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Article
Open AccessA knowledge graph to interpret clinical proteomics data
Implementing precision medicine hinges on the integration of omics data, such as proteomics, into the clinical decision-making process, but the quantity and diversity of biomedical data, and the spread of clin...
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Article
Reproducible workflow for multiplexed deep-scale proteome and phosphoproteome analysis of tumor tissues by liquid chromatography–mass spectrometry
Here we present an optimized workflow for global proteome and phosphoproteome analysis of tissues or cell lines that uses isobaric tags (TMT (tandem mass tags)-10) for multiplexed analysis and relative quantif...
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Article
Open AccessIntegrated multi-omic analysis of host-microbiota interactions in acute oak decline
Britain’s native oak species are currently under threat from acute oak decline (AOD), a decline-disease where stem bleeds overlying necrotic lesions in the inner bark and larval galleries of the bark-boring be...
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Article
Open AccessMolecular targets and signaling pathways regulated by nuclear translocation of syndecan-1
The cell-surface heparan sulfate proteoglycan syndecan-1 is important for tumor cell proliferation, migration, and cell cycle regulation in a broad spectrum of malignancies. Syndecan-1, however, also transloca...
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Article
Open AccessFast type I interferon response protects astrocytes from flavivirus infection and virus-induced cytopathic effects
Neurotropic flaviviruses such as tick-borne encephalitis virus (TBEV), Japanese encephalitis virus (JEV), West Nile virus (WNV), and Zika virus (ZIKV) are causative agents of severe brain-related diseases incl...
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Article
Proteogenomics connects somatic mutations to signalling in breast cancer
Somatic mutations have been extensively characterized in breast cancer, but the effects of these genetic alterations on the proteomic landscape remain poorly understood. Here we describe quantitative mass-spec...
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Article
Open AccessRetinoic acid receptor alpha is associated with tamoxifen resistance in breast cancer
About one-third of oestrogen receptor alpha-positive breast cancer patients treated with tamoxifen relapse. Here we identify the nuclear receptor retinoic acid receptor alpha as a marker of tamoxifen resistanc...
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Article
Open AccessPhenotype-dependent apoptosis signalling in mesothelioma cells after selenite exposure
Selenite is a promising anticancer agent which has been shown to induce apoptosis in malignant mesothelioma cells in a phenotype-dependent manner, where cells of the chemoresistant sarcomatoid phenotype are mo...
