This tool gives the correlation matrix for two given
Affymetrix probeset/gene lists across thousands of samples within a given platform in
Please paste a list of Affymetrix gene identifiers in List No. 1. The other list
can be a list of gene identifiers OR will be retrieved based on chromosome
Other tools: (1) HDN: The Human
Disease Network gene query tool [LINK]
To cite the
UGET tool, please use the following reference:
Day A, Carlson MR, Dong J, O'Connor BD, Nelson SF. (2007) Celsius: a
community resource for Affymetrix microarray data. Genome Biol.
2007;8(6):R112 PMID: 17570842
Day A, Dong J, Funari VA, Harry B, Strom SP, et al. (2009)
Disease Gene Characterization through Large-Scale Co-Expression Analysis.
PLoS ONE 4(12): e8491. doi:10.1371/journal.pone.0008491
List no. 1 can not be empty!
If List No. 2 is empty AND Option 1 is selected, then
List No. 1 will be
copied to generate a symmetric correlation matrix.
One row for each identifier (probeset ID or gene symbol). Duplicate rows
will be automatically removed.
Remove any blank space before and after each
identifier. This may
cause an identifier unrecognizable, which will be removed from the output.
All unrecognized identifiers will be listed. Please double check
possible typos or trailing spaces.
Any type of input identifier will be converted to matching g probeset ID
in the output table.
The output table will always put List No. 2 as rows, and List No. 1 as
To retrieve correlation coefficients with all available probesets, set
one field as "ALL". (The value in field #2 is set to "ALL" in
default. Field #1 can NOT be empty.)
Due to the data retrieving time & load reasons, the length of the
shorter list must not exceed 500. Therefore ("ALL", "") and
("ALL","ALL") etc are not allowed.
For Option 2, the length of List No. 1 must not exceed
The output 2-way table is an optional downloadable tab-delimited file with .xls
The top 300 mean correlation coefficients across
items in List No. 1 for each item in List No. 2 will be listed in descending
Examples of common tasks:
To obtain correlations of a list with all available
probesets: Field #1 = Your list; Field #2 = "ALL" (default value)
To obtain correlations of a list with itself
(symmetric correlation matrix): Field #1 = Your list; Field #2 = ""
("ALL", "") and ("ALL","ALL") etc are not allowed.