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Series GSE11209 Query DataSets for GSE11209
Status Public on May 05, 2008
Title The Transcriptional Landscape of the Yeast Genome Defined by RNA Sequencing
Organism Saccharomyces cerevisiae
Experiment type Expression profiling by high throughput sequencing
Summary The identification of untranslated regions (UTRs), introns, and coding regions within an organism remains challenging. We developed a quantitative sequencing-based method called RNA-Seq in which cDNA fragments are subjected to high throughput sequencing. We applied RNA-Seq to generate a high-resolution transcriptome map of the yeast genomeand 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 were also 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.
Keywords: RNA-Seq, mRNA expression profiling, Illumina high-throughput sequencing
Overall design Oligo(dT) primed dataset has one technical and one biological replicates (total 3), Random Hexamer primed dataset has one technical and one biological replicates (total 3).
Contributor(s) Nagalakshmi U, Wang Z, Waern K, Shou C, Raha D, Gerstein M, Snyder M
Citation(s) 18451266
Submission date Apr 17, 2008
Last update date May 15, 2019
Contact name Zhong Wang
Organization name Yale University
Department MCDB
Lab Michael Snyder
Street address 266 Whitney Avn, KBT716
City New Haven
State/province CT
ZIP/Postal code 06511
Country USA
Platforms (1)
GPL6750 Yale-Illumina-Yeast-RNA-Seq
Samples (1)
GSM282598 RNA-seq analysis of oligo(dT)- and random-hexamer-primed yeast polyA RNA
BioProject PRJNA106815
SRA SRP000227

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Supplementary file Size Download File type/resource
GSE11209_RAW.tar 197.7 Mb (http)(custom) TAR (of TXT)
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Processed data provided as supplementary file

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