probesetlookup - Look up information for Affymetrix® probe set

Syntax

PSStruct = probesetlookup(AffyStruct, ID)

Arguments

AffyStructStructure created by the affyread function from an Affymetrix CHP file or an Affymetrix CDF library file for expression assays.
IDProbe set ID/name or gene ID.

Return Values

PSStructStructure containing the following fields for a probe set:
  • Identifier — Gene ID associated with the probe set

  • ProbeSetName — Probe set ID/name

  • CDFIndex — Index into the CDF structure for the probe set

  • GINIndex — Index into the GIN structure for the probe set

  • Description — Description of the probe set

  • Source — Source(s) of the probe set

  • SourceURL — Source URL(s) for the probe set

Description

PSStruct = probesetlookup(AffyStruct, ID) returns a structure containing information for an Affymetrix probe set specified by ID, a probe set ID/name or gene ID, and by AffyStruct, a structure created from an Affymetrix CHP file or Affymetrix CDF library file for expression assays.

Examples

The following example uses the CDF library file from the E. coli Antisense Genome array, which you can download from:

http://www.affymetrix.com/support/technical/sample_data/demo_data.affx

The following example assumes that the Ecoli_ASv2.CDF library file is stored at D:\Affymetrix\LibFiles\Ecoli.

  1. Read the contents of a CDF library file into a MATLAB® structure.

    cdfStruct = affyread('D:\Affymetrix\LibFiles\Ecoli\Ecoli_ASv2.CDF');
  2. Look up the gene ID (Identifier) associated with the argG_b3172_at probe set.

    probesetlookup(cdfStruct,'argG_b3172_at')
    
    ans = 
    
          Identifier: '3315278'
        ProbeSetName: 'argG_b3172_at'
            CDFIndex: 5213
            GINIndex: 3074
         Description: [1x82 char]
              Source: 'NCBI EColi Genome'
           SourceURL: [1x74 char]

See Also

Bioinformatics Toolbox™ functions: affyread, celintensityread, probelibraryinfo, probesetlink, probesetplot, probesetvalues, rmabackadj

  


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