E-SMDB-2508 - Virtual northern using DNA microarrays for genome wide systematic analysis of mRNA lengths, used to measure mRNAs corresponding to 84% of the annotated open reading frames (ORFs) in the yeast genome

Status
Released on 27 October 2005, submitted on 28 October 2005, last updated on 27 March 2012
Organism
Saccharomyces cerevisiae
Samples (0)
Array (1)
Protocols (4)
Description
We developed a 'Virtual Northern' method, using DNA microarrays for genome-wide systematic analysis of mRNA lengths. We used this method to measure mRNAs corresponding to 84% of the annotated open reading frames (ORFs) in the S. cerevisiae genome, with high precision and accuracy (measurement errors 1 6-7%). We found a close linear relationship between mRNA lengths and the lengths of known or predicted translated sequences; mRNAs were typically around 300 nucleotides longer than the translated sequences. Analysis of genes deviating from that relationship identified ORFs with annotation errors, ORFs that appear not to be bona fide genes, and potentially novel genes. Interestingly, we found that systematic differences in the total length of the untranslated sequences in mRNAs were related to the functions of the encoded proteins.
Experiment types
transcription profiling by array, time series
Contacts
Citation
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-SMDB-2508.idf.txt
Sample and data relationshipE-SMDB-2508.sdrf.txt
Raw data (1)E-SMDB-2508.raw.1.zip
Processed data (1)E-SMDB-2508.processed.1.zip
Array designA-SMDB-896.adf.txt
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