SBGN bricks

SBGN bricks provide template SBGN building blocks and an ontology to represent and semantically annotate recurring concepts in molecular networks.

Key Features:

• Standardized Representation: SBGN bricks are building blocks derived from the Systems Biology Graphical Notation (SBGN) that encapsulate recurring concepts in metabolic and regulatory pathways.
• Ontological Structure: The BricKs Ontology (BKO) organizes SBGN bricks and assigns precise semantic meanings to each represented biological concept.
• Template-Based Construction: Reusable SBGN brick templates enable assembly of complex SBGN maps by composing common network patterns.
• Semantic Annotation: BKO provides a formal semantic layer for SBGN maps to support computational analysis and interpretation of molecular interactions.

Scientific Applications:

• Pathway Representation: Representing metabolic and regulatory pathways as standardized SBGN maps.
• Computational Analysis: Enabling semantic annotation of SBGN maps to support computational analyses and interpretation of molecular interactions.
• Map Construction and Annotation: Supporting template-based construction and annotation of SBGN maps for systems biology studies.

Methodology:

Identify recurring patterns in molecular networks, encapsulate them as reusable SBGN bricks, and organize these components within the BricKs Ontology (BKO) to define their semantic meaning.