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A method for predicting lncRNA-mirna interactions in plants

A plant and prediction matrix technology, which is applied in the field of plant biomolecular relationship prediction, can solve the problems that lncRNA or miRNA similarity prediction cannot be applied, and achieve the effect of speeding up and enhancing accuracy

Active Publication Date: 2022-05-10
HUNAN UNIV
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Problems solved by technology

[0006] For the above deficiencies or improvement needs of the prior art, the present invention provides a method for predicting plant lncRNA-miRNA interaction, in contrast, its purpose is to solve the existing method of predicting lncRNA-miRNA interaction based on machine learning Due to the dependence on data features, it is impossible to apply to the similarity prediction of lncRNA or miRNA without expression profile and target gene, and it is impossible to perform interaction prediction for isolated lncRNA or miRNA that has no interaction with any miRNA or lncRNA technical problem

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  • A method for predicting lncRNA-mirna interactions in plants

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[0059] In order to make the object, technical solution and advantages of the present invention clearer, the present invention will be further described in detail below in conjunction with the accompanying drawings and embodiments. It should be understood that the specific embodiments described here are only used to explain the present invention, not to limit the present invention. In addition, the technical features involved in the various embodiments of the present invention described below can be combined with each other as long as they do not constitute a conflict with each other.

[0060] like figure 1 As shown, the present invention provides a method for predicting plant lncRNA-miRNA interaction, comprising steps:

[0061] (1) Obtain the original data set, and process it to obtain the lncRNA sequence feature set, the lncRNA interaction profile set, the miRNA sequence feature set, and the miRNA interaction profile set;

[0062] The advantage of this step is that the requ...

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Abstract

A method for predicting plant lncRNA-miRNA interaction, comprising: obtaining an original data set, processing it to obtain a set of lncRNA sequence features, a set of interaction profiles of lncRNA, a set of miRNA sequence features, a set of interaction profiles of miRNA, and calculating The similarities S_lncS, S_lncP, S_miS, and S_miP corresponding to the lncRNA sequence feature set, the lncRNA interaction profile set, the miRNA sequence feature set, and the miRNA interaction profile set respectively, the sequence feature similarity of lncRNA S_lncS, and the interaction profile of lncRNA The similarity S_lncP is combined to obtain the combined similarity of lncRNA, and the sequence feature similarity S_miS of miRNA and the interaction spectrum similarity S_miP of miRNA are combined to obtain the combined similarity of miRNA; from the first interaction matrix 1 / 5 of the elements are randomly selected and set to zero to obtain the first training matrix.

Description

technical field [0001] The invention belongs to the field of plant biomolecular relationship prediction, and more specifically relates to a method for predicting plant lncRNA-miRNA interaction. Background technique [0002] An increasing number of important studies have shown that long non-coding RNAs, especially lncRNAs and miRNAs, play roles in various biological processes. The sequence length of miRNA is about 22 nucleotides, and it controls the expression of post-transcriptional genes by regulating cell development, proliferation, apoptosis, carcinogenesis and differentiation. The sequence length of lncRNAs is usually greater than 200 nucleotides, and they are widely involved in many important regulatory processes, such as X chromosome silencing, genomic imprinting, chromatin modification, transcriptional activation, transcriptional interference, and nuclear trafficking. lncRNAs mainly regulate gene expression at three levels: epigenetic, transcriptional, and post-trans...

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Application Information

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Patent Type & Authority Patents(China)
IPC IPC(8): G16B20/00G16B40/00
CPCG16B40/00G16B20/00
Inventor 蔡立军高明玉付祥政任宣百曾湘祥
Owner HUNAN UNIV
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