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Protocols

dbOGAP specifications

Information


Unique identifier OMICS_04181
Name dbOGAP
Restrictions to use None
Maintained No

Taxon


  • Invertebrates
    • Drosophila melanogaster
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus
  • Vertebrates
    • Xenopus laevis

Publication for dbOGAP

dbOGAP citations

 (4)
call_split

Prediction of post translational modification sites using multiple kernel support vector machine

2017
PeerJ
PMCID: 5410141
PMID: 28462053
DOI: 10.7717/peerj.3261
call_split See protocol

[…] d 1,961 T sites (phosphorylation, O-linked glycosylation, acetylation) collected from several major comprehensive PTM databases, including dbPTM (version 3.0) (), PhosphoSitePlus (), Phospho. ELM (), dbOGAP () and SysPTM (). The detailed information of this dataset was provided in . For Y sites, we followed the procedure described in and collected 1,791 local sequences (containing phosphorylation […]

library_books

Exercise training increases protein O‐GlcNAcylation in rat skeletal muscle

2016
PMCID: 5037911
PMID: 27664189
DOI: 10.14814/phy2.12896

[…] oto Encyclopedia of Genes and Genomes (KEGG) BlastKOALA (http://www.kegg.jp/blastkoala/) (Kanehisa et al. ). Previously reported O‐GlcNAc modifications of the identified proteins were searched for in dbOGAP v1.0 (http://cbsb.lombardi.georgetown.edu/hulab/OGAP.html), and prediction of O‐GlcNAc sites were performed by OGlcNAcScan (http://cbsb.lombardi.georgetown.edu/hulab/OGAP.html) (Wang et al. ) a […]

library_books

Characterization and identification of protein O GlcNAcylation sites with substrate specificity

2014
BMC Bioinformatics
PMCID: 4290634
PMID: 25521204
DOI: 10.1186/1471-2105-15-S16-S1

[…] The experimentally verified O-GlcNAcylation sites were mainly extracted from dbPTM [-] which have integrated several protein glycosylation-associated databases: dbOGAP [], UniProtKB [], O-GlycBase [], and PhosphoSitePlus []. The dbOGAP database contains 240 and 135 sites for O-GlcNAcylated serine (Ser) and threonine (Thr) on 168 proteins. O-GlcNAcylation data […]

library_books

Synapsin 1 and tau reciprocal O GlcNAcylation and phosphorylation sites in mouse brain synaptosomes

2013
PMCID: 3701289
PMID: 23807304
DOI: 10.1038/emm.2013.56

[…] its tandem MS spectra clearly indicated that this residue was modified by either O-GlcNAcylation () or phosphorylation (). These results were further confirmed by an O-GlcNAcylation prediction tool (dbOGAP, http://cbsb.lombardi.georgetown.edu/OGAP.html) and a phosphorylation prediction tool (NetPhos 2.0 server, http://www.cbs.dtu.dk/services/NetPhos). The Ser605 residue of synapsin-1 was predicte […]

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dbOGAP institution(s)
Department of Oncology, Georgetown University Medical Center, NW, WA, DC, USA

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