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Identification of a novel aspartic protease (Asp 2) as beta-secretase 1.0.0

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charles.hoyt@scai.fraunhofer.de at 2019-02-27 16:11:44.171341
Authors
Rana Aldisi
Contact
charles.hoyt@scai.fraunhofer.de
License
CC BY 4.0
Copyright
Copyright © 2018 Fraunhofer Institute SCAI, All rights reserved.
Number Nodes
10
Number Edges
15
Number Components
1
Network Density
0.166666666666667
Average Degree
1.5
Number Citations
1
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
M1 muscarinic acetylcholine receptor in Alzheimer’s disease v1.0.0 50%
Nicotinic acetylcholine receptor signalling: roles in Alzheimer's disease and amyloid neuroprotection. v1.0.0 40%
Amyloid Precursor Protein Trafficking, Processing, and Function v1.0.0 30%
APP processing in Alzheimer's disease v1.0.1 30%
Proteolytic processing of Alzeimer's beta-amyloid precursor protein v1.0.1 30%
Effects of peptides derived from BACE1 catalytic domain on APP processing v1.0.0 30%
Nuclear receptors as therapeutic targets for Alzheimer's disease. v1.0.0 30%
The Ubiquitin Proteasome System in Neurodegenerative Diseases: Sometimes the Chicken, Sometimes the Egg v1.0.0 30%
Clearance systems in the brain-implications for Alzheimer disease. v1.0.1 30%
Clearance of Amyloid Beta and Tau in Alzheimer’s Disease:from Mechanisms to Therapy v1.0.1 30%

Sample Edges

a(HBP:APP695) association p(HGNC:BACE1) View Subject | View Object

Using the same anti-peptide sera we can detect expression of endogenous Asp 2 in SH-SY5Y cells stably expressing the 695 isoform of APP (SH-SY5Y APP-695) and in COS-7 cells expressing the 751 isoform of APP (COS-7 APP-751). The level of Asp 2 is increased upon transient transfection with the protein. PubMed:10656250

Annotations
Experimental Factor Ontology (EFO)
SH-SY5Y

a(HBP:APP751) association p(HGNC:BACE1) View Subject | View Object

Using the same anti-peptide sera we can detect expression of endogenous Asp 2 in SH-SY5Y cells stably expressing the 695 isoform of APP (SH-SY5Y APP-695) and in COS-7 cells expressing the 751 isoform of APP (COS-7 APP-751). The level of Asp 2 is increased upon transient transfection with the protein. PubMed:10656250

Annotations
Experimental Factor Ontology (EFO)
COS-7 cell

p(HGNC:APP) hasVariant p(HGNC:APP, frag("672_770")) View Subject | View Object

p(HGNC:APP, loc(GO:"endoplasmic reticulum")) association p(HGNC:BACE1, loc(GO:"endoplasmic reticulum")) View Subject | View Object

APP clearly localizes to the Golgi/endoplasmic reticulum region as revealed by distinctive juxtanuclear staining and a more generalized reticular staining throughout the cell (Figs. 6b and 6g). Asp 2 shows essentially the same subcellular distribution as revealed by simultaneous detection of myc-tagged Asp 2 and APP in COS-7 APP-751 cells (compare Figs. 6f and 6g), and merging of the confocal images for APP and Asp 2 indicates colocalization (Fig. 6h). PubMed:10656250

p(HGNC:BACE1) hasVariant p(HGNC:BACE1, var("p.?")) View Subject | View Object

Sample Nodes

path(MESH:"Alzheimer Disease")

In-Edges: 536 | Out-Edges: 704 | Classes: 5 | Explore Neighborhood | Download JSON

p(HGNC:APP)

In-Edges: 106 | Out-Edges: 69 | Explore Neighborhood | Download JSON

a(HBP:"sAPP-alpha")

In-Edges: 15 | Out-Edges: 1 | Explore Neighborhood | Download JSON

a(HBP:"sAPP-beta")

In-Edges: 12 | Out-Edges: 1 | Explore Neighborhood | Download JSON

a(HBP:APP695)

In-Edges: 1 | Out-Edges: 1 | 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 PyBEL, an open source project. Please feel free to contact us here to give us feedback or report any issues. Also, see our Publishing Notes and Data Protection information.

If you find BEL Commons useful in your work, please consider citing: Hoyt, C. T., Domingo-Fernández, D., & Hofmann-Apitius, M. (2018). BEL Commons: an environment for exploration and analysis of networks encoded in Biological Expression Language. Database, 2018(3), 1–11.