Identification of differentially regulated splice variants and novel exons in glial brain tumors using exon expression arrays. Export

@article{french07, abstract = {Aberrant splice variants are involved in the initiation and/or progression of glial brain tumors. We therefore set out to identify splice variants that are differentially expressed between histologic subgroups of gliomas. Splice variants were identified using a novel platform that profiles the expression of virtually all known and predicted exons present in the human genome. Exon-level expression profiling was done on 26 glioblastomas, 22 oligodendrogliomas, and 6 control brain samples. Our results show that Human Exon arrays can identify subgroups of gliomas based on their histologic appearance and genetic aberrations. We next used our expression data to identify differentially expressed splice variants. In two independent approaches, we identified 49 and up to 459 exons that are differentially spliced between glioblastomas and oligodendrogliomas, a subset of which (47\% and 33\%) were confirmed by reverse transcription-PCR (RT-PCR). In addition, exon level expression profiling also identified >700 novel exons. Expression of approximately 67\% of these candidate novel exons was confirmed by RT-PCR. Our results indicate that exon level expression profiling can be used to molecularly classify brain tumor subgroups, can identify differentially regulated splice variants, and can identify novel exons. The splice variants identified by exon level expression profiling may help to detect the genetic changes that cause or maintain gliomas and may serve as novel treatment targets.}, address = {Department of Neurology, Erasmus MC, Rotterdam, the Netherlands. p.french@erasmusmc.nl}, author = {French, P. J. and Peeters, J. and Horsman, S. and Duijm, E. and Siccama, I. and van den Bent, M. J. and Luider, T. M. and Kros, J. M. and van der Spek, P. and Sillevis Smitt, P. A.}, citeulike-article-id = {2515112}, citeulike-linkout-0 = {http://dx.doi.org/10.1158/0008-5472.CAN-06-2869}, citeulike-linkout-1 = {http://view.ncbi.nlm.nih.gov/pubmed/17575129}, citeulike-linkout-2 = {http://www.hubmed.org/display.cgi?uids=17575129}, day = {15}, doi = {10.1158/0008-5472.CAN-06-2869}, issn = {0008-5472}, journal = {Cancer Res}, keywords = {affy, exonarray, splice, transcriptomic}, month = {June}, number = {12}, pages = {5635--5642}, posted-at = {2008-03-11 14:22:27}, priority = {2}, title = {Identification of differentially regulated splice variants and novel exons in glial brain tumors using exon expression arrays.}, url = {http://dx.doi.org/10.1158/0008-5472.CAN-06-2869}, volume = {67}, year = {2007} }

TY - JOUR ID - french07 L3 - citeulike-article-id:2515112 N2 - Aberrant splice variants are involved in the initiation and/or progression of glial brain tumors. We therefore set out to identify splice variants that are differentially expressed between histologic subgroups of gliomas. Splice variants were identified using a novel platform that profiles the expression of virtually all known and predicted exons present in the human genome. Exon-level expression profiling was done on 26 glioblastomas, 22 oligodendrogliomas, and 6 control brain samples. Our results show that Human Exon arrays can identify subgroups of gliomas based on their histologic appearance and genetic aberrations. We next used our expression data to identify differentially expressed splice variants. In two independent approaches, we identified 49 and up to 459 exons that are differentially spliced between glioblastomas and oligodendrogliomas, a subset of which (47% and 33%) were confirmed by reverse transcription-PCR (RT-PCR). In addition, exon level expression profiling also identified >700 novel exons. Expression of approximately 67% of these candidate novel exons was confirmed by RT-PCR. Our results indicate that exon level expression profiling can be used to molecularly classify brain tumor subgroups, can identify differentially regulated splice variants, and can identify novel exons. The splice variants identified by exon level expression profiling may help to detect the genetic changes that cause or maintain gliomas and may serve as novel treatment targets. IS - 12 JF - Cancer Res SN - 0008-5472 AD - Department of Neurology, Erasmus MC, Rotterdam, the Netherlands. p.french@erasmusmc.nl EP - 5642 TI - Identification of differentially regulated splice variants and novel exons in glial brain tumors using exon expression arrays. VL - 67 SP - 5635 KW - affy KW - exonarray KW - splice KW - transcriptomic AU - French, PJ AU - Peeters, J AU - Horsman, S AU - Duijm, E AU - Siccama, I AU - van den Bent, MJ AU - Luider, TM AU - Kros, JM AU - van der Spek, P AU - Sillevis Smitt, PA PY - 2007/06/15/ UR - http://dx.doi.org/10.1158/0008-5472.CAN-06-2869 ER -