Characterization of heterotypic interaction effects in vitro to deconvolute global gene expression profiles in cancer

doi:10.1186/gb-2007-8-9-r191

Genome Biology

Volume 8
Issue 9

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Buess M
Nuyten DS
Hastie T
Nielsen T
Pesich R
Brown PO

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Hastie T
Nielsen T
Pesich R
Brown PO
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Characterization of heterotypic interaction effects in vitro to deconvolute global gene expression profiles in cancer

Martin Buess¹ , Dimitry SA Nuyten⁴ , Trevor Hastie² , Torsten Nielsen⁵ , Robert Pesich¹ and Patrick O Brown¹^,3

¹Department of Biochemistry, Stanford University School of Medicine, Stanford, CA 94305, USA

²Department of Statistics, Stanford University School of Medicine, Stanford, CA 94305, USA

³Howard Hughes Medical Institute, Stanford University School of Medicine, Stanford, CA 94305, USA

⁴Departments of Radiation Oncology and Diagnostic Oncology, Netherlands Cancer Institute, 1066 CX Amsterdam, The Netherlands

⁵Department of Pathology and Laboratory Medicine, University of British Columbia, Vancouver, BC, Canada, V5Z 1M9

author email corresponding author email

Genome Biology 2007, 8:R191doi:10.1186/gb-2007-8-9-r191


Published:	14 September 2007

Subject areas: Cancer, Cell biology, Genome studies

Additional files

Additional data file 1:

Interferon response genes.

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Additional data file 2:

Expression of OAS2 measured by RT-PCR in the co-culture CCL171/MDA-MB-231 and the expression of STAT1 measured by immunofluoresecent staining and FACS analysis.

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Additional data file 3:

Analysis of the interferon response signature in advanced human breast cancers.

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Additional data file 4:

Box and scatter plots illustrating the correlation of the interferon score to clinical parameters with known prognostic significance.

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Additional data file 5:

Linear regression model used to normalize for additive effects in the mixed co-culture gene expression data.

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