title: Identifying cancer-related genes in nasopharyngeal carcinoma cell lines using DNA and mRNA expression profiling analyses.
abstract: The goals of this study were to evaluate the potential of detecting cryptic amplification and deletion of cancer-related genes using array-based comparative genomic hybridization (CGH), and to identify candidate cancer genes by combined parallel analyses of copy number and gene expression profiles in nasopharyngeal carcinoma (NPC) cell lines. We established global DNA copy number and mRNA expression profiles on human NPC cell lines using a high-density cDNA microarray. The DNA copy number alterations detected by array CGH were compared to the DNA copy number variations identified by metaphase CGH. A cryptic amplification at 3q26 was detected by array CGH, which was not found by metaphase CGH. By amplicon mapping and parallel analyses of DNA copy number and mRNA expression levels, we identified several candidates which could be important mediators in tumor formation or progression. Taken together, the combination of copy number and gene expression profiling using cDNA microarrays provides an improved strategy for gene discovery in human cancer.
authors.affiliation: Laboratory of Cancer Genetics, Van Andel Research Institute, Grand Rapids, MI 49503, USA.
authors.forename: Xiang
authors.initials: X
authors.lastname: Guo
authors.forename: Weng-Onn
authors.initials: WO
authors.lastname: Lui
authors.forename: Chao-Nan
authors.initials: CN
authors.lastname: Qian
authors.forename: Jin-Dong
authors.initials: JD
authors.lastname: Chen
authors.forename: Steven George
authors.initials: SG
authors.lastname: Gray
authors.forename: Daniel
authors.initials: D
authors.lastname: Rhodes
authors.forename: Brian
authors.initials: B
authors.lastname: Haab
authors.forename: Eric
authors.initials: E
authors.lastname: Stanbridge
authors.forename: Huimin
authors.initials: H
authors.lastname: Wang
authors.forename: Ming-Huang
authors.initials: MH
authors.lastname: Hong
authors.forename: Hua-Qing
authors.initials: HQ
authors.lastname: Min
authors.forename: Catharina
authors.initials: C
authors.lastname: Larsson
authors.forename: Bin Tean
authors.initials: BT
authors.lastname: Teh
mesh_terms: D014408:Biomarkers, Tumor / Q000235:genetics* / Q000378:metabolism; D002893:Chromosomes, Human, Pair 3 / Q000235:genetics; D017931:DNA Primers / Q000737:chemistry; D004273:DNA, Neoplasm / Q000235:genetics*; D005784:Gene Amplification; D017353:Gene Deletion; D018628:Gene Dosage; D020869:Gene Expression Profiling; D006801:Humans; D017404:In Situ Hybridization, Fluorescence; D008677:Metaphase; D009303:Nasopharyngeal Neoplasms / Q000235:genetics* / Q000378:metabolism / Q000473:pathology; D009363:Neoplasm Proteins / Q000235:genetics*; D009693:Nucleic Acid Hybridization; D020411:Oligonucleotide Array Sequence Analysis; D012333:RNA, Messenger / Q000235:genetics*; D020133:Reverse Transcriptase Polymerase Chain Reaction; D014407:Tumor Cells, Cultured
chemical_list: D014408:Biomarkers, Tumor; D017931:DNA Primers; D004273:DNA, Neoplasm; D009363:Neoplasm Proteins; D012333:RNA, Messenger