a combination of chemical/enzymatic tagging,
photochemical cleavage, and electron transfer
dissociation mass spectrometry. Mol Cell Pro-
teomics 9(1):153–160
- Wang J, Torii M, Liu H et al (2011) dbOGAP -
an integrated bioinformatics resource for pro-
tein O-GlcNAcylation. BMC Bioinformatics
12(1):91
- Gupta R, Brunak S (2002) Prediction of glyco-
sylation across the human proteome and the
correlation to protein function. Pac Symp Bio-
comput 2002:310–322
- Jia CZ, Liu T, Wang ZP (2013)
O-GlcNAcPRED: a sensitive predictor to cap-
ture protein O-GlcNAcylation sites. Mol Bio-
syst 9(11):2909–2913
- Wu HY et al (2014) Characterization and iden-
tification of protein O-GlcNAcylation sites
with substrate specificity. BMC Bioinformatics
15(16):S1
- Zhao XW et al (2015) PGlcS: prediction of
protein O-GlcNAcylation sites with multiple
features and analysis. J Theor Biol 380(3):524
- Kao HJ et al (2015) A two-layered machine
learning method to identify protein
O-GlcNAcylation sites with O-GlcNAc trans-
ferase substrate motifs. BMC Bioinformatics
16(18):S10
- Apweiler R, Bairoch A, Wu CH et al (2004)
UniProt: the Universal Protein knowledge-
base. Nucleic Acids Res 32(Database
issue):115–119
- Lee TY, Huang HD, Hung JH et al (2006)
dbPTM: an information repository of protein
post-translational modification. Nucleic Acids
Res 34(Database issue):622–627
- Hansen JE, Lund O, Nielsen JO et al (1999)
O-GLYCBASE: a revised database of
O-glycosylated proteins. Nucleic Acids Res 27
(1):370–372
- Hornbeck PV, Kornhauser JM, Tkachev S et al
(2012) PhosphoSitePlus: a comprehensive
resource for investigating the structure and
function of experimentally determined post-
translational modifications in man and mouse.
Nucleic Acids Res 40(Database issue):D261
- Shi SP et al (2015) Progress and challenges in
predicting protein methylation sites. Mol Bio-
syst 11:2610–2619
- Chen SA, Lee TY, YY O (2010) Incorporating
significant amino acid pairs to identify O-linked
glycosylation sites on transmembrane proteins
and non-transmembrane proteins. BMC Bioin-
formatics 11(1):1–13
- Caragea C, Sinapov J, Silvescu A et al (2007)
Glycosylation site prediction using ensembles
of Support Vector Machine classifiers. BMC
Bioinformatics 8(1):438
- Trinidad JC et al (2012) Global identification
and characterization of both O-GlcNAcylation
and phosphorylation at the murine synapse.
Mol Cell Proteomics 11(8):215–229
- Jochmann R et al (2013) O-GlcNAc transfer-
ase inhibits KSHV propagation and modifies
replication relevant viral proteins as detected
by systematic O-GlcNAcylation analysis. Gly-
cobiology 23(10):1114–1130
- Hahne H, Gholami A, Kuster B (2012) Dis-
covery of O-GlcNAc-modified proteins in pub-
lished large-scale proteome data. Mol Cell
Proteom 11(10):843
- Hahne H et al (2013) Proteome wide purifica-
tion and identification of O-GlcNAc-modified
proteins using click chemistry and mass spec-
trometry. J Proteome Res 12(2):927–936
- Allison DF et al (2012) Modification of RelA
by O-linked N-acetylglucosamine links glucose
metabolism to NF-κB acetylation and tran-
scription. Proc Natl Acad Sci U S A 109
(42):16888–16893
- Gawlowski T et al (2012) Modulation of
dynamin-related protein 1 (DRP1) function
by increased O-linked-β-N-acetylglucosamine
modification (O-GlcNAc) in cardiac myocytes.
J Biol Chem 287(35):30024–30034
- Wang S et al (2012) Extensive crosstalk
between O-GlcNAcylation and phosphoryla-
tion regulates Akt signaling. PLoS One 7(5):
e37427
- Floyd ZE, Stephens JM (2012) Controlling a
master switch of adipocyte development and
insulin sensitivity: covalent modifications of
PPARγ. Biochim Biophys Acta 1822
(7):1090–1095
- Ji S et al (2012) O-GlcNAc modification of
PPARgamma reduces its transcriptional activ-
ity. Biochem Biophys Res Commun 417
(4):1158–1163
- Alfaro JF et al (2012) Tandem mass spectrom-
etry identifies many mouse brain
O-GlcNAcylated proteins including EGF
domain-specific O-GlcNAc transferase targets.
Proc Natl Acad Sci U S A 109(19):7280–7285
- Pathak S et al (2012) O-GlcNAcylation of
TAB1 modulates TAK1-mediated cytokine
release. EMBO J 31(6):1394–1404
- Overath T et al (2012) Mapping of O-GlcNAc
sites of 20 S proteasome subunits and Hsp90
by a novel biotin-cystamine tag. Mol Cell Pro-
teom 11(8):467
- Shao J et al (2009) Computational identifica-
tion of protein methylation sites through
Computational Prediction of Protein O-GlcNAc Modification 245