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Open AccessAuthor Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers
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Publisher Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers
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
Author Correction: Comprehensive molecular characterization of mitochondrial genomes in human cancers
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 AccessEther phospholipids are required for mitochondrial reactive oxygen species homeostasis
Mitochondria are hubs where bioenergetics, redox homeostasis, and anabolic metabolism pathways integrate through a tightly coordinated flux of metabolites. The contributions of mitochondrial metabolism to tumo...
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Open AccessCompound NSC84167 selectively targets NRF2-activated pancreatic cancer by inhibiting asparagine synthesis pathway
Nuclear factor erythroid 2-related factor 2 (NRF2) is aberrantly activated in about 93% of pancreatic cancers. Activated NRF2 regulates multiple downstream molecules involved in cancer cell metabolic reprogram...
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Article
Open AccessA user guide for the online exploration and visualization of PCAWG data
The Pan-Cancer Analysis of Whole Genomes (PCAWG) project generated a vast amount of whole-genome cancer sequencing resource data. Here, as part of the ICGC/TCGA Pan-Cancer Analysis of Whole Genomes (PCAWG) Con...
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Open AccessAssessment of Luminal and Basal Phenotypes in Bladder Cancer
Genomic profiling studies have demonstrated that bladder cancer can be divided into two molecular subtypes referred to as luminal and basal with distinct clinical behaviors and sensitivities to frontline chemo...
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Open AccessComprehensive molecular characterization of mitochondrial genomes in human cancers
Mitochondria are essential cellular organelles that play critical roles in cancer. Here, as part of the International Cancer Genome Consortium/The Cancer Genome Atlas Pan-Cancer Analysis of Whole Genomes Conso...
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Open AccessElemCor: accurate data analysis and enrichment calculation for high-resolution LC-MS stable isotope labeling experiments
The investigation of intracellular metabolism is the mainstay in the biotechnology and physiology settings. Intracellular metabolic rates are commonly evaluated using labeling pattern of the identified metabol...
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Open AccessGlobal analysis of tRNA and translation factor expression reveals a dynamic landscape of translational regulation in human cancers
The protein translational system, including transfer RNAs (tRNAs) and several categories of enzymes, plays a key role in regulating cell proliferation. Translation dysregulation also contributes to cancer deve...
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Open AccessClinical significance of FBXO17 gene expression in high-grade glioma
High-grade gliomas (HGGs) exhibit marked heterogeneity in clinical behavior. The purpose of this study was to identify a novel biomarker that predicts patient outcome, which is helpful in HGG patient management.
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Open AccessExpression of human endogenous retrovirus-K is strongly associated with the basal-like breast cancer phenotype
Human endogenous retroviruses (HERVs), which make up approximately 8% of the human genome, are overexpressed in some breast cancer cells and tissues but without regard to cancer subtype. We, therefore, analyze...
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Correction: Corrigendum: A pan-cancer proteomic perspective on The Cancer Genome Atlas
Nature Communications 5: Article number: 3887 (2014); Published 29 May 2014; Updated 28 Jan 2015 This Article contains an error in the Author contributions section that has resulted in incorrect credit for sup...
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Open AccessGenes suppressed by DNA methylation in non-small cell lung cancer reveal the epigenetics of epithelial–mesenchymal transition
DNA methylation is associated with aberrant gene expression in cancer, and has been shown to correlate with therapeutic response and disease prognosis in some types of cancer. We sought to investigate the biol...
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Open AccessTargeted metabolomic analysis of amino acid response to L-asparaginase in adherent cells
L-asparaginase (L-ASP) is a therapeutic enzyme used clinically for the treatment of childhood acute lymphoblastic leukemia. L-ASP’s anticancer activity is believed to be associated primarily with depletion of ...
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Open AccessTCPA: a resource for cancer functional proteomics data
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Open AccessThe Cancer Genome Atlas Pan-Cancer analysis project
Current clinical practice is organized according to tissue or organ of origin of tumors. Now, The Cancer Genome Atlas (TCGA) Research Network has started to identify genomic and other molecular commonalities a...
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Open AccessRedundancyMiner: De-replication of redundant GO categories in microarray and proteomics analysis
The Gene Ontology (GO) Consortium organizes genes into hierarchical categories based on biological process, molecular function and subcellular localization. Tools such as GoMiner can leverage GO to perform ont...
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Open AccessCellMiner: a relational database and query tool for the NCI-60 cancer cell lines
Advances in the high-throughput omic technologies have made it possible to profile cells in a large number of ways at the DNA, RNA, protein, chromosomal, functional, and pharmacological levels. A persistent pr...
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Open AccessSpliceCenter: A suite of web-based bioinformatic applications for evaluating the impact of alternative splicing on RT-PCR, RNAi, microarray, and peptide-based studies
Over 60% of protein-coding genes in vertebrates express mRNAs that undergo alternative splicing. The resulting collection of transcript isoforms poses significant challenges for contemporary biological assays....