id	author	title	date	pages	extension	mime	words	sentences	flesch	summary	cache	txt
cord-015642-p46abodr	Backofen, Rolf	Distribution of Graph-Distances in Boltzmann Ensembles of RNA Secondary Structures	2013		.txt	text/plain	4201	278	66	On a more technical level, the problem to compute the partition function over RNA secondary structures with given end-to-end distance d, usually measured as the number of external bases (plus possibly the number of structural domains) arises for instance when predicting nucleic acid secondary structure in the presence of single-stranded binding proteins [9] or in models of RNA subjected to pulling forces (e.g. in atom force microscopy or export through a small pore) [10, 23, 11] . can be split as follows, This gives the recursion [10] , the investigate of loop entropy dependence [7] , the analysis of FRET signals in the presence of single-stranded binding proteins [9] , as well as in mathematical studies of RNA panhandle-like structures [2, 13] . As the graph-distance for a pair of nucleotides in a given secondary structure can be computed in O(n log n) time, even large samples can be evaluated efficiently 2 . The equilibrium partition function and base pair binding probabilities for RNA secondary structure	./cache/cord-015642-p46abodr.txt	./txt/cord-015642-p46abodr.txt