SynWiki

SynWiki aggregates curated gene, protein, and protein–protein interaction data for the synthetic bacterium Mycoplasma mycoides JCVI-syn3A to support functional annotation and study of its minimal genome of 452 protein-coding genes, approximately one-third of which lack characterized functions.

Key Features:

• Comprehensive gene and protein data: Aggregates published literature-derived information specific to Mycoplasma mycoides JCVI-syn3A genes and proteins.
• Functional annotation support: Integrates evidence to aid assignment of putative functions for uncharacterized proteins within the 452-gene minimal genome.
• Protein–protein interaction integration: Incorporates protein–protein interaction data to inform hypotheses about protein function and cellular pathways.
• Relational database model: Stores curated gene, protein, and interaction data in a relational schema for structured querying and retrieval.

Scientific Applications:

• Functional annotation of uncharacterized proteins: Supports efforts to assign functions to the ~one-third of proteins in JCVI-syn3A that lack characterization.
• Hypothesis generation from interaction data: Enables proposal of functional roles for proteins based on integrated protein–protein interaction evidence.
• Study of minimal cellular systems: Facilitates analysis of essential cellular processes in the minimal genome of Mycoplasma mycoides JCVI-syn3A.

Methodology:

Relational database aggregating published gene and protein information and integrating protein–protein interaction data for Mycoplasma mycoides JCVI-syn3A.