Provenance

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charles.hoyt@scai.fraunhofer.de at 2018-04-03 15:18:09
Authors
Causal Biological Networks Database
Contact
CausalBiologicalNetworks.RD@pmi.com
Description
The Nuclear Receptors network depicts the causal mechanisms in the nuclear receptor signaling pathway that leads to cell proliferation and cell cycle progression as indicated by the core elements (cyclin-dependent kinases, E2F family members, cyclins, and CDKN1A). \nReviewed during Jamboree2014
License
Please cite: - www.causalbionet.com - https://bionet.sbvimprover.com as well as any relevant publications. The sbv IMPROVER project, the website and the Symposia are part of a collaborative project designed to enable scientists to learn about and contribute to the development of a new crowd sourcing method for verification of scientific data and results. The current challenges, website and biological network models were developed and are maintained as part of a collaboration among Selventa, OrangeBus and ADS. The project is led and funded by Philip Morris International. For more information on the focus of Philip Morris International’s research, please visit www.pmi.com.
Number Nodes
31
Number Edges
59
Number Components
4
Network Density
0.0634409
Average Degree
1.90323
Number Citations
42
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
BEL Framework Large Corpus Document v20170611 68%
Cell Cycle-2.0-Rn v2.0 39%
Selventa Protein Families Definitions v20150611 26%
Nuclear Receptors-2.0-Hs v2.0 23%
Nuclear Receptors-2.0-Mm v2.0 23%
Macrophage Signaling-2.0-Rn v2.0 19%
Hox-2.0-Rn v2.0 19%
Cell Interaction-2.0-Rn v2.0 16%
Growth Factor-2.0-Rn v2.0 16%
Notch-2.0-Rn v2.0 16%

Sample Edges

p(RGD:Cdkn1a) directlyDecreases act(p(RGD:Cdk4), ma(kin))

The encoded protein (CDKN1A) binds to and inhibits the activity of cyclin-CDK2 or -CDK4 complexes PubMed:12769686

p(RGD:Cdkn1a) directlyDecreases act(p(RGD:Cdk4), ma(kin))

hese results indicate that glucocorticoid inhibition of fibroblast proliferation is due to induction of p21Cip1, which binds to and inactivates cyclinD/Cdk4 complexes. PubMed:9139801

p(RGD:Cdkn1a) directlyDecreases act(p(RGD:Cdk4), ma(kin))

p21Cip1 overexpression also inhibited the kinase activity of Cdk4, though to a lesser extent than Cdk2 (data not shown). PubMed:11463845

Sample Nodes

p(RGD:Mapk8)

In-Edges: 58 | Out-Edges: 21 | Explore Neighborhood | Download JSON

p(RGD:Vdr)

In-Edges: 9 | Out-Edges: 3 | Explore Neighborhood | Download JSON

p(RGD:E2f1)

In-Edges: 13 | Out-Edges: 1 | Explore Neighborhood | Download JSON

p(RGD:Cdk4)

In-Edges: 24 | Out-Edges: 6 | 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.