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  3. Significance of NF-κB as a pivotal therapeutic target in the neurodegenerative pathologies of Alzheimer's disease and multiple sclerosis v1.0.0
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Biogrammar Summary of Significance of NF-κB as a pivotal therapeutic target in the neurodegenerative pathologies of Alzheimer's disease and multiple sclerosis 1.0.0

Table of Contents

  1. Regulatory Pairs
  2. Contradictory Pairs
  3. Unstable Pairs
  4. Contradictory Triplets

Regulatory Pairs 1

These pairs of nodes represent motifs like A increases B and B decreases A.

Node A Node B
bp(GO:"membrane depolarization") complex(GO:"NF-kappaB complex")

Contradictory Statements 1

These pairs of nodes have a contradiction in their causal relationships, meaning they have more than one of INCREASES, DECREASES, or CAUSES NO CHANGE. This may be due to different experimental conditions, so these statements need to be carefully considered in analyses.

Source Relations Target
a(CHEBI:"amyloid-beta") positiveCorrelation, decreases, increases complex(GO:"NF-kappaB complex")

Unstable Pairs 1

Chaotic Pairs
Nodes that mutually increase each other, such as when both A increases B and B increases A.
Dampened Pairs
Nodes that mutually decrease each other, such as when both A decreases B and B decreases A.

While neither chaotic nor dampened pairs are biologically invalid, they require additional context to understand their regulation.

Type Node A Node B
Dampened a(CHEBI:"amyloid-beta") p(HGNC:BCL2L1)

Contradictory Triplets 8

Analysis of triple stability comes from a deep graph theoretic background. It identifies triangles within the graph that have logically inconsistent relations.

Separately Unstable Triplet
When both A positiveCorrelation B, B negativeCorrelation C, but C positiveCorrelation A.
Mutually Unstable Triplets
When both A negativeCorrelation B, B negativeCorrelation C, and C negativeCorrelation A.
Jens Contradictory Triplet
When A increases B, A decreases C, and C positiveCorrelation A.
Increase Mismatch Triplet
When A increases B, A increases C, and C negativeCorrelation A.
Decrease Mismatch Triplet
When A decreases B, A decreases C, and C negativeCorrelation A.
Type Node A Node B Node C
Jens a(CHEBI:"amyloid-beta polypeptide 42") a(MESH:Microglia) complex(GO:"NF-kappaB complex")
Jens a(CHEBI:"amyloid-beta") bp(GO:"neuron death") complex(GO:"NF-kappaB complex")
Jens a(CHEBI:"amyloid-beta polypeptide 42") a(MESH:Microglia) bp(GO:"positive regulation of advanced glycation end-product receptor activity")
Jens a(CHEBI:"amyloid-beta polypeptide 42") a(MESH:Microglia) bp(GO:"peroxisome proliferator activated receptor signaling pathway")
Jens complex(GO:"NF-kappaB complex") p(HGNC:IL6) path(MESH:"Alzheimer Disease")
Jens complex(GO:"NF-kappaB complex") p(HGNC:TNF) path(MESH:"Alzheimer Disease")
Jens complex(GO:"NF-kappaB complex") p(HGNC:IL1B) path(MESH:"Alzheimer Disease")
Jens a(CHEBI:"amyloid-beta polypeptide 42") a(MESH:Microglia) p(MESH:"I-kappa B Proteins", pmod(Ph))

About

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If you find BEL Commons useful in your work, please consider citing: Hoyt, C. T., Domingo-Fernández, D., & Hofmann-Apitius, M. (2018). BEL Commons: an environment for exploration and analysis of networks encoded in Biological Expression Language. Database, 2018(3), 1–11.