probesetlookup - Look up information for Affymetrix probe set
Syntax
PSStruct =
probesetlookup(AffyStruct, ID)
Arguments
| AffyStruct | Structure created by the affyread function
from an Affymetrix CHP file or an Affymetrix CDF library
file for expression assays. |
| ID | String or cell array of strings specifying one or more probe
set IDs/names or gene IDs. |
Return Values
| PSStruct | Structure or array of structures 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 or an array of structures containing information for an Affymetrix probe
set specified by ID, a string or cell array of
strings specifying one or more probe set IDs/names or gene IDs, and
by AffyStruct, a structure created from
an Affymetrix CHP file or Affymetrix CDF library file for
expression assays.
Note
This function works with CHP files and CDF files for expression
assays only. It requires that the GIN library file associated with
the CHP file or CDF file to be located in the same folder as the CDF
library file. |
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.
Read the contents of a CDF library file into a MATLAB structure.
cdfStruct = affyread('D:\Affymetrix\LibFiles\Ecoli\Ecoli_ASv2.CDF');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
See how to analyze, visualize, and model biological data and systems using MathWorks products.
Get free kit
Store 
