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| A short tutorial |
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Please see the download page for instructions. We no longer support the "automatic download" function for NetAffx csv files.
Constructing Gene Information File
A Gene Information File is a tabular text file, annotating all the probe sets of a given Affymetrix array type. Each line of it contains the annotation information of a probe set, including Genbank ID, LocusLink ID, gene name, GO terms, protein domain terms, signaling pathways, cytoband and Affymetrix descriptions. The table below shows how a Gene Information File looks like.
|
Probe Set |
Genbank |
LocusLink |
Name |
Gene Ontology |
Protein Domain |
Pathway |
Chrom. |
Desc. |
|
100001_at |
M18228 |
12502 |
CD3 antigen, gamma polypeptide |
|7166|7165|… |
|3598|3110| |
|
|9| |
… |
|
100002_at |
X70393 |
16426 |
inter-alpha trypsin inhibitor, heavy chain 3 |
|4867|4866|… |
|1117|2035| |
|
|14| |
… |
|
100016_at |
Z12604 |
17385 |
Matrix metalloproteinase11 |
|6805|9410|… |
|6026|1818| |
|Matrix Metalloproteinases| |
|10| |
… |
|
100017_at |
U68267 |
53311 |
myosin binding protein H |
|7517|9887|… |
|3598|3961| |
|Cytoskeletal Pathway| |
|1| |
… |
Click on Menu "Annotation => Gene Information File", and the following dialog will show up.
Clicking on the boxes for file names, the user is allowed to choose the file names of a NetAffx file and a GO file from its computer. These files are obtained by Accessing Online Databases.
Special note: For the GO structure file to be acceptable by GoSurfer, please use Excel to re-order its rows so that the second column is in ascending alphabetical order.
This page is under construction.
This site was last updated 11/15/04
