7. 1) There are currently 27 PSICQUIC services.
2) Total: 151,781,245 Interactions
3) There are 9 services tagged „imex curation‟
4) Let‟s take an example, a service has a mixture of manually curated data
and imported from third party. If a user asks the registry for all services
that do not have third party data, we will lose the manually curated data as
the whole service is now excluded.
5) 1053 interactions
http://www.ebi.ac.uk/Tools/webservices/psicquic/chembl/webservices/curr
ent/search/interactor/P00519?format=count
6) 3,548 interactions across 16 services
7) – 532 interactions not taking into account GeneMANIA
- 221 interactions after clustering
8) 8 source databases (GRID, HPRD, DIP, hprd, InnateDB, reactome,
CORUM and bind)
9) 1,024 interactions across 14 services
10) Yes, the number of interactions is different. And there are two important
reasons we should take into account:
a. Gene name are ambiguous and can represent more than one
UniProt identifier. For instance “TGFBR2” is the gene name of
more than 60 UniProt proteins.
http://www.uniprot.org/uniprot/?query=TGFBR2
b. Most of the Molecular interaction databases rely on unique
identifiers to define their interactors (proteins, small molecules,
genes, etc.). You have to be careful because not always databases
include gene names as alternative identifiers. This means not
always a gene name will be picked up by a query in PSIQUIC.
8. 11)3 hubs can be seen in the graph representation of this dataset
The 2 molecules at the center of these hubs are:
Node Properties
Molecule type: protein
Interactor: Tgfbr2
Species: Mus musculus
Identifier: Q62312
Node Properties
Molecule type: protein
Interactor: TGFBR2
Species: Homo sapiens
Identifier: P37173
