dbOGAP: A Database for Protein O-GlcNAcylation
Author Information
Author(s): Wang Jinlian, Torii Manabu, Liu Hongfang, Hart Gerald W, Hu Zhang-Zhi
Primary Institution: Georgetown University Medical Center
Hypothesis
The study aims to develop a comprehensive database for O-GlcNAcylated proteins and a prediction tool for O-GlcNAcylation sites.
Conclusion
The dbOGAP database is the first public resource providing systematic access to O-GlcNAcylated proteins and related functional information.
Supporting Evidence
- The database contains ~800 proteins with experimental O-GlcNAcylation information.
- 172 proteins have a total of ~400 O-GlcNAcylation sites identified.
- The OGlcNAcScan tool achieved an area under ROC curve of 74.3% in five-fold cross-validation.
- About 22% of known O-GlcNAcylated proteins have identified O-GlcNAcylation sites.
- O-GlcNAcylated proteins are primarily nucleocytoplasmic and involved in various biological processes.
- 141 annotated GeneGO pathways are significantly enriched for O-GlcNAcylated human proteins.
- O-GlcNAcylation is implicated in diseases such as type II diabetes and neurodegenerative diseases.
- The dbOGAP resource facilitates research on O-GlcNAcylation and its proteomic identification.
Takeaway
Scientists created a database to help find proteins that have a special sugar added to them, which is important for many body functions.
Methodology
The database was developed using literature review and includes a prediction system based on Support Vector Machine.
Potential Biases
Potential false positives from mass spectrometry data.
Limitations
Many O-GlcNAcylated proteins were identified through mass spectrometry and require further validation.
Participant Demographics
About 61% of the identified O-GlcNAcylated proteins are from humans.
Statistical Information
P-Value
p<0.05
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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