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| Human
Gene Expression Index |
| Human
Gene Expression Index (HuGE Index)
contains gene expression profiles of 59 samples from 19 different
normal human tissue types, using oligonucleotide microarrays
containing 7,000 human genes. |
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| Standard Gene
Set |
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Standard Gene Set is a set of 96
oligos pertaining to genes derived from in house studies to
be universally present and differentially expressed in all
tissues. This product is designed to assist in the standardization
of microarray type studies utilized by more and more laboratories
worldwide. |
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| Housekeeping
Gene |
| The
Housekeeping Genes are
defined as those expressed in all 19 different normal human
tissue types and differentially expressed in all tissues,
derived from HuGEIndex Database. |
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| The Formulary
for Drug Activity (FDA2000) |
| The
Housekeeping Genes are defined
as those expressed in all 19 different normal human tissue
types and differentially expressed in all tissues, derived
from HuGEIndex Database. |
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| Normal and
Neoplastic Endometrium database by Mutter et al. New |
| Data
are provided for 2 normal proliferative ("P") endometria,
2 normal secretory ("S") endometria, and 10 endometriod
adenocarcinomas ("T"). Average Differences for each
sample were rescaled to sum to 3,000,000 arbitrary units over
all probe sets. To avoid misinterpretation of very low expression
levels, genes labeled as Absent or Marginal by the Affymetrix
algorithms were reset to an Average Difference of 20. Further,
genes called Present but with an Average Difference expression
level less than 20 were reset to a value of 20. This resulted
in a dataset truncated on the left tail (i.e., low expression
level) at a value of 20, in which only genes determined to
be “Present” by the Affymetrix call were included
as positive expression values. Each row is one gene, identified
by Affymetrix Probe set (from the Hu6800 chip) and gene name. |
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Malignant
Pleural Mesothelioma (MPM) and Adenocarcinoma (ADCA) |
Microarray
data (Affymetrix Microarray Suite v5.0) is supplied in Microsoft
Excel 97 format and contains expression profiling data
(Affymetrix U95A chip) for all 31 mesothelioma tumors. The
"target intensity" has been set to 100 (Affymetrix
Microarray Suite v5.0). Samples 114 and 76 were analyzed in
triplicate to assess chip variability. The raw data (.cel
files) can be found here
(zip file format-105mb). Microarray data and sample data for
lung adenocarcinoma samples has been previously published
and can be found here.
Extensive annotation of Affymetrix probe sets has been painstakingly
assembled and kindly provided by Jean Marie Rouillard (University
of Michigan) and can be found here
Additionally, expression profiling data for the 181 samples
analyzed in this study (150 adenocarcinoma and 31 mesothelioma)
and the identity of the training set chips is also supplied
in text format. This data was generated using Affymetrix Microarray
Suite v4.0 and a "target intensity" of 100. Note
that the 67 internal hybridization control probe sets have
been removed from this data leaving expression data for 12,533
human genes. |
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