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Our purpose is to elucidate stromal microenvironment signals from probes on human arrays unintentionally cross-hybridizing with mouse homologous genes in xenograft tumor models.<\/jats:p>\n <\/jats:sec>\n \n Results<\/jats:title>\n By identifying cross-species hybridizing probes from sequence alignment and cross-species hybridization experiment for the human whole-genome arrays, deregulated stromal genes can be identified and then their biological significance were predicted from enrichment studies. Comparing these results with those found by the laser capture microdissection of stromal cells from tumor specimens resulted in the discovery of significantly enriched stromal biological processes.<\/jats:p>\n <\/jats:sec>\n \n Conclusions<\/jats:title>\n Using this method, in addition to their primary endpoints, researchers can leverage xenograft experiments to better characterize the tumor microenvironment without additional costs. The Xhyb probes and R script are available at http:\/\/www.lussierlab.org\/publications\/Stroma<\/jats:ext-link>\n <\/jats:p>\n <\/jats:sec>","DOI":"10.1186\/1471-2105-11-s9-s11","type":"journal-article","created":{"date-parts":[[2010,10,28]],"date-time":"2010-10-28T18:15:05Z","timestamp":1288289705000},"update-policy":"http:\/\/dx.doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":4,"title":["Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models"],"prefix":"10.1186","volume":"11","author":[{"given":"Xinan","family":"Yang","sequence":"first","affiliation":[]},{"given":"Younghee","family":"Lee","sequence":"additional","affiliation":[]},{"given":"Yong","family":"Huang","sequence":"additional","affiliation":[]},{"given":"James L","family":"Chen","sequence":"additional","affiliation":[]},{"given":"Rosie H","family":"Xing","sequence":"additional","affiliation":[]},{"given":"Yves A","family":"Lussier","sequence":"additional","affiliation":[]}],"member":"297","published-online":{"date-parts":[[2010,10,28]]},"reference":[{"issue":"4","key":"4273_CR1","doi-asserted-by":"publisher","first-page":"239","DOI":"10.1038\/nrc2618","volume":"9","author":"JA Joyce","year":"2009","unstructured":"Joyce JA, Pollard JW: Microenvironmental regulation of metastasis. 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