pilot Project for the Acceleration of Translational Research
- (2009) M. A. Cheever et al. CLINICAL CANCER RESEARCH
- MAGRIT: The Largest-Ever Phase III Lung Cancer Trial Aims to Establish a Novel Tumor-Specific Approach to Therapy
- (2009) Preeta Tyagi et al. Clinical Lung Cancer
- MammaPrint™ 70-gene signature: another milestone in personalized medical care for breast cancer patients
- (2009) Elzbieta A Slodkowska et al. EXPERT REVIEW OF MOLECULAR DIAGNOSTICS
- Protein microarrays: high-throughput tools for proteomics
- (2009) Oda Stoevesandt et al. Expert Review of Proteomics
- Profiling the T-cell receptor beta-chain repertoire by massively parallel sequencing
- (2009) J. D. Freeman et al. GENOME RESEARCH
- Gene Expression Profiling and Real-Time PCR Analyses Identify Novel Potential Cancer-Testis Antigens in Multiple Myeloma
- (2009) M. Condomines et al. JOURNAL OF IMMUNOLOGY
- Influence of Cytotoxic T Lymphocyte-associated Antigen 4 (CTLA4) Common Polymorphisms on Outcome in Treatment of Melanoma Patients With CTLA-4 Blockade
- (2009) Willemijn B. Breunis et al. JOURNAL OF IMMUNOTHERAPY
- Evaluation of 3 Clinical Dendritic Cell Maturation Protocols Containing Lipopolysaccharide and Interferon-γ
- (2009) Tae Hee Han et al. JOURNAL OF IMMUNOTHERAPY
- Data management: it starts at the bench
- (2009) Damien Chaussabel et al. NATURE IMMUNOLOGY
- Genetics of human gene expression: mapping DNA variants that influence gene expression
- (2009) Vivian G. Cheung et al. NATURE REVIEWS GENETICS
- Sequencing technologies — the next generation
- (2009) Michael L. Metzker NATURE REVIEWS GENETICS
- Measurement and Clinical Monitoring of Human Lymphocyte Clonality by Massively Parallel V-D-J Pyrosequencing
- (2009) S. D. Boyd et al. Science Translational Medicine
- High-throughput gene expression profiling of memory differentiation in primary human T cells
- (2008) W. N. Haining et al. BMC IMMUNOLOGY
- Combined Clinical Trial Results of a HER2/neu (E75) Vaccine for the Prevention of Recurrence in High-Risk Breast Cancer Patients: U.S. Military Cancer Institute Clinical Trials Group Study I-01 and I-02
- (2008) G. E. Peoples et al. CLINICAL CANCER RESEARCH
- A Modular Analysis Framework for Blood Genomics Studies: Application to Systemic Lupus Erythematosus
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- Identification of Breast Cancer Peptide Epitopes Presented by HLA-A*0201
- (2008) Oriana E. Hawkins et al. JOURNAL OF PROTEOME RESEARCH
- Direct multiplexed measurement of gene expression with color-coded probe pairs
- (2008) Gary K Geiss et al. NATURE BIOTECHNOLOGY
- Systems biology approach predicts immunogenicity of the yellow fever vaccine in humans
- (2008) Troy D Querec et al. NATURE IMMUNOLOGY
- Cancer Immunology
- (2008) Olivera J. Finn NEW ENGLAND JOURNAL OF MEDICINE
- Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists
- (2008) Da Wei Huang et al. NUCLEIC ACIDS RESEARCH
- Mapping the Genetic Architecture of Gene Expression in Human Liver
- (2008) Eric E Schadt et al. PLOS BIOLOGY
- Novel insights into the relationships between dendritic cell subsets in human and mouse revealed by genome-wide expression profiling
- (2008) Scott H Robbins et al. GENOME BIOLOGY
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