The transcriptional landscape of the yeast genome defined by RNA sequencing. Export

@article{citeulike:2743597, abstract = {The identification of untranslated regions, introns, and coding regions within an organism remains challenging. We developed a quantitative sequencing-based method called RNA-Seq for mapping transcribed regions, in which complementary DNA fragments are subjected to high-throughput sequencing and mapped to the genome. We applied RNA-Seq to generate a high-resolution transcriptome map of the yeast genome and demonstrated that most (74.5\%) of the nonrepetitive sequence of the yeast genome is transcribed. We confirmed many known and predicted introns and demonstrated that others are not actively used. Alternative initiation codons and upstream open reading frames also were identified for many yeast genes. We also found unexpected 3'-end heterogeneity and the presence of many overlapping genes. These results indicate that the yeast transcriptome is more complex than previously appreciated.}, author = {Nagalakshmi, Ugrappa and Wang, Zhong and Waern, Karl and Shou, Chong and Raha, Debasish and Gerstein, Mark and Snyder, Michael}, booktitle = {Science}, citeulike-article-id = {2743597}, citeulike-linkout-0 = {http://dx.doi.org/10.1126/science.1158441}, citeulike-linkout-1 = {http://www.sciencemag.org/content/320/5881/1344.abstract}, citeulike-linkout-2 = {http://www.sciencemag.org/content/320/5881/1344.full.pdf}, citeulike-linkout-3 = {http://www.sciencemag.org/cgi/content/abstract/1158441//}, citeulike-linkout-4 = {http://view.ncbi.nlm.nih.gov/pubmed/18451266}, citeulike-linkout-5 = {http://www.hubmed.org/display.cgi?uids=18451266}, day = {6}, doi = {10.1126/science.1158441}, issn = {1095-9203}, journal = {Science (New York, N.Y.)}, keywords = {biology, expression, global, regulation}, month = {June}, number = {5881}, pages = {1344--1349}, posted-at = {2008-07-12 23:06:35}, priority = {5}, title = {The transcriptional landscape of the yeast genome defined by RNA sequencing.}, url = {http://dx.doi.org/10.1126/science.1158441}, volume = {320}, year = {2008} }

TY - JOUR ID - citeulike:2743597 L3 - citeulike-article-id:2743597 N2 - The identification of untranslated regions, introns, and coding regions within an organism remains challenging. We developed a quantitative sequencing-based method called RNA-Seq for mapping transcribed regions, in which complementary DNA fragments are subjected to high-throughput sequencing and mapped to the genome. We applied RNA-Seq to generate a high-resolution transcriptome map of the yeast genome and demonstrated that most (74.5%) of the nonrepetitive sequence of the yeast genome is transcribed. We confirmed many known and predicted introns and demonstrated that others are not actively used. Alternative initiation codons and upstream open reading frames also were identified for many yeast genes. We also found unexpected 3'-end heterogeneity and the presence of many overlapping genes. These results indicate that the yeast transcriptome is more complex than previously appreciated. IS - 5881 JF - Science (New York, N.Y.) SN - 1095-9203 EP - 1349 TI - The transcriptional landscape of the yeast genome defined by RNA sequencing. VL - 320 T2 - Science SP - 1344 KW - biology KW - expression KW - global KW - regulation AU - Nagalakshmi, Ugrappa AU - Wang, Zhong AU - Waern, Karl AU - Shou, Chong AU - Raha, Debasish AU - Gerstein, Mark AU - Snyder, Michael PY - 2008/06/06/ UR - http://dx.doi.org/10.1126/science.1158441 ER -