Provenance

Upload
charles.hoyt@scai.fraunhofer.de at 2018-04-03 14:50:10
Authors
Daniel Domingo-Fernandez et. al
Contact
None
License
Private Ownership to Fraunhofer Institute SCAI
Number Nodes
67
Number Edges
181
Number Components
6
Network Density
0.0409317
Average Degree
2.70149
Number Citations
17
Number BEL Errors
0

Content Statistics

Network Overlap

The node-based overlap between this network and other networks is calculated as the Szymkiewicz-Simpson coefficient of their respective nodes. Up to the top 10 are shown below.

Network Overlap
Selventa Protein Families Definitions v20150611 28%
BEL Framework Large Corpus Document v20170611 24%
Selventa Named Complexes Definitions v20150611 18%
NeuroMMSig AD Reactive oxygen species subgraph v5.0.4 12%
NeuroMMSig AD Low density lipoprotein subgraph v5.0.4 10%
DR_1 v1.1.1 9%
test_pr v1.1.6 9%
NeuroMMSig AD Notch signaling subgraph v5.0.4 8%
Neurotransmitter and Insulin NeuroMMSig enrichments v0.0.1 7%
BEL Training sentences edited v1.1.8 6%

Sample Edges

p(HGNC:GRIN2B) increases bp(GOBP:learning)

In conclusion, nefiracetam enhances NMDA-receptor function through stimulation of its glycine binding site and nefiracetam-induced CaMKII activation likely contributes to improvement of cognition, learning, and memory. PubMed:21821968

Annotations
NCBI Taxonomy Ids
10116
NeuroMMSigDB
Acetylcholine signaling subgraph
NeuroMMSigDB
GABA subgraph
NeuroMMSigDB
NMDA receptor

p(HGNC:GRIN2B) increases bp(GOBP:cognition)

In conclusion, nefiracetam enhances NMDA-receptor function through stimulation of its glycine binding site and nefiracetam-induced CaMKII activation likely contributes to improvement of cognition, learning, and memory. PubMed:21821968

Annotations
NCBI Taxonomy Ids
10116
NeuroMMSigDB
Acetylcholine signaling subgraph
NeuroMMSigDB
GABA subgraph
NeuroMMSigDB
NMDA receptor

p(HGNC:GRIN2B) increases bp(GOBP:memory)

In conclusion, nefiracetam enhances NMDA-receptor function through stimulation of its glycine binding site and nefiracetam-induced CaMKII activation likely contributes to improvement of cognition, learning, and memory. PubMed:21821968

Annotations
NCBI Taxonomy Ids
10116
NeuroMMSigDB
Acetylcholine signaling subgraph
NeuroMMSigDB
GABA subgraph
NeuroMMSigDB
NMDA receptor

complex(SCOMP:"CAMK2 Complex") increases p(HGNC:GRIA1, pmod(Ph, Ser, 831))

Nefiracetam treatment significantly enhanced long-term potentiation (LTP) with the same bell-shaped dose-response curve. Furthermore, nefiracetam-induced LTP enhancement was closely associated with calcium/calmodulin-dependent protein kinase II (CaMKII) activation with increase in phosphorylation of AMPA-type glutamate receptor subunit 1 (GluA1) (Ser-831) as a postsynaptic CaMKII substrate. PubMed:21821968

Annotations
NCBI Taxonomy Ids
10116
NeuroMMSigDB
GABA subgraph

p(GFAM:"Glutamate ionotropic receptor NMDA type subunits") association p(HGNC:EGR1)

Hence, it is predicted that zif268 may regulate transcription of genes associated with glutamate receptors and/or GABA(A)Rs. PubMed:19909279

Annotations
NeuroMMSigDB
Gamma secretase subgraph
NeuroMMSigDB
GABA subgraph

Sample Nodes

p(HGNC:TNF)

In-Edges: 576 | Out-Edges: 1108 | Explore Neighborhood | Download JSON

bp(GOBP:memory)

In-Edges: 217 | Out-Edges: 106 | Explore Neighborhood | Download JSON

path(MESHD:"Alzheimer Disease")

In-Edges: 2116 | Out-Edges: 2040 | Classes: 4 | Children: 2 | Explore Neighborhood | Download JSON

p(HGNC:EGR1)

In-Edges: 100 | Out-Edges: 111 | Explore Neighborhood | Download JSON

About

BEL Commons is developed and maintained in an academic capacity by Charles Tapley Hoyt and Daniel Domingo-Fernández at the Fraunhofer SCAI Department of Bioinformatics with support from the IMI project, AETIONOMY. It is built on top of the open source project, PyBEL. Please feel free to contact us here to give us feedback or report any issues.