Provenance

Upload
charles.hoyt@scai.fraunhofer.de at 2018-04-03 15:16:13
Authors
Causal Biological Networks Database
Contact
CausalBiologicalNetworks.RD@pmi.com
Description
The Fibrosis network depicts causal mechanisms that describe fibrosis and epithelial-to-mesenchymal cell transition (EMT) in lung tissue repair, including distinct characteristics of lung fibrosis such as TGFB1, collagen and MMPs. The network also contains signaling components of the Wnt, Hedgehog, and EGFR pathways that promote fibrosis and EMT.
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
146
Number Edges
510
Number Components
15
Network Density
0.0240907
Average Degree
3.49315
Number Citations
308
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 61%
Selventa Protein Families Definitions v20150611 37%
ECM Degradation-2.0-Rn v2.0 33%
Fibrosis-2.0-Hs v2.0 28%
Fibrosis-2.0-Mm v2.0 27%
Growth Factor-2.0-Rn v2.0 27%
Hox-2.0-Rn v2.0 26%
Cell Interaction-2.0-Rn v2.0 24%
Wnt-2.0-Rn v2.0 24%
Wound Healing-2.0-Rn v2.0 23%

Sample Edges

bp(GOBP:"epithelial to mesenchymal transition") increases path(MESHD:Fibrosis)

A process by which epithelial cells lose cell-cell attachment, polarity and epithelial-specific markers, undergo cytoskeletal remodeling, and gain a mesenchymal phenotype, EMT plays a prominent role in fibrogenesis in adult tissues such as the kidney. This review summarizes the evidence supporting a central role for EMT in the pathogenesis of lung fibrosis PubMed:16738204

Sample Nodes

p(SFAM:"MAPK p38 Family")

In-Edges: 300 | Out-Edges: 234 | Explore Neighborhood | Download JSON

p(RGD:Mtor)

In-Edges: 43 | Out-Edges: 18 | Explore Neighborhood | Download JSON

p(HGNC:AKT1)

In-Edges: 267 | Out-Edges: 239 | Explore Neighborhood | Download JSON

p(RGD:Fos)

In-Edges: 23 | Out-Edges: 6 | Explore Neighborhood | Download JSON

p(RGD:Mapk3)

In-Edges: 173 | Out-Edges: 60 | 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.