Provenance

Upload
charles.hoyt@scai.fraunhofer.de at 2018-04-03 15:17:27
Authors
Causal Biological Networks Database
Contact
CausalBiologicalNetworks.RD@pmi.com
Description
The Megakaryocyte Differentiation network depicts the causal mechanisms involved in megakaryocyte differentiation in response to upstream signals (e.g. IL11, CXCL12, and THPO).
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
113
Number Edges
321
Number Components
14
Network Density
0.0253635
Average Degree
2.84071
Number Citations
195
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 58%
Macrophage Signaling-2.0-Rn v2.0 37%
Selventa Protein Families Definitions v20150611 36%
Neutrophil Signaling-2.0-Rn v2.0 35%
Tissue Damage-2.0-Rn v2.0 32%
Dendritic Cell Signaling-2.0-Rn v2.0 30%
Jak Stat-2.0-Rn v2.0 29%
Apoptosis-2.0-Rn v2.0 27%
Immune Regulation of Tissue Repair-2.0-Rn v2.0 27%
Epithelial Innate Immune Activation-2.0-Rn v2.0 27%

Sample Edges

act(complex(SCOMP:"IkappaB Kinase Complex"), ma(kin)) directlyIncreases p(HGNC:NFKBIA, pmod(Ph, Ser, 36))

In the classical NF-{kappa}B signaling pathway, IKK{beta} is both necessary and sufficient for phosphorylation of I{kappa}B{alpha} on Ser 32 and Ser 36, and I{kappa}B{beta} on Ser 19 and Ser 23. PubMed:15371334

act(complex(SCOMP:"IkappaB Kinase Complex"), ma(kin)) directlyIncreases p(HGNC:NFKBIA, pmod(Ph, Ser, 36))

The IKK immunoprecipitates from thrombin-treated cells showed increased phosphorylation of GST-IkBalpha compared with the immunoprecipitates from control cells (Fig. 6), indicating the activation of IKK by thrombin. PubMed:15843586

act(complex(SCOMP:"IkappaB Kinase Complex"), ma(kin)) directlyIncreases p(HGNC:NFKBIA, pmod(Ph, Ser, 32))

In the classical NF-{kappa}B signaling pathway, IKK{beta} is both necessary and sufficient for phosphorylation of I{kappa}B{alpha} on Ser 32 and Ser 36, and I{kappa}B{beta} on Ser 19 and Ser 23. PubMed:15371334

Sample Nodes

p(RGD:Mapk3)

In-Edges: 173 | Out-Edges: 60 | Explore Neighborhood | Download JSON

p(RGD:Nfkbia)

In-Edges: 129 | Out-Edges: 96 | Explore Neighborhood | Download JSON

p(RGD:Creb1)

In-Edges: 54 | Out-Edges: 15 | Explore Neighborhood | Download JSON

p(RGD:Il6)

In-Edges: 166 | Out-Edges: 99 | Explore Neighborhood | Download JSON

p(RGD:Crebbp)

In-Edges: 7 | Out-Edges: 13 | 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.