CBN

Causal Biological Network database: BEL-scripted biological networks representing causal signaling pathways

Biological events integrated in the database: cell response to stress, cell proliferation, cell fate (including DNA damage response, autophagy, senescence, apoptosis and necroptosis), tissue repair and angiogenesis, pulmonary inflammatory processes, vascular inflammatory processes and chronic obstructive pulmonary disease (COPD)-specific networks.

Publication

Causal biological network database: a comprehensive platform of causal biological network models focused on the pulmonary and vascular systems. Boué et al. (2015), Database(Oxford)

Species supported

• H. sapiens
• M. musculus
• R. norvegicus

Controlled Vocabulary / Ontology

• PubMed ID
• GO
• HGNC
• BEL terms

Implementation

MongoDB with BEL statements (use of triplets)

Export file formats

• JSON
• SIF

Representation of causality statements

Causal relations in CBN are defined as BEL statements. A BEL statement represents the data as triplets: a relationship between a subject (abundance or process) and an object (abundance, process or second BEL statements). The following terms are used to express the type of causal relation:

• decreases -|
• directlyDecreases =|
• increases ->
• directlyIncreases =>
• causesNoChange

External links

http://causalbionet.com/