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It is possible to define a query based either on a single field or a combination of the following fields, i.e., PDB code, protein name, SCOP superfamily name, number of disulphide bonds, disulphide bond connectivity pattern and the number of amino acid residues in a protein chain and retrieve information that match the criterion.
We define a query gap as a set of adjacent contig positions mapped to an insertion.
Query M4 shows how to define a query that counts the number of species for each model in the graph database.
In simplest terms, the sequence of keywords that define a query might be contained in an result record, neighboring records, or both result and neighboring records.
The difference is that with archetype constraint definition, it is possible to define a query to retrieve terms from a terminology service.
For the ELM LIG_PCNA, for example, PDB (Berman et al., 2000) structure 1U76, which features a 15 amino acid peptide of POLD3 interacting with PCNA (Bruning and Shamoo, 2004), could be used to define a query for the PCNA interactome.
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Using this editor, the operator defines a query sample step-by-step.
This is a generalization of the caching-based strategy and can be realized by defining a query as a view and caching its results (i.e., view materialization).
The C-Map user defines a query signature associated with a particular condition of interest, which is then assessed for connection with each of the profiled compounds in the reference collection using a rank-based pattern matching algorithm.
Defining a query takes between seconds for simple "search all compounds used as medication" type questions to tens of minutes for complex questions which traverse the full connectivity of the semantic network.
In the rediscovery process the requester will define a new query and go through all steps of service discovery.
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