PhosSNP

PhosSNP catalogs and predicts phosphorylation-related single nucleotide polymorphisms (phosSNPs), identifying non-synonymous SNPs (nsSNPs) that influence protein phosphorylation status for functional analysis.

Key Features:

• Phosphorylation-Specific Analysis: Focuses on nsSNPs that affect protein phosphorylation, a post-translational modification that regulates protein activity, stability, and interactions.
• Kinase-Specific Prediction Tool (GPS 2.0): Uses the in-house kinase-specific phosphorylation site predictor GPS 2.0 to identify potential phosSNPs and assess impacts on kinase recognition.
• Detection Statistics: Reports that approximately 70% of nsSNPs are identified as potential phosSNPs and that about 74.6% of these may alter the types of kinases involved at adjacent phosphorylation sites.
• Database Integration (PhosSNP 1.0): Integrates identified phosSNPs into PhosSNP 1.0, with the database implementation using JAVA 1.5 (J2SE 5.0).

Scientific Applications:

• Personalized Medicine: Enables analysis of how nsSNP-driven phosphorylation changes can affect individual disease susceptibility and therapeutic response.
• Genomic Research: Supports genome-wide analyses of SNPs that influence protein function via phosphorylation alterations.
• Pathway Analysis: Identifies nsSNPs that may rewire biological pathways by changing phosphorylation characteristics and kinase interactions.

Methodology:

GPS 2.0 is applied to predict kinase-specific phosphorylation sites affected by nsSNPs for genome-wide identification of potential phosSNPs, and identified phosSNPs are integrated into the PhosSNP 1.0 database implemented in JAVA 1.5 (J2SE 5.0).