We are manually capturing protein-protein interaction (PPI) experimental data from the cardiovascular-related literature and submitting this to the IntAct public dataset at EBI. This data is then incorporated into the IMEx Consortium dataset. These annotations will contribute to the expansion and development of the existing PPI network and advance our knowledge about protein interactions within the cardiovascular system.
We are currently focusing on re-annotating papers which we had previously identified as including PPI experimental data, during the previous cardiovascular GO annotation Initiative. For example, the interaction between DVL1 and DVL3 described by Kishida et al, 1999, was captured as a GO annotation in 2008. This interaction is now in the IntAct and IMEx datasets and can therefore be included in software creating PPI networks. Detailed information about the annotation process can be found here.
Current PPI annotation projects:
- Cardiac conduction (Ruth)
- Lipid traits (Nancy, Mila)
- Telomeres (Nancy)
- Wnt signalling (Anna)
- Heart development (Mila)
Annotation progress can be viewed either using this link or using the IntAct browser, with the advanced fields search option and selecting from 2 drop down menus field: dataset, cardiac. These approaches both retrieve a list of interactions, which can either be downloaded or viewed using the graph tab.
Our additional PPIs have improved the networks available for individual proteins, for example the number of PPIs associated with ABCA1 has increased by 30%, from 11 PPIs to 15.
Page last modified on 02 feb 15 14:40
The work of the Cardiovascular Gene Annotation group is supported by British Heart Foundation grant RG/13/5/30112. The work of the Neurological Gene Annotation group is supported by Parkinson's UK grant G-1307. The Functional Gene Annotation team is supported by the National Institute for Health Research University College London Hospitals Biomedical Research Centre.