Method and device for predicting ribonucleic acid pseudoknot structure based on k-stem

A technology of ribonucleic acid and prediction method, applied in the field of bioinformatics engineering
CN104298894BInactive Publication Date: 2017-10-20SHANDONG JIANZHU UNIV +1
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Patent Information

Authority / Receiving Office
CN · China
Patent Type
Patents(China)
Current Assignee / Owner
SHANDONG JIANZHU UNIV
Publication Date
2017-10-20
Estimated Expiration
Not applicable · inactive patent

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Abstract

The present invention provides a kind of prediction method and device of the ribonucleic acid (RNA) pseudoknot structure based on k stem, and prediction method comprises the following steps: input a section of ribonucleic acid base sequence; Define pseudoknot, k (k≥1) stem; From Search RNA bases and k stems from left to right, and mark all k stems found out; according to the characteristics of k stems crossing to form pseudoknots, find pseudoknots; calculate the minimum structure of ribonucleic acid pseudoknots containing k stems Free energy; pseudoknot structure for export of ribonucleic acid. The method involved in the present invention has fast search speed, high correct rate, sensitivity and specificity, and is superior to other related algorithms, such as PKNOTS algorithm. This method is more effective than the PKNOTS algorithm in the prediction of planar pseudoknots.
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Description

technical field

[0001] The invention belongs to the field of biological information engineering and relates to a method for predicting the pseudoknot structure of ribonucleic acid (hereinafter referred to as RNA), in particular to a method and a device for predicting the pseudoknot structure of RNA based on k-stem. Background technique

[0002] RNA is one of the most important macromolecules in biological systems. It performs multiple functions in organisms and is a template for protein synthesis. RNA secondary structure prediction is used for protein function analysis and is the basis for RNA tertiary structure prediction. Pseudoknot is the most extensive structural unit in RNA, and it is a very complex and stable RNA structure. Pseudoknot has structural, catalytic and regulatory functions in RNA molecules, and is the key point in the current research on RNA structure prediction.

[0003] There are two main methods for RNA secondary structure prediction: the early method i...

Claims

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