Reference: Danford T, et al. (2011) Discovering regulatory overlapping RNA transcripts. J Comput Biol 18(3):295-303

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Abstract


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.

Reference Type
Journal Article
Authors
Danford T, Dowell R, Agarwala S, Grisafi P, Fink G, Gifford D
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Interaction Annotations


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Interactor Interactor Type Assay Annotation Action Modification Phenotype Source Reference

Gene Ontology Annotations


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Gene Gene Ontology Term Qualifier Aspect Method Evidence Source Assigned On Annotation Extension Reference

Phenotype Annotations


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Gene Phenotype Experiment Type Mutant Information Strain Background Chemical Details Reference

Regulation Annotations


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Regulator Target Experiment Assay Construct Conditions Strain Background Reference