title: PhosphoSitePlus, 2014: mutations, PTMs and recalibrations.
abstract: 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. Over 95% of the sites are from mass spectrometry (MS) experiments. In order to improve data reliability, early MS data have been reanalyzed, applying a common standard of analysis across over 1,000,000 spectra. Site assignments with P > 0.05 were filtered out. Two new downloads are available from PSP. The 'Regulatory sites' dataset includes curated information about modification sites that regulate downstream cellular processes, molecular functions and protein-protein interactions. 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. The PTMVar data include missense mutations from UniPROTKB, TCGA and other sources that cause over 2000 diseases or syndromes (MIM) and polymorphisms, or are associated with hundreds of cancers. PTMVars include 18 548 phosphorlyation sites, 3412 ubiquitylation sites, 2316 acetylation sites, 685 methylation sites and 245 succinylation sites.
authors.affiliation: Cell Signaling Technology, 3 Trask Lane, Danvers, MA 01923, USA phornbeck@cellsignal.com.
authors.forename: Peter V
authors.initials: PV
authors.lastname: Hornbeck
authors.affiliation: Cell Signaling Technology, 3 Trask Lane, Danvers, MA 01923, USA.
authors.forename: Bin
authors.initials: B
authors.lastname: Zhang
authors.affiliation: Cell Signaling Technology, 3 Trask Lane, Danvers, MA 01923, USA.
authors.forename: Beth
authors.initials: B
authors.lastname: Murray
authors.affiliation: Cell Signaling Technology, 3 Trask Lane, Danvers, MA 01923, USA.
authors.forename: Jon M
authors.initials: JM
authors.lastname: Kornhauser
authors.affiliation: Cell Signaling Technology, 3 Trask Lane, Danvers, MA 01923, USA.
authors.forename: Vaughan
authors.initials: V
authors.lastname: Latham
authors.affiliation: Cell Signaling Technology, 3 Trask Lane, Danvers, MA 01923, USA.
authors.forename: Elzbieta
authors.initials: E
authors.lastname: Skrzypek
mesh_terms: D030562:Databases, Protein; D004194:Disease / Q000235:genetics; D020407:Internet; D009154:Mutation; D020125:Mutation, Missense; D010766:Phosphorylation; D056510:Position-Specific Scoring Matrices; D011494:Protein Kinases / Q000378:metabolism; D011499:Protein Processing, Post-Translational / Q000235:genetics; D017434:Protein Structure, Tertiary; D020539:Sequence Analysis, Protein; D015398:Signal Transduction / Q000235:genetics
chemical_list: D011494:Protein Kinases