Table of Contents
Position Specific Iterative BLAST (PSI-BLAST) 1) refers to a feature of NCBI BLAST 2.0 in which a position-specific scoring matrix (PSSM) profile is constructed from set of BLAST alignments. The PSSM is then used to search the database in subsequent iterations allowing the detection of distant evolutionary relationships. This can be combined with the Pattern Hit Initiated BLAST (PHI-BLAST) mode to constrain the PSSM using a ProSite pattern to define the region(s) to be used when building the PSSM.
For more information see:
Web service registry entries:
We kindly ask all users of EMBL-EBI Web Services to submit tool jobs in batches of up to 30 at a time and to not submit more until the results and processing has completed for these. This enables users as well as the service maintainers to deal more easily with local and remote network outages as well as scheduled or unscheduled downtime.
Sample clients are provided for a number of programming languages. For details of how to use these clients, download the client and run the program without any arguments.
For further details of these tool-kits and workflow platforms see our Guide to Web Services.
The WADL for the PSI-BLAST (REST) service: http://www.ebi.ac.uk/Tools/services/rest/psiblast?wadl
List parameter names.
An XML document containing a list of parameter names.
Get detailed information about a parameter.
An XML document providing details about the parameter.
Submit a job with the specified parameters.
Please note that a submission is required for each PSI-BLAST iteration to be performed. The initial submission is equivalent to a blastp using NCBI BLAST (NCBI BLAST (REST) or NCBI BLAST (SOAP)), but provides a list of hit identifiers for input to the next iteration. The second submission uses the hit identifier list, provided either via the
Due to the
More detailed information about each parameter, including valid values can be obtained using the getParameterDetails(parameterId) operation.
A plain text document containing the job identifier.
Get the status of a submitted job.
A plain text document containing the job status.
The values for the status are:
Further details can be found in Synchronous and Asynchronous Access: JDispatcher.
Get available result types for a finished job.
An XML document detailing the available result types.
Get the job result of the specified type.
A document containing the result in the requested format. The MIME type of the returned document is set according to the format.