TY - JOUR
T1 - Large deviations for random trees and the branching of RNA secondary structures
AU - Bakhtin, Yuri
AU - Heitsch, Christine E.
N1 - Funding Information:
This research of Yuri Bakhtin, Ph.D., is supported in part by NSF CAREER DMS-0742424. This research of Christine E. Heitsch, Ph.D., is supported in part by a Career Award at the Scientific Interface (CASI) from the Burroughs Wellcome Fund (BWF) and by NIH NIGMS R01 GM083621.
Funding Information:
∗Corresponding author. E-mail addresses: [email protected] (Yuri Bakhtin), [email protected] (Christine E. Heitsch). Y. Bakhtin partially supported by NSF CAREER DMS-0742424. C.E. Heitsch partially supported by a BWF CASI and NIH NIGMS R01 GM083621.
PY - 2009/1
Y1 - 2009/1
N2 - We give a Large Deviation Principle (LDP) with explicit rate function for the distribution of vertex degrees in plane trees, a combinatorial model of RNA secondary structures. We calculate the typical degree distributions based on nearest neighbor free energies, and compare our results with the branching configurations found in two sets of large RNA secondary structures. We find substantial agreement overall, with some interesting deviations which merit further study.
AB - We give a Large Deviation Principle (LDP) with explicit rate function for the distribution of vertex degrees in plane trees, a combinatorial model of RNA secondary structures. We calculate the typical degree distributions based on nearest neighbor free energies, and compare our results with the branching configurations found in two sets of large RNA secondary structures. We find substantial agreement overall, with some interesting deviations which merit further study.
KW - Branching loops
KW - Gibbs distributions
KW - Large deviations
KW - Picornavirus
KW - RNA secondary structure
KW - Random trees
KW - Ribosome
KW - Vertex degree
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U2 - 10.1007/s11538-008-9353-y
DO - 10.1007/s11538-008-9353-y
M3 - Article
C2 - 19083065
AN - SCOPUS:58149242438
SN - 0092-8240
VL - 71
SP - 84
EP - 106
JO - Bulletin of Mathematical Biology
JF - Bulletin of Mathematical Biology
IS - 1
ER -