In this work we use a graph-theoretic representation of secondary RNA structure found in the database RAG: RNA-As-Graphs. We model the bonding of two RNA secondary structures to form a larger structure with a graph operation called merge. The resulting data from each tree merge operation is summarized and represented by a vector. We use these vectors as input values for a neural network and train the network to recognize a tree as RNA-like or not based on the merge data vector.
The network correctly assigned a high probability of RNA-likeness to trees identified as RNA-like in the RAG database, and a low probability of RNA-likeness to those classified as not RNA-like in the RAG database. We then used the neural network to predict the RNA-likeness of all the trees of order 9. The use of a graph operation to theoretically describe the bonding of secondary RNA is novel.
| Identifer | oai:union.ndltd.org:ETSU/oai:dc.etsu.edu:etd-3039 |
| Date | 08 May 2010 |
| Creators | Koessler, Denise Renee |
| Publisher | Digital Commons @ East Tennessee State University |
| Source Sets | East Tennessee State University |
| Detected Language | English |
| Type | text |
| Format | application/pdf |
| Source | Electronic Theses and Dissertations |
| Rights | Copyright by the authors. |
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