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1.
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Highlights
  • •OMICS distinguish cancer cells from resistant or cancer stem cells.
  • •Bactericidal antibiotics and mitochondria.
  • •Linezolid and anticancer therapy.
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2.
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Highlights
  • •Surface loops play an essential role in SH2 domain specificity.
  • •Diverse specificities may be obtained from a single SH2 domain by combinatorial mutations in the EF and BG loops.
  • •The specificity of a loop mutant correlates with the sequence characteristics of the bait peptide used in its isolation.
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3.
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Highlights
  • •Auxin responsive proteins in Arabidopsis roots were identified from 3,514 detected proteins.
  • •All six auxin receptors are stable in response to hormone via novel MRM assays.
  • •The >100 differentially expressed proteins exhibit dynamic and transient responses to auxin.
  • •Phenotypic screening of the top responsive proteins uncovered several novel root mutants.
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4.
5.
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Highlights
  • •Design of an MRM assay to determine the absolute quantity and stoichiometry of ubiquitous and tissue-specific human 20S proteasome subtypes.
  • •Use of purified isotopically labelled 20S proteasome as internal standard for accurate quantification.
  • •Variation in the expression of immunoproteasome in adipocyte-derived stem cells (ADSCs) grown under different O2 levels might be causal for change in cells differentiation capacity.
  • •The status of 20S proteasome during ADSCs expansion might constitute an additional relevant quality control parameter to contribute to predict, among other quality markers, their therapeutic capacity.
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6.
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Highlights
  • •Temporal proteome profiling of lipotoxicity and glucolipotoxicity in β-cells
  • •Palmitate induced cholesterol metabolism earlier than fatty acid metabolism
  • •Setd8 promotes palmitate + glucose-stimulated INS-1 cell proliferation
  • •PA induced apoptosis partially via upregulation of Rhob in INS-1 cells
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7.
8.
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Highlights
  • •Open source software for comprehensive HDX-MS data analysis.
  • •Automatic back-exchange correction options.
  • •Rigorous statistical analysis of the significance of uptake differences.
  • •High quality visualization tools.
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9.
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Highlights
  • •Integrative multi-omics study characterizing the differentiation from hESCs into hMSCs.
  • •Set of high confidence genes important in hESC to hMSC differentiation defined.
  • •Two distinct expression waves of HOX genes and a AGO2-to-AGO3 switch in gene silencing identified.
  • •AHNAK hypothesized as a defining factor in MSC biology.
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10.
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Highlights
  • •In-depth proteome profiling of primary human myeloma cells
  • •Characteristics of myeloma cells are related to hypoxic bone marrow conditions
  • •Myeloma cells show specific immune evasion strategies
  • •Metabolic adaptations involve tumor and stroma cells
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11.
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Highlights
  • •R-10G is a mono-sulfated glycan antigen of human iPS and ES cells on podocalyxin.
  • •R-10G and nonsulfated i are reciprocal antigens on type 2 glycan backbones.
  • •TRA-1–60 and -81 and FC10.2 are antigens expressed on unsulfated type 1 backbones.
  • •These assignments open the way to probing their roles in podocalyxin-signaling.
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12.
13.
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Highlights
  • •quantitative phosphoproteome analysis of TDM-activated macrophages.
  • •distinct Mincle-dependent and independent phosphorylation and gene regulations.
  • •Mincle-dependent activation of PI3K/AKT signaling by TDM.
  • •Mincle-independent macrophage response is linked to cell cycle regulation.
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14.
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Highlights
  • •A panel of HEK293 isogenic cell lines with knockout of GALNT genes.
  • •Identification of nonredundant O-glycosylation sites regulated by specific GalNAc-T isoforms.
  • •GalNAc-T7 and T10 contribute to follow-up activity in regions of high density O-glycosylation.
  • •GalNAc-T11 specifically controls O-glycosylation of specific linker regions in the low-density lipoprotein receptor related proteins.
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15.
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Highlights
  • •MaxQuant.Live controls Orbitrap mass analyzers in real-time.
  • •Freely available apps enable advanced data acquisition strategies.
  • •On-the-fly mass, retention time and intensity recalibration.
  • •Global targeting unifies shotgun and targeted proteomics.
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16.
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Highlights
  • •Quantitative (phospho)proteome analysis of antibiotic treatment in E. coli.
  • •Largest bacterial phosphorylation catalogue.
  • •Specific phosphorylation motifs changes during resistance development.
  • •Phosphorylation mediated signaling could be a potential target for drug design.
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17.
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Highlights
  • •Chromobodies are stabilized by antigen binding in live cells.
  • •Monitoring changes of endogenous protein levels in living cells with chromobodies.
  • •Broadly applicable system to generate turnover-accelerated chromobodies.
  • •Quantification of time- and dose-dependent compound effects.
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18.
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Highlights
  • •Glycosylation is not currently considered in flu vaccine design.
  • •Glycosylation influences on immunodominance are not well understood.
  • •Identification of site-specific glycosylation using mass spectrometry has matured.
  • •New methods are needed to quantify site-specific glycosylation for vaccine design.
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19.
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Highlights
  • •Quantitative changes in global proteome and ubiquitinome in Huntington's disease.
  • •Differential ubiquitination of wild-type and mutant Htt in mice brain.
  • •Enriched pathways include vesicle transport and mRNA processing.
  • •Correlation between protein and diGly site fold changes.
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20.
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Highlights
  • •iTRAQ-based analysis of saliva samples from oral cancer patients.
  • •Proteome profiling of saliva samples from patients with oral premalignant lesions.
  • •Verification of salivary biomarker candidates with MRM-MS and immunoassays.
  • •Identification of salivary proteins as potential biomarkers of oral cancer.
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