DotKnot: pseudoknot prediction using the probability dot plot under a refined energy model
نویسندگان
چکیده
منابع مشابه
DotKnot: pseudoknot prediction using the probability dot plot under a refined energy model
RNA pseudoknots are functional structure elements with key roles in viral and cellular processes. Prediction of a pseudoknotted minimum free energy structure is an NP-complete problem. Practical algorithms for RNA structure prediction including restricted classes of pseudoknots suffer from high runtime and poor accuracy for longer sequences. A heuristic approach is to search for promising pseud...
متن کاملRNA Pseudoknot Prediction in Energy-Based Models
RNA molecules are sequences of nucleotides that serve as more than mere intermediaries between DNA and proteins, e.g., as catalytic molecules. Computational prediction of RNA secondary structure is among the few structure prediction problems that can be solved satisfactorily in polynomial time. Most work has been done to predict structures that do not contain pseudoknots. Allowing pseudoknots i...
متن کاملHeuristic RNA pseudoknot prediction including intramolecular kissing hairpins.
Pseudoknots are an essential feature of RNA tertiary structures. Simple H-type pseudoknots have been studied extensively in terms of biological functions, computational prediction, and energy models. Intramolecular kissing hairpins are a more complex and biologically important type of pseudoknot in which two hairpin loops form base pairs. They are hard to predict using free energy minimization ...
متن کاملProbability Estimator from a Database Using a Gibbs Energy Model
We present an algorithm for creating a neural network which produces accurate probability estimates as outputs. The network implements a Gibbs probability distribution model of the training database. This model is created by a new transformation relating the joint probabilities of attributes in the database to the weights (Gibbs potentials) of the distributed network model. The theory of this t...
متن کاملthe use of appropriate madm model for ranking the vendors of mci equipments using fuzzy approach
abstract nowadays, the science of decision making has been paid to more attention due to the complexity of the problems of suppliers selection. as known, one of the efficient tools in economic and human resources development is the extension of communication networks in developing countries. so, the proper selection of suppliers of tc equipments is of concern very much. in this study, a ...
15 صفحه اولذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2010
ISSN: 0305-1048,1362-4962
DOI: 10.1093/nar/gkq021