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Simultaneous proteomics and three PTMomics characterization of pro-inflammatory cytokines stimulated INS-1E cells using TiO 2 enrichment strategy

https://doi.org/10.1101/509125
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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TNF‐α/IFN‐γ‐induced iNOS expression increased by prostaglandin E2 in rat primary astrocytes via EP2‐evoked cAMP/PKA and intracellular calcium signaling
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Evolution and functional cross‐talk of protein post‐translational modifications
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The next level of complexity: Crosstalk of posttranslational modifications
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Extracellular Domain of Neurotrophin Receptor trkB: Disulfide Structure, N-Glycosylation Sites, and Ligand Binding
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Islet-associated macrophages in type 2 diabetes
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Roles for major histocompatibility complex glycosylation in immune function
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Cytokines activate the nuclear factor κB (NF‐κB) and induce nitric oxide production in human pancreatic islets
inferredcites →https://doi.org/10.1016/j.bbrc.2007.12.123openalex-snapshot
Intermolecular disulfide bond formation in the NEMO dimer requires Cys54 and Cys347
inferredcites →https://doi.org/10.1016/j.exer.2007.06.013openalex-snapshot
Pro-inflammatory cytokines increase reactive oxygen species through mitochondria and NADPH oxidase in cultured RPE cells
inferredcites →https://doi.org/10.1016/j.febslet.2004.07.055openalex-snapshot
Rank products: a simple, yet powerful, new method to detect differentially regulated genes in replicated microarray experiments
inferredcites →https://doi.org/10.1016/j.febslet.2013.01.047openalex-snapshot
Deciphering post‐translational modification codes
inferredcites →https://doi.org/10.1016/j.jprot.2014.04.020openalex-snapshot
Quantitative phosphoproteomic analysis of porcine muscle within 24 h postmortem
inferredcites →https://doi.org/10.1016/j.micinf.2007.09.010openalex-snapshot
The Mx GTPase family of interferon-induced antiviral proteins
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Intercellular adhesion molecule-1 (ICAM-1) expression and cell signaling cascades
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Phosphorylation of the Stat1 Transactivation Domain Is Required for Full-Fledged IFN-γ-Dependent Innate Immunity
inferredcites →https://doi.org/10.1016/s1097-2765(04)00204-7openalex-snapshot
Structural Basis for Dimerization of ICAM-1 on the Cell Surface
inferredcites →https://doi.org/10.1021/acs.jproteome.7b00812openalex-snapshot
Characterization of Macrophage Endogenous S-Nitrosoproteome Using a Cysteine-Specific Phosphonate Adaptable Tag in Combination with TiO2 Chromatography
inferredcites →https://doi.org/10.1021/acs.jproteome.8b00294openalex-snapshot
Quantitative Proteomics and Phosphoproteomics Analysis Revealed Different Regulatory Mechanisms of Halothane and Rendement Napole Genes in Porcine Muscle Metabolism
inferredcites →https://doi.org/10.1021/cr300163eopenalex-snapshot
Cysteine-Mediated Redox Signaling: Chemistry, Biology, and Tools for Discovery
inferredcites →https://doi.org/10.1021/la980894popenalex-snapshot
Phosphate Adsorption onto TiO 2 from Aqueous Solutions: An in Situ Internal Reflection Infrared Spectroscopic Study
inferredcites →https://doi.org/10.1021/pr200611nopenalex-snapshot
Universal and Confident Phosphorylation Site Localization Using phosphoRS
inferredcites →https://doi.org/10.1021/pr400045uopenalex-snapshot
Assessment and Improvement of Statistical Tools for Comparative Proteomics Analysis of Sparse Data Sets with Few Experimental Replicates
inferredcites →https://doi.org/10.1038/nmeth.2518openalex-snapshot
Integrated proteomic analysis of post-translational modifications by serial enrichment
inferredcites →https://doi.org/10.1038/nmeth.3901openalex-snapshot
The Perseus computational platform for comprehensive analysis of (prote)omics data
inferredcites →https://doi.org/10.1038/nmeth1113openalex-snapshot
Semi-supervised learning for peptide identification from shotgun proteomics datasets
inferredcites →https://doi.org/10.1038/nprot.2006.185openalex-snapshot
Highly selective enrichment of phosphorylated peptides using titanium dioxide
inferredcites →https://doi.org/10.1038/nprot.2010.167openalex-snapshot
Selective enrichment of sialic acid–containing glycopeptides using titanium dioxide chromatography with analysis by HILIC and mass spectrometry
inferredcites →https://doi.org/10.1038/nrd4231openalex-snapshot
Targeting the pancreatic β-cell to treat diabetes
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Identification of NF-κB-regulated genes induced by TNFα utilizing expression profiling and RNA interference
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Oxidative stress: the vulnerable β-cell
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Sialylation and fucosylation of epidermal growth factor receptor suppress its dimerization and activation in lung cancer cells
inferredcites →https://doi.org/10.1073/pnas.93.10.4891openalex-snapshot
Complementation analysis of mutants of nitric oxide synthase reveals that the active site requires two hemes.
inferredcites →https://doi.org/10.1073/pnas.95.26.15623openalex-snapshot
Identification of genes differentially regulated by interferon α, β, or γ using oligonucleotide arrays
inferredcites →https://doi.org/10.1073/pnas.95.8.4140openalex-snapshot
The structure of the two amino-terminal domains of human ICAM-1 suggests how it functions as a rhinovirus receptor and as an LFA-1 integrin ligand
inferredcites →https://doi.org/10.1074/jbc.m112.427583openalex-snapshot
Cysteine-rich Domain 1 of CD40 Mediates Receptor Self-assembly
inferredcites →https://doi.org/10.1074/jbc.m801326200openalex-snapshot
Activation of Polo-like Kinase 3 by Hypoxic Stresses
inferredcites →https://doi.org/10.1074/mcp.m112.017509openalex-snapshot
A Novel Method for the Simultaneous Enrichment, Identification, and Quantification of Phosphopeptides and Sialylated Glycopeptides Applied to a Temporal Profile of Mouse Brain Development
inferredcites →https://doi.org/10.1074/mcp.m115.054551openalex-snapshot
Simultaneous Enrichment of Cysteine-containing Peptides and Phosphopeptides Using a Cysteine-specific Phosphonate Adaptable Tag (CysPAT) in Combination with titanium dioxide (TiO2) Chromatography
inferredcites →https://doi.org/10.1074/mcp.m700086-mcp200openalex-snapshot
Exploring the Sialiome Using Titanium Dioxide Chromatography and Mass Spectrometry
inferredcites →https://doi.org/10.1074/mcp.t500007-mcp200openalex-snapshot
Highly Selective Enrichment of Phosphorylated Peptides from Peptide Mixtures Using Titanium Dioxide Microcolumns
inferredcites →https://doi.org/10.1089/ars.2007.9.1openalex-snapshot
Protein Tyrosine Phosphorylation and Reversible Oxidation: Two Cross-Talking Posttranslation Modifications
inferredcites →https://doi.org/10.1093/bioinformatics/btq534openalex-snapshot
A simple and fast method to determine the parameters for fuzzy c–means cluster analysis
inferredcites →https://doi.org/10.1093/glycob/cwl032openalex-snapshot
N-Glycan structures and N-glycosylation sites of mouse soluble intercellular adhesion molecule-1 revealed by MALDI-TOF and FTICR mass spectrometry
inferredcites →https://doi.org/10.1093/glycob/cwu006openalex-snapshot
N-glycosylation deficiency reduces ICAM-1 induction and impairs inflammatory response
inferredcites →https://doi.org/10.1093/nar/gkr981openalex-snapshot
Reorganizing the protein space at the Universal Protein Resource (UniProt)
inferredcites →https://doi.org/10.1093/nar/gks060openalex-snapshot
A transposase strategy for creating libraries of circularly permuted proteins
inferredcites →https://doi.org/10.1111/1467-9868.00346openalex-snapshot
A Direct Approach to False Discovery Rates
inferredcites →https://doi.org/10.1111/febs.13709openalex-snapshot
The JAK / STAT pathway in obesity and diabetes
inferredcites →https://doi.org/10.1111/j.1365-2958.2005.04981.xopenalex-snapshot
Defects in N‐glycosylation induce apoptosis in yeast
inferredcites →https://doi.org/10.1111/j.1749-6632.2012.06826.xopenalex-snapshot
The role of reactive oxygen species and proinflammatory cytokines in type 1 diabetes pathogenesis
inferredcites →https://doi.org/10.1128/mcb.01591-05openalex-snapshot
Phosphorylation of JAK2 at Serine 523: a Negative Regulator of JAK2 That Is Stimulated by GrowthHormone and Epidermal Growth Factor
inferredcites →https://doi.org/10.1146/annurev-immunol-032713-120231openalex-snapshot
Interferon-Stimulated Genes: A Complex Web of Host Defenses
inferredcites →https://doi.org/10.1152/physrev.00014.2008openalex-snapshot
Positive and Negative Regulation of Insulin Signaling by Reactive Oxygen and Nitrogen Species
inferredcites →https://doi.org/10.1158/0008-5472.can-07-1340openalex-snapshot
α2-6–Linked Sialic Acids on N-Glycans Modulate Carcinoma Differentiation In vivo
inferredcites →https://doi.org/10.1158/0008-5472.can-10-1303openalex-snapshot
A Novel Sialyltransferase Inhibitor Suppresses FAK/Paxillin Signaling and Cancer Angiogenesis and Metastasis Pathways
inferredcites →https://doi.org/10.1161/circresaha.112.269514openalex-snapshot
Endothelial Cell Palmitoylproteomic Identifies Novel Lipid-Modified Targets and Potential Substrates for Protein Acyl Transferases
inferredcites →https://doi.org/10.1210/er.2007-0033openalex-snapshot
Cytokines and β-Cell Biology: from Concept to Clinical Translation
inferredcites →https://doi.org/10.1210/jc.2008-0396openalex-snapshot
Increased Interleukin (IL)-1β Messenger Ribonucleic Acid Expression in β-Cells of Individuals with Type 2 Diabetes and Regulation of IL-1β in Human Islets by Glucose and Autostimulation
inferredcites →https://doi.org/10.2337/db06-1650openalex-snapshot
Increased Number of Islet-Associated Macrophages in Type 2 Diabetes
inferredcites →https://doi.org/10.2337/db13-0314openalex-snapshot
Genetic Disruption of SOD1 Gene Causes Glucose Intolerance and Impairs β-Cell Function
inferredcites →https://doi.org/10.2337/db13-1845openalex-snapshot
Heterozygous SOD2 Deletion Impairs Glucose-Stimulated Insulin Secretion, but Not Insulin Action, in High-Fat–Fed Mice
inferredcites →https://doi.org/10.2337/diabetes.49.7.1123openalex-snapshot
Protection of insulin-producing RINm5F cells against cytokine-mediated toxicity through overexpression of antioxidant enzymes.
inferredcites →https://doi.org/10.2337/diabetes.54.suppl_2.s97openalex-snapshot
Mechanisms of Pancreatic β-Cell Death in Type 1 and Type 2 Diabetes
inferredcites →https://doi.org/10.3109/08916939209146125openalex-snapshot
The Effect of Cytokines on the Expression of Mhc Antigens and Icam-1 by Normal and Transformed Synoviocytes
inferredcites →https://doi.org/10.4049/jimmunol.1103387openalex-snapshot
Crystal Structure of Human RANKL Complexed with Its Decoy Receptor Osteoprotegerin
inferredcites →https://doi.org/10.7554/elife.03772openalex-snapshot
How IGF-1 activates its receptor

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Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Protein Oxidative Modifications in Neurodegenerative Diseases: From Advances in Detection and Modelling to Their Use as Disease Biomarkers
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