Experiment Detail Page

GENERAL EXPERIMENT INFORMATION

Title:	In silico dissection of cell-type-associated patterns of gene expression in prostate cancer
Identifier:	gov.nih.nci.ncicb.caarray:Experiment:1015897549070000:1
Experiment Date:	1/1/03
Experiment Design Type	disease_state_design, cell_type_comparison_design,
Visibility	Public
Description/Goal of the experiment:	Prostate tumors are complex entities composed of malignant cells mixed and interacting with nonmalignant cells. However, molecular analyses by standard gene expression profiling are limited because spatial information and nontumor cell types are lost in sample preparation. We scored 88 prostate specimens for relative content of tumor, benign hyperplastic epithelium, stroma, and dilated cystic glands. The proportions of these cell types were then linked in silico to gene expression levels determined by microarray analysis, revealing unique cell-specific profiles. Gene expression differences for malignant and nonmalignant epithelial cells (tumor versus benign hyperplastic epithelium) could be identified without being confounded by contributions from stroma that dominate many samples or sacrificing possible paracrine influences. Cell-specific expression of selected genes was validated by immunohistochemistry and quantitative PCR. The results provide patterns of gene expression for these three lineages with relevance to pathogenetic, diagnostic, and therapeutic considerations.

CONTACTS

Principal Investigator:	Robert O Stuart
Contact Person:	Daniel Mercola

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ADDITIONAL DATA PROCESSING (DERIVED MEASUREMENTS)

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sample.txt

sample information.

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EXPERIMENTAL FACTORS/VARIABLES

Factor

Factor Type

Scale

Factor Value

normal

disease_state

unscaled

15

non

organ-confined tumor

disease_state

unscaled

15

non

Disease State

disease_state

unscaled

Normal

organ-confined tumor

PUBLICATIONS

PubMed ID

Title

Authors

Publication

14722351

In silico dissection of cell-type-associated patterns of gene expression in prostate cancer

Stuart RO, Wachsman W, Berry CC, Wang-Rodriguez J, Wasserman L, Klacansky I, Masys D, Arden K, Goodison S, McClelland M, Wang Y, Sawyers A, Kalcheva I, Tarin D, Mercola D.

Proc Natl Acad Sci U S A

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Experiment: In silico dissection of cell-type-associated patterns of gene expression in prostate cancer