title: Gene expression profiling of alveolar rhabdomyosarcoma with cDNA microarrays.
abstract: Several forms of human sarcoma, lymphoma, and leukemia are characterized by somatically acquired chromosome translocations that result in fusion genes that encode chimeric transcription factors with oncogenic properties. We have used cDNA microarrays containing 1238 cDNAs to investigate the gene expression profile of a group of seven alveolar rhabdomyosarcoma (ARMS) cell lines characterized by the presence of the PAX3-FKHR fusion gene. Using the method of multidimensional scaling to represent the relationships among the cell lines in two-dimensional Euclidean space, we determined that ARMS cells show a consistent pattern of gene expression, which allows the cells to be clustered together. By searching across the seven ARMS cell lines, we found that 37 of 1238 genes were most consistently expressed in ARMS relative to a reference cell line. Only three of these genes have been previously reported to be expressed in ARMS. Among these 37 were genes related to both primary (PAX3-FKHR) and secondary (CDK4) genetic alterations in ARMS. These results in ARMS demonstrate the potential of cDNA microarray technology to elucidate tumor-specific gene expression profiles in human cancers.
authors.affiliation: Cancer Genetics Branch, National Human Genome Research Institute, NIH, Bethesda, Maryland 20892, USA.
authors.forename: J
authors.initials: J
authors.lastname: Khan
authors.forename: R
authors.initials: R
authors.lastname: Simon
authors.forename: M
authors.initials: M
authors.lastname: Bittner
authors.forename: Y
authors.initials: Y
authors.lastname: Chen
authors.forename: S B
authors.initials: SB
authors.lastname: Leighton
authors.forename: T
authors.initials: T
authors.lastname: Pohida
authors.forename: P D
authors.initials: PD
authors.lastname: Smith
authors.forename: Y
authors.initials: Y
authors.lastname: Jiang
authors.forename: G C
authors.initials: GC
authors.lastname: Gooden
authors.forename: J M
authors.initials: JM
authors.lastname: Trent
authors.forename: P S
authors.initials: PS
authors.lastname: Meltzer
mesh_terms: D002882:Chromosomes, Human, Pair 13 / Q000235:genetics; D002889:Chromosomes, Human, Pair 2 / Q000235:genetics; D004268:DNA-Binding Proteins / Q000235:genetics; D000071161:Forkhead Box Protein O1; D051858:Forkhead Transcription Factors; D015870:Gene Expression / Q000235:genetics*; D006801:Humans; D015336:Molecular Probe Techniques; D015514:Oncogene Proteins, Fusion / Q000235:genetics*; D018232:Rhabdomyosarcoma, Alveolar / Q000235:genetics*; D014157:Transcription Factors / Q000235:genetics; D014178:Translocation, Genetic; D014407:Tumor Cells, Cultured
chemical_list: D004268:DNA-Binding Proteins; C085126:FOXO1 protein, human; D000071161:Forkhead Box Protein O1; D051858:Forkhead Transcription Factors; D015514:Oncogene Proteins, Fusion; D014157:Transcription Factors