Transcriptome sequencing of malignant pleural mesothelioma tumors Export

@article{sugarbaker_transcriptome_2008, abstract = {Cancers arise by the gradual accumulation of mutations in multiple genes. We now use shotgun pyrosequencing to characterize RNA mutations and expression levels unique to malignant pleural mesotheliomas (MPMs) and not present in control tissues. On average, 266 Mb of cDNA were sequenced from each of four MPMs, from a control pulmonary adenocarcinoma (ADCA), and from normal lung tissue. Previously observed differences in MPM RNA expression levels were confirmed. Point mutations were identified by using criteria that require the presence of the mutation in at least four reads and in both cDNA strands and the absence of the mutation from sequence databases, normal adjacent tissues, and other controls. In the four MPMs, 15 nonsynonymous mutations were discovered: 7 were point mutations, 3 were deletions, 4 were exclusively expressed as a consequence of imputed epigenetic silencing, and 1 was putatively expressed as a consequence of RNA editing. Notably, each MPM had a different mutation profile, and no mutated gene was previously implicated in MPM. Of the seven point mutations, three were observed in at least one tumor from 49 other MPM patients. The mutations were in genes that could be causally related to cancer and included XRCC6, PDZK1IP1, ACTR1A, and AVEN.}, author = {Sugarbaker, David J. and Richards, William G. and Gordon, Gavin J. and Dong, Lingsheng and De Rienzo, Assunta and Maulik, Gautam and Glickman, Jonathan N. and Chirieac, Lucian R. and Hartman, Mor L. and Taillon, Bruce E. and Du, Lei and Bouffard, Pascal and Kingsmore, Stephen F. and Miller, Neil A. and Farmer, Andrew D. and Jensen, Roderick V. and Gullans, Steven R. and Bueno, Raphael}, citeulike-article-id = {2705517}, citeulike-linkout-0 = {http://www.pnas.org/cgi/content/abstract/105/9/3521}, citeulike-linkout-1 = {http://dx.doi.org/10.1073/pnas.0712399105}, doi = {10.1073/pnas.0712399105}, journal = {Proceedings of the National Academy of Sciences}, keywords = {cancer, genomics}, month = {March}, pages = {3521--3526}, posted-at = {2008-04-23 05:48:27}, priority = {0}, title = {Transcriptome sequencing of malignant pleural mesothelioma tumors}, url = {http://dx.doi.org/10.1073/pnas.0712399105}, volume = {105}, year = {2008} }

TY - JOUR ID - sugarbaker_transcriptome_2008 L3 - citeulike-article-id:2705517 N2 - Cancers arise by the gradual accumulation of mutations in multiple genes. We now use shotgun pyrosequencing to characterize RNA mutations and expression levels unique to malignant pleural mesotheliomas (MPMs) and not present in control tissues. On average, 266 Mb of cDNA were sequenced from each of four MPMs, from a control pulmonary adenocarcinoma (ADCA), and from normal lung tissue. Previously observed differences in MPM RNA expression levels were confirmed. Point mutations were identified by using criteria that require the presence of the mutation in at least four reads and in both cDNA strands and the absence of the mutation from sequence databases, normal adjacent tissues, and other controls. In the four MPMs, 15 nonsynonymous mutations were discovered: 7 were point mutations, 3 were deletions, 4 were exclusively expressed as a consequence of imputed epigenetic silencing, and 1 was putatively expressed as a consequence of RNA editing. Notably, each MPM had a different mutation profile, and no mutated gene was previously implicated in MPM. Of the seven point mutations, three were observed in at least one tumor from 49 other MPM patients. The mutations were in genes that could be causally related to cancer and included XRCC6, PDZK1IP1, ACTR1A, and AVEN. JF - Proceedings of the National Academy of Sciences EP - 3526 TI - Transcriptome sequencing of malignant pleural mesothelioma tumors VL - 105 SP - 3521 KW - cancer KW - genomics AU - Sugarbaker, David AU - Richards, William AU - Gordon, Gavin AU - Dong, Lingsheng AU - De Rienzo, Assunta AU - Maulik, Gautam AU - Glickman, Jonathan AU - Chirieac, Lucian AU - Hartman, Mor AU - Taillon, Bruce AU - Du, Lei AU - Bouffard, Pascal AU - Kingsmore, Stephen AU - Miller, Neil AU - Farmer, Andrew AU - Jensen, Roderick AU - Gullans, Steven AU - Bueno, Raphael PY - 2008/March// UR - http://dx.doi.org/10.1073/pnas.0712399105 ER -