Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models
<p>Abstract</p> <p>Background</p> <p>Mouse xenograft models, in which human cancer cells are implanted in immune-suppressed mice, have been popular for studying the mechanisms of novel therapeutic targets, tumor progression and metastasis. We hypothesized that we could...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
BMC
2010-10-01
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| Series: | BMC Bioinformatics |
| Online Access: | http://www.biomedcentral.com/1471-2105/11/S9/S11 |
| _version_ | 1819088413782966272 |
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| author | Chen James L Huang Yong Lee Younghee Yang Xinan Xing Rosie H Lussier Yves A |
| author_facet | Chen James L Huang Yong Lee Younghee Yang Xinan Xing Rosie H Lussier Yves A |
| author_sort | Chen James L |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>Mouse xenograft models, in which human cancer cells are implanted in immune-suppressed mice, have been popular for studying the mechanisms of novel therapeutic targets, tumor progression and metastasis. We hypothesized that we could exploit the interspecies genetic differences in these experiments. Our purpose is to elucidate stromal microenvironment signals from probes on human arrays unintentionally cross-hybridizing with mouse homologous genes in xenograft tumor models.</p> <p>Results</p> <p>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.</p> <p>Conclusions</p> <p>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 <url>http://www.lussierlab.org/publications/Stroma</url></p> |
| first_indexed | 2024-12-21T21:51:39Z |
| format | Article |
| id | doaj.art-f375e052cfa0433fa3b792ce13e61e6e |
| institution | Directory Open Access Journal |
| issn | 1471-2105 |
| language | English |
| last_indexed | 2024-12-21T21:51:39Z |
| publishDate | 2010-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Bioinformatics |
| spelling | doaj.art-f375e052cfa0433fa3b792ce13e61e6e2022-12-21T18:49:04ZengBMCBMC Bioinformatics1471-21052010-10-0111Suppl 9S1110.1186/1471-2105-11-S9-S11Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor modelsChen James LHuang YongLee YoungheeYang XinanXing Rosie HLussier Yves A<p>Abstract</p> <p>Background</p> <p>Mouse xenograft models, in which human cancer cells are implanted in immune-suppressed mice, have been popular for studying the mechanisms of novel therapeutic targets, tumor progression and metastasis. We hypothesized that we could exploit the interspecies genetic differences in these experiments. Our purpose is to elucidate stromal microenvironment signals from probes on human arrays unintentionally cross-hybridizing with mouse homologous genes in xenograft tumor models.</p> <p>Results</p> <p>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.</p> <p>Conclusions</p> <p>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 <url>http://www.lussierlab.org/publications/Stroma</url></p>http://www.biomedcentral.com/1471-2105/11/S9/S11 |
| spellingShingle | Chen James L Huang Yong Lee Younghee Yang Xinan Xing Rosie H Lussier Yves A Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models BMC Bioinformatics |
| title | Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models |
| title_full | Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models |
| title_fullStr | Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models |
| title_full_unstemmed | Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models |
| title_short | Stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models |
| title_sort | stromal microenvironment processes unveiled by biological component analysis of gene expression in xenograft tumor models |
| url | http://www.biomedcentral.com/1471-2105/11/S9/S11 |
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