Table 1 Example services using various SideCache features
From: SIDECACHE: Information access, management and dissemination framework for web services
Web Service / Type / Operation | Purpose/Example | Data Source |
|---|---|---|
GeneInfoWS data web service getInfo | Inputs a list of NCBI gene IDs and returns name, chromosome number, and chromosome start position of the corresponding genes. http://visual.cs.utsa.edu/GeneInfoWS?operation=getInfo&sourceSpecies=9606&genes=7157,20,672 | NCBI |
GeneInfoWS data web service getIds | Inputs a list of gene names and returns a list of the corresponding NCBI gene IDs. http://visual.cs.utsa.edu/GeneInfoWS?operation=getIds&sourceSpecies=9606&genes=TP53,ABCA2,BRCA1 | NCBI |
GeneInfoWS data web service getInteractants | Inputs a list of NCBI gene IDs and returns a list of NCBI gene IDs for the genes whose products interact with the products of the input genes. The results for both input and output gene IDs include gene name, chromosome and chromosome start position. http://visual.cs.utsa.edu/GeneInfoWS?operation=getInteractants&sourceSpecies=9606&genes=7157,20,672 | NCBI |
GeneInfoWS data web service getVersions | Returns a list of provenance data including a version identifier as well as creation date, size and source for each file. http://visual.cs.utsa.edu/GeneInfoWS?operation=getVersions | Â |
GeneInfoWS data web service versioned getInfo | Inputs a list of NCBI gene IDs and returns name, chromosome number, and chromosome start position of the corresponding genes. http://visual.cs.utsa.edu/GeneInfoWS?operation=getInfo&sourceSpecies=9606&genes=7157,20,672&versionIdentifier=1296771389679(getid) | NCBI |
EnrichWS data web service goEnrichment | Inputs a list of NCBI gene IDs, GO type, IEA evidence inclusion, a maximum group count and species. The service returns groups of gene IDs that are enriched for particular GO terms. The results include term, group members and group p-value. The number of groups is limited by the input group count. http://visual.cs.utsa.edu/EnrichWS?enrichType=goEnrichment&calc=Parent-Child-Union&species=9606&genes=1499|7827|2719|5002&max=10&evid=_IEA_&type=Component | Gene ontology from NCBI |
EnrichWS data web service meshEnrichment | Inputs a list of NCBI gene IDs, a maximum group count, and taxonomy ID. The service returns the enriched MeSH terms, their corresponding enriched members, and the p-value for that group. The number of groups is limited by the input group count. http://visual.cs.utsa.edu/EnrichWS?enrichType=meshEnrichment&calc=Parent-Child-Union&species=9606&genes=1499|7827|2719|5002&max=10 | Gene2MeSH from NCIBI |
EnrichWS data web service getVersions | Returns a list of provenance data including a version identifier as well as creation date, size and source for each file. http://visual.cs.utsa.edu/EnrichWS?enrichType=getVersions | Â |
OrthologWS data web service default | Inputs a list of NCBI gene IDs, the source species taxonomy ID, and the target species taxonomy ID. The service returns all orthologs and the percent identity shared between the products of the source and target genes. http://visual.cs.utsa.edu/OrthologWS?sourceSpecies=9606&targetSpecies=10090&genes=7157,20,672 | Ensembl |
OrthologWS data web service getVersions | Returns a list of provenance data including a version identifier as well as creation date, size and source for each file. http://visual.cs.utsa.edu/OrthologWS?operation=getVersions | Â |
ProxyWS proxy web service uml | Returns the results from the input UML. Manages caching for efficient retrievals, and timing of external web site calls. http://visual.cs.utsa.edu/ProxyWS/Proxy?url=http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esummary.fcgi?db=gene&id=7157,20,672&retmode=xml | Â |