@article{Kleinkauf2015,
author = {Kleinkauf, R. and Mann, M. and Backofen, R.},
title = {{antaRNA} - Ant Colony Based {RNA} Sequence Design},
journal = {Bioinformatics},
volume = {31},
number = {19},
doi = {10.1093/bioinformatics/btv319},
pages = { 3114-3121},
year = {2015},
user = {robertk},
issn = {1367-4811},
issn = {1367-4803},
abstract = {Motivation: RNA sequence design is studied at least as long as
the classical folding problem. While for the latter the functional fold
of an RNA molecule is to be found, inverse folding tries to identify
RNA sequences that fold into a function-specific target structure. In
combination with RNA-based biotechnology and synthetic biology,
reliable RNA sequence design becomes a crucial step to generate
novel biochemical components.
Results: In this article, the computational tool antaRNA is presented.
It is capable of compiling RNA sequences for a given structure
that comply in addition with an adjustable full range objective GCcontent
distribution, specific sequence constraints and additional
fuzzy structure constraints. antaRNA applies ant colony optimization
meta-heuristics and its superior performance is shown on a biological
datasets.
Availability: http://www.bioinf.uni-freiburg.de/Software/antaRNA}
}