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ICCS
2009
Springer
15 years 6 months ago
GPU Accelerated RNA Folding Algorithm
Many bioinformatics studies require the analysis of RNA or DNA structures. More specifically, extensive work is done to elaborate efficient algorithms able to predict the 2-D fold...
Guillaume Rizk, Dominique Lavenier
DNA
2009
Springer
185views Bioinformatics» more  DNA 2009»
15 years 6 months ago
NP-Completeness of the Direct Energy Barrier Problem without Pseudoknots
Knowledge of energy barriers between pairs of secondary structures for a given DNA or RNA molecule is useful, both in understanding RNA function in biological settings and in desig...
Ján Manuch, Chris Thachuk, Ladislav Stacho,...
JCC
2011
87views more  JCC 2011»
14 years 6 months ago
NUPACK: Analysis and design of nucleic acid systems
: The Nucleic Acid Package (NUPACK) is a growing software suite for the analysis and design of nucleic acid systems. The NUPACK web server (http://www.nupack.org) currently enables...
Joseph N. Zadeh, Conrad Steenberg, Justin S. Bois,...
BMCBI
2004
196views more  BMCBI 2004»
14 years 11 months ago
MUSCLE: a multiple sequence alignment method with reduced time and space complexity
Background: In a previous paper, we introduced MUSCLE, a new program for creating multiple alignments of protein sequences, giving a brief summary of the algorithm and showing MUS...
Robert C. Edgar
AAAI
2007
15 years 1 months ago
A Randomized String Kernel and Its Application to RNA Interference
String kernels directly model sequence similarities without the necessity of extracting numerical features in a vector space. Since they better capture complex traits in the seque...
Shibin Qiu, Terran Lane, Ljubomir J. Buturovic