Provenance

Upload
charles.hoyt@scai.fraunhofer.de at 2018-04-03 14:50:19
Authors
Daniel Domingo-Fernandez et. al
Contact
None
License
Private Ownership to Fraunhofer Institute SCAI
Number Nodes
156
Number Edges
342
Number Components
10
Network Density
0.0141439
Average Degree
2.19231
Number Citations
59
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 25%
NeuroMMSig AD Notch signaling subgraph v5.0.4 11%
NeuroMMSig AD GABA subgraph v5.0.4 10%
BEL Framework Example 3 Document v2015611 9%
NeuroMMSigDB for Alzheimer Disease v20171205 9%
NeuroMMSig AD Reactive oxygen species subgraph v5.0.4 9%
30232325.bel v2.0.4 7%
Exported from Bel-c.bel v2.0.4 7%
CDR-SB Associations v1.0.5 7%
BEL Framework Small Corpus Document v20150611 6%

Sample Edges

act(p(HGNC:NFKB1), ma(tscript)) increases p(HGNC:ICAM1)

Following stimulation with IL-1β and TNF-α, activated astrocytes newly produced IL-1β, IL-1ra, TNF-α, IP-10 (CXCL10), MIP-1α (CCL3) and RANTES (CCL5), in addition to the induction of sICAM-1 and complement component 5. Database search indicated that most of cytokines and chemokines produced by non-stimulated and activated astrocytes are direct targets of the transcription factor NF-kB. PubMed:24691121

p(HGNC:SORCS1) association a(NIFT:"Ventricular expansion")

After false discovery rate correction, we observed 53 significant associations between SNPs and our imaging features, including associations of ventricular enlargement with SNPs on estrogen receptor 1 (ESR1) and sortilin-related VPS10 domain containing receptor 1 (SORCS1), hippocampal atrophy with SNPs on ESR1, and cerebral atrophy with SNPs on transferrin (TF) and amyloid beta precursor protein (APP). PubMed:25570489

Annotations
NeuroMMSigDB
Low density lipoprotein subgraph

p(HGNC:SORCS1) association path(MESHD:"Alzheimer Disease")

Sortilin-related VPS10 domain containing receptor 1 and Alzheimer's disease-associated allelic variations preferentially exist in female or type 2 diabetes mellitus patients in southern Han Chinese. PubMed:23279143

Annotations
NeuroMMSigDB
Low density lipoprotein subgraph

p(HGNC:SORCS1) directlyDecreases p(HGNC:APP, frag(672_713))

Sorting mechanisms that cause the amyloid precursor protein (APP) and the ß-secretases and gamma-secretases to colocalize in the same compartment play an important role in the regulation of ABeta¸ production in Alzheimer's disease (AD). We and others have reported that genetic variants in the Sortilin-related receptor (SORL1) increased the risk of AD, that SORL1 is involved in trafficking of APP, and that underexpression of SORL1 leads to overproduction of ABeta¸. Here we explored the role of one of its homologs, the sortilin-related VPS10 domain containing receptor 1 (SORCS1), in AD.SorCS1 influenced APP processing. While overexpression of SorCS1 reduced gamma-secretase activity and ABeta¸ levels, the suppression of SorCS1 increased gamma-secretase processing of APP and the levels of ABeta¸. PubMed:21280075

p(HGNC:SORCS1) association path(MESHD:"Diabetes Mellitus, Type 2")

Sortilin-related VPS10 domain containing receptor 1 and Alzheimer's disease-associated allelic variations preferentially exist in female or type 2 diabetes mellitus patients in southern Han Chinese. PubMed:23279143

Annotations
NeuroMMSigDB
Low density lipoprotein subgraph

Sample Nodes

a(CHEBI:fluoxetine)

In-Edges: 19 | Out-Edges: 127 | Classes: 3 | Explore Neighborhood | Download JSON

path(MESHD:"Alzheimer Disease")

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

p(HGNC:APP)

In-Edges: 961 | Out-Edges: 647 | Classes: 2 | 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.