title: Gene expression profile of ewing sarcoma cell lines differing in their EWS-FLI1 fusion type.
abstract: The t(11;22)(q24;q12) translocation is present in up to 95% of Ewing tumor patients and results in the formation of an EWS-FLI-1 fusion gene that encodes a chimeric transcription factor. Many alternative forms of EWS-FLI-1 exist because of variations in the location of the EWS and FLI-1 genomic breakpoints. Previous reports have shown that the type 1 fusion is associated with a significantly better prognosis than the other fusion types. It has been suggested that the observed clinical discrepancies result from different transactivation potentials of the various EWS-FLI-1 fusion proteins. In an attempt to identify genes whose expression levels are differentially modulated by structurally different EWS-FLI-1 transcription factors, we have used microarray technology to interrogate 19,000 sequence genes to compare gene expression profile of type 1 or non-type 1 Ewing sarcoma cell lines. Data analysis showed few qualitative differences on gene expression; expression of only 41 genes (0.215% of possible sequences analyzed) differed significantly between Ewing tumor cell lines carrying EWS-FLI-1 fusion type 1 with respect to those with non-type 1 fusion.
authors.affiliation: Laboratory of Pharmacogenomics, University of Navarra, Pamplona, Spain. ebandres@unav.es
authors.forename: Eva
authors.initials: E
authors.lastname: Bandrés
authors.forename: Raquel
authors.initials: R
authors.lastname: Malumbres
authors.forename: Alvaro
authors.initials: A
authors.lastname: Escalada
authors.forename: Elena
authors.initials: E
authors.lastname: Cubedo
authors.forename: Iranzu
authors.initials: I
authors.lastname: González
authors.forename: Beatriz
authors.initials: B
authors.lastname: Honorato
authors.forename: Ruth
authors.initials: R
authors.lastname: Zarate
authors.forename: Jesus
authors.initials: J
authors.lastname: García-Foncillas
authors.forename: Enrique
authors.initials: E
authors.lastname: de Alava
mesh_terms: D014408:Biomarkers, Tumor / Q000235:genetics*; D001859:Bone Neoplasms / Q000235:genetics*; D020869:Gene Expression Profiling; D015972:Gene Expression Regulation, Neoplastic; D006801:Humans; D009363:Neoplasm Proteins / Q000235:genetics*; D020411:Oligonucleotide Array Sequence Analysis; D015514:Oncogene Proteins, Fusion / Q000235:genetics*; D051789:Proto-Oncogene Protein c-fli-1 / Q000235:genetics*; D012333:RNA, Messenger / Q000378:metabolism; D034802:RNA-Binding Protein EWS; D020133:Reverse Transcriptase Polymerase Chain Reaction; D012512:Sarcoma, Ewing / Q000235:genetics*; D014407:Tumor Cells, Cultured
chemical_list: D014408:Biomarkers, Tumor; C106031:EWS-FLI fusion protein; D009363:Neoplasm Proteins; D015514:Oncogene Proteins, Fusion; D051789:Proto-Oncogene Protein c-fli-1; D012333:RNA, Messenger; D034802:RNA-Binding Protein EWS