phosphositeplus, 2014: mutations, ptms and recalibrations

July 2, 2022

PhosphoSitePlus, 2014: mutations, PTMs and recalibrations. Nucleic Acids Res. PhosphoSitePlus, one of the most inclusive databases of post-translational modifications, 2014: mutations, PTMs and recalibrations." Although some KDAC inhibitors are already FDA approved like Valproic Acid, Butyrates, SAHA, Romidepsin or Belinostat, and more than a dozen different KDAC inhibitors are currently under investigation in clinical trials, the molecular mechanisms underlying the response to KDAC inhibitors are not fully understood. Nature Communications Volume 10, Issue 1, Pages - Publisher. org/), a knowledgebase dedicated to mammalian post-translational modifications (PTMs), contains over 330 000 non-redundant PTMs, including phospho, acetyl, ubiquityl and methyl groups. Nucleic Acids Res. 2018-12-28 DOI. Capturing variation impact on molecular interactions in the IMEx Consortium mutations data set Authors. For 15 years the mission of PhosphoSitePlus (PSP, https://www.phosphosite.org) has been to provide comprehensive information and tools for the study of mammalian post-translational modifications (PTMs). PhosphoSitePlus, 2014: mutations, PTMs and recalibrations. PhosphositePlus.org, a data repository for PTMs, shows STAT1/2/3/4/5a and 5b possess 81 2014: mutations, PTMs and recalibrations. LINE-1 expression in cancer correlates with p53 mutation, copy number alteration, and S phase checkpoint. Nature Communications Volume 10, Issue 1, Pages - Publisher. Hornbeck PV, Zhang B, Murray B, Kornhauser JM, Latham V, Skrzypek E. Nucleic Acids Res. Nucleic Acids Res. PhosphoSitePlus, 2014: mutations, PTMs and recalibrations. Over 95% of the sites are from mass spectrometry (MS) experiments. Over 95% of the sites are from mass spectrometry (MS) experiments. 2015; 43: D512-D520. Keywords - Journal. 2015; 43:D512520. A large-scale proteogenomics study of metastatic colorectal cancers. 2015 43:D512-20.. Li, Tong, et al. Phosphoproteomic pattern distinguishes metastasis and predicts drug response. 1. Nucleic Acids Res 43, D512520 (2015). apply multi-layer proteomic profiling and systems biology approaches to define T cell proteome and phosphoproteome landscapes, and they identify signaling networks and bioenergetics pathways that mediate T cell quiescence exit. Developed with grants from and literature mining with Linguamatics PhosphoSite, created by Cell Signaling Technology is licensed under a Creative Commons Attribution-NonCommercial-ShareAlike 3.0 Unported License. PhosphoSitePlus, 2014: mutations, PTMs and recalibrations. Differences in the pull-down efficiency of phosphorylated and nonphosphorylated proteins efficiently identify phosphorylation PhosphoSitePlus, 2014: mutations, PTMs and recalibrations - CORE Reader 43:D512-20. Reference: Scalable Open Science Approach for Mutation Calling of Tumor Exomes Using Multiple Genomic Pipelines. Nucleic Acids Res. Crossref; PubMed; Scopus (1451) Google Scholar PhosphoSitePlus, 2014: mutations, PTMs and recalibrations. (2014) PhosphoSitePlus, 2014: mutations, PTMs and recalibrations. KRAS mutation is the most frequent oncogenic aberration in colorectal cancer (CRC). In vivo phosphoproteomics reveals kinase activity profiles that predict treatment outcome in triple-negative breast cancer. The KSEA App: a web-based tool for kinase activity inference from quantitative phosphoproteomics. KEA: kinase enrichment analysis. Schfer M. Hendlich M. PhosphoSitePlus () (PSP, http://www.phosphosite.org/), a knowledgebase dedicated to mammalian post-t. ranslational modifications (PTMs), contains over 330 000 non-redundant PTMs, including phospho, acetyl, ubiquityl and methyl groups. PubMed Central PMCID: PMC4383998. If you have any questions, please contact . [PMID: 25514926] Systematically assessing the function of phosphorylation sites in RNA-binding proteins is challenging. In addition, two phosphosites (BAG3 S289 and WNK1 S2032) assigned as mTOR substrates in PhosphositePlus 20 were increased in both 3D samples Hornbeck PV, et al. For 15 years the mission of PhosphoSitePlus (PSP, https://www.phosphosite.org) has been to provide comprehensive information and tools for the study of mammalian post-translational modifications (PTMs). These data establish the function and mechanisms of oxidative phosphorylation and mitochondrial activation in antigen-induced T cell Crossref. 16. A workflow from generation of large omics datasets to in vivo drug testing models. Reimand J., Bader G.D. Systematic analysis of somatic mutations in phosphorylation signaling predicts novel cancer drivers. Mol. Syst. In order to improve data reliability, early MS data have been PhosphoSitePlus (PSP, http://www.phosphosite.org/ ), a knowledgebase dedicated to mammalian post-translational modifications (PTMs), contains over 330 000 non-redundant PTMs, including phospho, acetyl, ubiquityl and methyl groups. Therefore, pathway analysis of acquired phosphoproteomes typically involves collapsing discrete measurements of PTM sites on proteins into a single measurement represented by e.g. the mean or median of corresponding sites, which are mapped to their respective gene symbols. A collection of PTM sites, whose levels are collectively regulated in a curated pathway or upon a perturbation, are defined as a signature set. Reversible protein posttranslational modifications (PTMs) (e.g., acetylation, ubiquitination, phosphorylation, and methylation) are key regulators of protein activity, stability, subcellular localization, and molecular interactions (14).While lysine methylation was found more than a half century ago (), the study of protein signaling through this PTM did not intensify until In order to improve data reliability, early MS data To determine whether endogenous TIMP-2 is tyrosine phosphorylated, we isolated naturally secreted TIMP-2 from serum-free cell-conditioned media (CM) of HT1080 human fibrosarcoma cells (Figure 1 A).Following SDS-PAGE, we probed with an anti-pan-phosphotyrosine antibody (phos-Tyr, 4G10) and showed that TIMP-2 is #' KSEAdb #' #' A data table containing all known kinase-substrate links known in PhosphoSitePlus. To give feedback, request a new feature or to report a problem, please use the form below: Name. 2014;11:333-337 31. Here, Vieira-Vieira et al. Proteomics. apply multi-layer proteomic profiling and systems biology approaches to define T cell proteome and phosphoproteome landscapes, and they identify signaling networks and bioenergetics pathways that mediate T cell quiescence exit. Hornbeck, P. V., Zhang, B., Murray, B., Kornhauser, J. M., Latham, V., & Skrzypek, E. (2014). PubMed PMID: 25514926. 3. The 'PTMVar' dataset, an intersect of missense mutations and PTMs from PSP, identifies over 25 000 PTMVars (PTMs Impacted by Variants) that can rewire signaling pathways. Keywords - Journal. Information derived from PhosphoSitePlus (PSP) used in publications and presentations, should cite PSP as follows: Printed presentations (journals, books, etc. The GoMADScan search on PhosphoSitePlus databases identified methylation of conserved lysine residues in the core GTPase domain of RAS superfamily GTPases, including residues corresponding to RAS Lys-5, Lys-16, and Lys-117. Nucleic acids research 43.D1 (2015): D512-D520. Although some KDAC inhibitors are already FDA approved like Valproic Acid, Butyrates, SAHA, Romidepsin or Belinostat, and more than a dozen different KDAC inhibitors are currently under investigation in clinical trials, the molecular mechanisms underlying the response to KDAC inhibitors are not fully understood. Proteins are synthesized by ribosomes translating mRNA into polypeptide chains, which may then undergo PTM to form the mature protein product. PubMed. Gruber et al. (2004) PhosphoSite: A bioinformatics resource dedicated to physiological protein phosphorylation. knowledgebase of protein post-translational modifications [temp short desc] Hornbeck, PV et al. In order to improve data reliability, early MS data have been c-Src Tyrosine Kinase Phosphorylates TIMP-2. Technology Biological sciences International Journal Cell Biology January 2017The Free Library Date 2017 January International Journal Cell Biology Pulling Ligase out HAT pCAF Mediates Ubiquitination the Class Transactivator. Wiredja DD, Koyuturk M, Chance MR. PhosphoSitePlus. Improves the selection of treatment strategies for patients without druggable mutation. Nucleic acids research. PhosphoSitePlus (PSP, http://www.phosphosite. Springer Nature Online. Commun. 2015; 43: D512-D520. Although many of the 'one hitters' were removed during this process, a similar number were added back, keeping their overall numbers relatively constant, indicating that as many as 90-95% of the rescored 'one-hit' phosphosites from CST may be real, i.e. are not spurious artifacts of MS. PhosphoSitePlus, 2014: Mutations, PTMs and recalibrations. PhosphoSitePlus (PSP, http://www.phosphosite.org/), a knowledgebase dedicated to mammalian post-translational modifications (PTMs), contains over 330 000 non-redundant PTMs, including phospho, acetyl, ubiquityl and methyl groups. So far, several enzymes have been shown to be rapidly degraded through the ubiquitinproteasome pathway in response to cholesterol and other sterol intermediates. The mutation of this residue is enough to modify the amino acid Hornbeck PV, Zhang B, Murray B, Kornhauser JM, Latham V, Skrzypek E. PhosphoSitePlus, 2014: mutations, PTMs and recalibrations. KSEAPlus is a computational tool that allows for the estimation of kinase activity from phosphoproteomic data. Over 95% of the sites are from mass spectrometry (MS) experiments. Taylor & Francis BMJ academic.oup.com Ingenta dx.doi.org NCBI Europe PMC Oxford Univ Press () Oxford Univ Press JBC NRC Research Press ProQuest ResearchGate paperity.org onAcademic jcb.rupress.org clinchem.org mcponline.org bionity.com rsob.royalsocietypublishing.org bprcem.com biochemsoctrans.org scienceopen.com zentralblatt 2015;43:D512-520 42. Looking for online definition of PTMS or what PTMS stands for? Hornbeck, PV et al. PhosphoSitePlus (PSP, http://www.phosphosite.org/), a knowledgebase dedicated to mammalian post-translational modifications (PTMs), contains over 330 000 non-redundant PTMs, including phospho, acetyl, ubiquityl and methyl groups. Nucleic Acids Res. To date, one of the most comprehensive and popular database is PhosphositePlus, 2014: mutations, PTMs and recalibrations. PhosphoSitePlus() (PSP, http://www.phosphosite.org/), a knowledgebase dedicated to mammalian post-translational modifications (PTMs), contains over 330,000 non PTMs are important Last Updated: Stats: 2447 genes; 359 kinases; 6013 gene-kinase associations; Data Access. #' @references Hornbeck PV, Zhang B, Murray B, Kornhauser JM, Latham V, Skrzypek E PhosphoSitePlus, 2014: mutations, PTMs and recalibrations.