Discovering Regulatory Overlapping RNA Transcripts
Name
Gifford-Discovering regulatory.pdf
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1.59 MB
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Author(s)
Danford, Timothy William
Dowell, Robin D.
Agarwala, Sundeep
Grisafi, Paula
Fink, Gerald R.
Gifford, David K.
Date Issued
May 2010
Journal
Research in Computational Molecular Biology
Publisher
Springer Berlin/Heidelberg
Citation
Danford, Timothy et al. “Discovering Regulatory Overlapping RNA Transcripts.” Research in Computational Molecular Biology. Ed. Bonnie Berger. LNCS Vol. 6044. Berlin, Heidelberg: Springer Berlin Heidelberg, 2010. 110-122.
Version
Author's final manuscript
Abstract
STEREO is a novel algorithm that discovers cis-regulatory RNA interactions by assembling complete and potentially overlapping same-strand RNA transcripts from tiling expression data. STEREO first identifies coherent segments of transcription and then discovers individual transcripts that are consistent with the observed segments given intensity and shape constraints. We used STEREO to identify 1446 regions of overlapping transcription in two strains of yeast, including transcripts that comprise a new form of molecular toggle switch that controls gene variegation.
MIT Department
Massachusetts Institute of Technology. Department of Biology
Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science
Whitehead Institute for Biomedical Research
Terms of Use
Creative Commons Attribution-Noncommercial-Share Alike 3.0
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DOI of Published Version
https://doi.org/10.1007/978-3-642-12683-3_8
