Open Access Research article

Transcriptomes of human prostate cells

Asa J Oudes13*, Dave S Campbell3, Carrie M Sorensen1, Laura S Walashek1, Lawrence D True2 and Alvin Y Liu13*

Author Affiliations

1 Urology, University of Washington, 1959 NE Pacific St., Seattle, WA 98195-6510, USA

2 Pathology, University of Washington, 1959 NE Pacific St., Seattle, WA 98195-6100, USA

3 Institute for Systems Biology, 1441 N 34th St., Seattle, WA 98103, USA

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BMC Genomics 2006, 7:92  doi:10.1186/1471-2164-7-92

Published: 25 April 2006

Additional files

Additional file 1:

Softmatrix raw data file of prostate cell transcriptomes RMA normalized raw Affymetrix signal for MACS sorted prostate cells in the Softmatrix format. Column ID_REF indicates Affymetrix probeset, CD26_repX indicates luminal cell sorts, CD104_repX indicates basal cell sorts, CD49a_repX indicates stromal cell sorts, and CD31_repX indicates endothelial cell sorts, where X is the biological replicate (1-5).

Format: ZIP Size: 4.8MB Download file

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Additional file 2:

Genes detected in sorted cells but not whole tissue Column titles indicate the following: probeset-Affymetrix probeset ID, gene_symbol-HUGO gene name, public_ID-genebank ID of sequence used to make the probeset. Column titles CD104, CD49a, CD31, CD26, and Prostate indicate sample name. Expression levels are indicated by fluorescent signal intensity.

Format: XLS Size: 566KB Download file

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Additional file 3:

Subtraction of blood-cell genes from prostate transcriptomes Number of genes (y-axis) detected in whole prostate tissue but not sorted (x-axis point “Prostate”). The remaining x-axis points indicate the blood-cell type which was subtracted in silico from the whole prostate data and the resulting number of genes is plotted on the y-axis. Subtraction of whole blood expressed genes from whole prostate data accounted for 88% of genes detected in whole prostate but not sorted cells.

Format: TIFF Size: 79KB Download file

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Additional file 4:

Genes detected in whole prostate but not sorted cells Column titles indicate the following: probeset-Affymetrix probeset ID, gene_symbol-HUGO gene name, public_ID-genebank ID of sequence used to make the probeset. Column titles CD104, CD49a, CD31, CD26, Prostate, CD4, CD8, CD14, CD34, and wholeblood indicate sample name. Expression levels are indicated by fluorescent signal intensity.

Format: XLS Size: 49KB Download file

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Additional file 5:

Genes detected only in prostate luminal cells Column titles indicate the following: probeset-Affymetrix probeset ID, X_raw-Affymetrix signal intensity, X_stdev-standard deviation of replicate samples where X=sorted cell sample name. ANOVA P<0.05. Expression levels are indicated by fluorescent signal intensity.

Format: XLS Size: 57KB Download file

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Additional file 6:

Genes detected only in prostate basal cells Column titles are the same as additional file 5. ANOVA P<0.05

Format: XLS Size: 53KB Download file

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Additional file 7:

Genes detected only in prostate stromal cells Column titles are the same as additional file 5. ANOVA P < 0.05.

Format: XLS Size: 181KB Download file

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