High-Resolution Genomic and Expression Profiling Reveals 105 Putative Amplification Target Genes in Pancreatic Cancer
Comparative genomic hybridization (CGH) studies have provided a wealth of information on common copy number aberrations in pancreatic cancer, but the genes affected by these aberrations are largely unknown. To identify putative amplification target genes in pancreatic cancer, we performed a paralle...
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2004-09-01
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doaj-d661aac2d0a7444abd0b157024de56412020-11-24T22:26:37ZengElsevierNeoplasia: An International Journal for Oncology Research1476-55861522-80022004-09-016543243910.1593/neo.04130High-Resolution Genomic and Expression Profiling Reveals 105 Putative Amplification Target Genes in Pancreatic CancerEija H. Mahlamaki0Päivikki Kauraniemi1Outi Monni2Maija Wolf3Sampsa Hautaniemi4Anne Kallioniemi5Laboratory of Cancer Genetics, University of Tampere and Tampere University Hospital, Tampere, FinlandLaboratory of Cancer Genetics, University of Tampere and Tampere University Hospital, Tampere, FinlandBiomedicum Biochip Center, Biomedicum Helsinki, University of Helsinki, Helsinki, FinlandMedical Biotechnology Group, VTT Technical Research Center of Finland and University of Turku, Turku, FinlandInstitute of Signal Processing, Tampere University of Technology, Tampere, FinlandLaboratory of Cancer Genetics, University of Tampere and Tampere University Hospital, Tampere, Finland Comparative genomic hybridization (CGH) studies have provided a wealth of information on common copy number aberrations in pancreatic cancer, but the genes affected by these aberrations are largely unknown. To identify putative amplification target genes in pancreatic cancer, we performed a parallel copy number and expression survey in 13 pancreatic cancer cell lines using a 12,232-clone cDNA microarray, providing an average resolution of 300 kb throughout the human genome. CGH on cDNA microarray allowed highly accurate mapping of copy number increases and resulted in identification of 24 independent amplicons, ranging in size from 130 kb to 11 Mb. Statistical evaluation of gene copy number and expression data across all 13 cell lines revealed a set of 105 genes whose elevated expression levels were directly attributable to increased copy number. These included genes previously reported to be amplified in cancer as well as several novel targets for copy number alterations, such as p21-activated kinase 4 (PAK4), which was previously shown to be involved in cell migration, cell adhesion, and anchorage-independent growth. In conclusion, our results implicate a set of 105 genes that is likely to be actively involved in the development and progression of pancreatic cancer. http://www.sciencedirect.com/science/article/pii/S1476558604800204Pancreatic canceramplificationCGH microarraycDNA microarrayoverexpression |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Eija H. Mahlamaki Päivikki Kauraniemi Outi Monni Maija Wolf Sampsa Hautaniemi Anne Kallioniemi |
spellingShingle |
Eija H. Mahlamaki Päivikki Kauraniemi Outi Monni Maija Wolf Sampsa Hautaniemi Anne Kallioniemi High-Resolution Genomic and Expression Profiling Reveals 105 Putative Amplification Target Genes in Pancreatic Cancer Neoplasia: An International Journal for Oncology Research Pancreatic cancer amplification CGH microarray cDNA microarray overexpression |
author_facet |
Eija H. Mahlamaki Päivikki Kauraniemi Outi Monni Maija Wolf Sampsa Hautaniemi Anne Kallioniemi |
author_sort |
Eija H. Mahlamaki |
title |
High-Resolution Genomic and Expression Profiling Reveals 105 Putative Amplification Target Genes in Pancreatic Cancer |
title_short |
High-Resolution Genomic and Expression Profiling Reveals 105 Putative Amplification Target Genes in Pancreatic Cancer |
title_full |
High-Resolution Genomic and Expression Profiling Reveals 105 Putative Amplification Target Genes in Pancreatic Cancer |
title_fullStr |
High-Resolution Genomic and Expression Profiling Reveals 105 Putative Amplification Target Genes in Pancreatic Cancer |
title_full_unstemmed |
High-Resolution Genomic and Expression Profiling Reveals 105 Putative Amplification Target Genes in Pancreatic Cancer |
title_sort |
high-resolution genomic and expression profiling reveals 105 putative amplification target genes in pancreatic cancer |
publisher |
Elsevier |
series |
Neoplasia: An International Journal for Oncology Research |
issn |
1476-5586 1522-8002 |
publishDate |
2004-09-01 |
description |
Comparative genomic hybridization (CGH) studies have provided a wealth of information on common copy number aberrations in pancreatic cancer, but the genes affected by these aberrations are largely unknown. To identify putative amplification target genes in pancreatic cancer, we performed a parallel copy number and expression survey in 13 pancreatic cancer cell lines using a 12,232-clone cDNA microarray, providing an average resolution of 300 kb throughout the human genome. CGH on cDNA microarray allowed highly accurate mapping of copy number increases and resulted in identification of 24 independent amplicons, ranging in size from 130 kb to 11 Mb. Statistical evaluation of gene copy number and expression data across all 13 cell lines revealed a set of 105 genes whose elevated expression levels were directly attributable to increased copy number. These included genes previously reported to be amplified in cancer as well as several novel targets for copy number alterations, such as p21-activated kinase 4 (PAK4), which was previously shown to be involved in cell migration, cell adhesion, and anchorage-independent growth. In conclusion, our results implicate a set of 105 genes that is likely to be actively involved in the development and progression of pancreatic cancer.
|
topic |
Pancreatic cancer amplification CGH microarray cDNA microarray overexpression |
url |
http://www.sciencedirect.com/science/article/pii/S1476558604800204 |
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