Provenance

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charles.hoyt@scai.fraunhofer.de at 2018-04-03 14:50:13
Authors
Daniel Domingo-Fernandez et. al
Contact
None
License
Private Ownership to Fraunhofer Institute SCAI
Number Nodes
130
Number Edges
241
Number Components
7
Network Density
0.0143709
Average Degree
1.85385
Number Citations
41
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 34%
BEL Framework Small Corpus Document v20150611 24%
DR_1 v1.1.1 17%
Oxidative Stress-2.0-Hs v2.0 17%
AB_Test1 v1.1.1 14%
AB_Test2 v1.1.1 13%
test_pr v1.1.6 13%
BEL Training sentences edited v1.1.8 13%
Necroptosis-2.0-Hs v2.0 13%
NeuroMMSig AD GABA subgraph v5.0.4 12%

Sample Edges

a(CHEBI:"vitamin E") decreases p(MGI:Hspd1, pmod(Ox))

We have examined this by using oxidative stress to induce apoptosis in a mouse hippocampal neuronal cell line (HT-22). Oxidatively modified proteins were measured by high-resolution two-dimensional gel electrophoresis coupled with oxidation-specific immunostains.Under these conditions the oxidatively stressed cells undergo apoptotic process, and specific proteins are oxidized. The three proteins that appeared to be most susceptible to oxidation were identified by mass spectrometry. Those oxidized proteins are heat shock protein 60 and vimentin, both believed to function as antiapoptotic proteins, and a third protein with sequence homology to hemoglobin alpha-chain. When the cells were pretreated with vitamin E, these proteins were not oxidized and the cells did not undergo apoptotic process. PubMed:12548636

a(CHEBI:"vitamin E") decreases bp(GOBP:"apoptotic process")

We have examined this by using oxidative stress to induce apoptosis in a mouse hippocampal neuronal cell line (HT-22). Oxidatively modified proteins were measured by high-resolution two-dimensional gel electrophoresis coupled with oxidation-specific immunostains.Under these conditions the oxidatively stressed cells undergo apoptotic process, and specific proteins are oxidized. The three proteins that appeared to be most susceptible to oxidation were identified by mass spectrometry. Those oxidized proteins are heat shock protein 60 and vimentin, both believed to function as antiapoptotic proteins, and a third protein with sequence homology to hemoglobin alpha-chain. When the cells were pretreated with vitamin E, these proteins were not oxidized and the cells did not undergo apoptotic process. PubMed:12548636

a(CHEBI:"vitamin E") decreases p(MGI:Vim, pmod(Ox))

We have examined this by using oxidative stress to induce apoptosis in a mouse hippocampal neuronal cell line (HT-22). Oxidatively modified proteins were measured by high-resolution two-dimensional gel electrophoresis coupled with oxidation-specific immunostains.Under these conditions the oxidatively stressed cells undergo apoptotic process, and specific proteins are oxidized. The three proteins that appeared to be most susceptible to oxidation were identified by mass spectrometry. Those oxidized proteins are heat shock protein 60 and vimentin, both believed to function as antiapoptotic proteins, and a third protein with sequence homology to hemoglobin alpha-chain. When the cells were pretreated with vitamin E, these proteins were not oxidized and the cells did not undergo apoptotic process. PubMed:12548636

a(CHEBI:"vitamin E") decreases bp(MESHPP:"Oxidative Stress")

antioxidants such as vitamin E prevents Abeta-induced ROS production, oxidative damage and neurotoxicity in brain cells. PubMed:10658956

a(CHEBI:"vitamin E") decreases a(CHEBI:"reactive oxygen species")

antioxidants such as vitamin E prevents Abeta-induced ROS production, oxidative damage and neurotoxicity in brain cells. PubMed:10658956

Sample Nodes

p(SFAM:"MAPK p38 Family")

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

a(CHEBI:"nitric oxide")

In-Edges: 455 | Out-Edges: 538 | Classes: 3 | Explore Neighborhood | Download JSON

a(CHEBI:memantine)

In-Edges: 9 | Out-Edges: 58 | Classes: 2 | Explore Neighborhood | Download JSON

a(CHEBI:lipopolysaccharide)

In-Edges: 277 | Out-Edges: 1541 | 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.