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Article
Open AccessDeciphering cell states and genealogies of human haematopoiesis
The human blood system is maintained through the differentiation and massive amplification of a limited number of long-lived haematopoietic stem cells (HSCs)1. Perturbations to this process underlie diverse disea...
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Article
Open AccessDynamic BH3 profiling identifies pro-apoptotic drug combinations for the treatment of malignant pleural mesothelioma
Malignant pleural mesothelioma (MPM) has relatively ineffective first/second-line therapy for advanced disease and only 18% five-year survival for early disease. Drug-induced mitochondrial priming measured by ...
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Article
Open AccessIdentifying chronic obstructive pulmonary disease from integrative omics and clustering in lung tissue
Chronic obstructive pulmonary disease (COPD) is a highly morbid and heterogenous disease. While COPD is defined by spirometry, many COPD characteristics are seen in cigarette smokers with normal spirometry. Th...
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Article
Long-term Outcomes Following Esophagectomy in Older and Younger Adults with Esophageal Cancer
Patterns of overall and disease-free survival after esophagectomy for esophageal cancer in older adults have not been carefully studied.
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Article
Open AccessComprehensive genomic and tumour immune profiling reveals potential therapeutic targets in malignant pleural mesothelioma
Malignant pleural mesothelioma (MPM) has a poor overall survival with few treatment options. Whole genome sequencing (WGS) combined with the immune features of MPM offers the prospect of identifying changes th...
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Article
Open AccessEssential role of the histone lysine demethylase KDM4A in the biology of malignant pleural mesothelioma (MPM)
Malignant pleural mesothelioma (MPM) is a highly aggressive cancer with a dismal prognosis. There is increasing interest in targeting chromatin regulatory pathways in difficult-to-treat cancers. In preliminary...
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Article
Open AccessDynamic BH3 profiling identifies active BH3 mimetic combinations in non-small cell lung cancer
Conventional chemotherapy is still of great utility in oncology and rationally constructing combinations with it remains a top priority. Drug-induced mitochondrial apoptotic priming, measured by dynamic BH3 pr...
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Article
Open AccessIdentification of a targetable KRAS-mutant epithelial population in non-small cell lung cancer
Lung cancer is the leading cause of cancer deaths. Tumor heterogeneity, which hampers development of targeted therapies, was herein deconvoluted via single cell RNA sequencing in aggressive human adenocarcinom...
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Article
Open AccessAuthor Correction: A single-cell and single-nucleus RNA-Seq toolbox for fresh and frozen human tumors
An amendment to this paper has been published and can be accessed via a link at the top of the paper.
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Article
Open AccessA single-cell and single-nucleus RNA-Seq toolbox for fresh and frozen human tumors
Single-cell genomics is essential to chart tumor ecosystems. Although single-cell RNA-Seq (scRNA-Seq) profiles RNA from cells dissociated from fresh tumors, single-nucleus RNA-Seq (snRNA-Seq) is needed to prof...
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Protocol
Autophagy in 3D In Vitro and Ex Vivo Cancer Models
Three-dimensional (3D) models are acquiring importance in cancer research due to their ability to mimic multiple features of the tumor microenvironment more accurately than standard monolayer two-dimensional (...
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Article
Open AccessEnsemble genomic analysis in human lung tissue identifies novel genes for chronic obstructive pulmonary disease
Genome-wide association studies (GWAS) have identified single nucleotide polymorphisms (SNPs) significantly associated with chronic obstructive pulmonary disease (COPD). However, many genetic variants show sug...
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Article
Open AccessFunctional interactors of three genome-wide association study genes are differentially expressed in severe chronic obstructive pulmonary disease lung tissue
In comparison to genome-wide association studies (GWAS), there has been poor replication of gene expression studies in chronic obstructive pulmonary disease (COPD). We performed microarray gene expression prof...
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Chapter
Gene Signature of Malignant Pleural Mesothelioma
Malignant pleural mesothelioma (MPM) is a rare deadly disease with limited therapeutic options. The application of tailored treatments may increase the efficacy of therapies. The promise of precision medicine ...
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Article
Open Access31st Annual Meeting and Associated Programs of the Society for Immunotherapy of Cancer (SITC 2016): part two
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Article
Open AccessFine needle aspirate flow cytometric phenoty** characterizes immunosuppressive nature of the mesothelioma microenvironment
With the emergence of checkpoint blockade and other immunotherapeutic drugs, and the growing adoption of smaller, more flexible adaptive clinical trial designs, there is an unmet need to develop diagnostics th...
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Article
Open AccessNeoadjuvant irinotecan, cisplatin, and concurrent radiation therapy with celecoxib for patients with locally advanced esophageal cancer
Patients with locally advanced esophageal cancer who are treated with trimodality therapy have a high recurrence rate. Preclinical evidence suggests that inhibition of cyclooxygenase 2 (COX2) increases the eff...
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Article
Comprehensive genomic analysis of malignant pleural mesothelioma identifies recurrent mutations, gene fusions and splicing alterations
Raphael Bueno, Eric Stawiski, Somasekar Seshagiri and colleagues present a comprehensive genomic analysis of malignant pleural mesothelioma. They identify four distinct molecular subtypes using RNA-seq data an...
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Article
Open AccessAdaptive resistance to therapeutic PD-1 blockade is associated with upregulation of alternative immune checkpoints
Despite compelling antitumour activity of antibodies targeting the programmed death 1 (PD-1): programmed death ligand 1 (PD-L1) immune checkpoint in lung cancer, resistance to these therapies has increasingly ...
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Article
Open AccessGenes Associated With Prognosis After Surgery For Malignant Pleural Mesothelioma Promote Tumor Cell Survival In Vitro
Mesothelioma is an aggressive neoplasm with few effective treatments, one being cytoreductive surgery. We previously described a test, based on differential expression levels of four genes, to predict clinical...
