"Identification of AML1-ETO Modulators with Chemical Genomics".

This document contains summary information regarding the files
contained on this supplemental information website.

Last updated on 6/26/08

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Files:

README.AE - This document which summarizes the contents of the files
on this webpage.

Corsello_SupplementaryTablesFigures.pdf - A pdf file containing
supplementary tables and figures.

Corsello_SupplementaryMethods.pdf - A pdf file containing
supplementary methods used for generating and analyzing data.

Kasumi_AML1-ETO_complete_200410.res - A res file containing Kasumi-1
AML cells that were transfected in triplicate with AML1-ETO or
luciferase siRNA constructs by either Amaxa nucleofection or Biorad
siLentFect and incubated for 96 hours. Gene expression was evaluated
with Affymetrix U133A DNA microarrays.  GeneChip MAS5 Software
(Affymetrix) was used for preprocessing the raw data, and all scans
within the experiment were scaled to the array with the median overall
microarray intensity.  This file contains expression values in
Affymetrix's scaled average difference units.  Associated with each
expression value is a P, M, or A label that indicates whether RNA for
the gene is present, marginal, or absent, respectively (as determined
by the GeneChip software) based upon the matched and mismatched probes
for the genes.  The file is organized such that columns contain data
for samples and rows contain data for genes.  The samples in the data
set have been scaled so that the mean expression of all genes for each
sample is equal to the mean expression of all genes for the median
sample.

U937_AMLeto_inducible_ams.res - A res file containing U937 AML cells
that express an inducible AML-ETO construct under the control of the
tetracycline promoter. Gene expression was evaluated with Affymetrix
U95A DNA microarrays.  GeneChip MAS5 Software (Affymetrix) was used
for preprocessing the raw data, and all scans within the experiment
were scaled to the array with the median overall microarray intensity.
This file contains expression values in Affymetrix's scaled average
difference units.  Associated with each expression value is a P, M,
or A label that indicates whether RNA for the gene is present,
marginal, or absent, respectively (as determined by the GeneChip
software) based upon the matched and mismatched probes for the genes.
The file is organized such that columns contain data for samples and
rows contain data for genes.  The samples in the data set have been
scaled so that the mean expression of all genes for each sample is
equal to the mean expression of all genes for the median sample.

Kasumi_AML1-ETO_CelFiles_080505.zip - A zip file (approximately 40M in
size) containing 14 CEL files with raw data from the Affymetrix
GeneChip software for the Kasumi-1 AML cells that were transfected in
triplicate with AML1-ETO or luciferase siRNA constructs by either
Amaxa nucleofection or Biorad siLentFect and incubated for 96 hours.
These files contain the measurements for each of the probes on the
Affymetrix U133A microarrays and is used to calculate the average
difference values.  These CEL files were used to create the res file
titled Kasumi_AML1-ETO_complete_200410.res using the mapping from Scan
Names to Sample Names shown in the Supplementary Information file.

U937_AML1-ETO_Induce_CelFiles_080505.zip - A zip file (approximately
54M in size) containing 16 CEL files with raw data from the Affymetrix
GeneChip software for the U937 AML cells that express an inducible
AML-ETO construct under the control of the tetracycline promoter.
These files contain the measurements for each of the probes on the
Affymetrix U95A microarrays and is used to calculate the average
difference values.  These CEL files were used to create the res file
titled U937_AMLeto_inducible_ams.res using the mapping from Scan Names
to Sample Names shown in the Supplementary Information file.