A lncRNA-protein Association Prediction Method Based on Projected Neighborhood Nonnegative Matrix Factorization

Abstract

The invention discloses a lncRNA-protein association prediction method based on projected neighborhood non-negative matrix decomposition. First, according to the lncRNA sequence, lncRNA expression profile data, protein sequence, GO function annotation data of protein and the interaction network of lncRNA and protein, calculate A variety of lncRNA features, protein features, lncRNA similarity matrix and protein similarity matrix are obtained. Secondly, the integrated lncRNA similarity network is obtained by fusing multiple lncRNA similarity networks, and the integrated protein similarity network is obtained by fusing multiple protein similarity networks. Finally, combining the integrated lncRNA(protein) similarity network and multiple lncRNA(protein) features, a feature-projected neighborhood nonnegative matrix factorization algorithm is proposed to predict potential lncRNA-protein interactions. The present invention can not only accurately predict new lncRNA-protein interactions, but also predict new proteins (lncRNA) that are not associated with any lncRNA (protein), effectively avoiding high human and material resource consumption caused by biochemical experiments.

Description

technical field [0001] The invention relates to the technical field of bioinformatics, in particular to a lncRNA protein association prediction method based on projected neighborhood non-negative matrix decomposition. Background technique [0002] With the continuous development of sequencing technology, we will gradually uncover the mystery of biological genomes, and understanding the RNA world has become one of the most important challenges facing biology today. Non-coding RNAs occupying up to 98% of the transcriptome are a treasure mine of potential new biomarkers and protein targets, among which non-coding RNAs with a length of no more than 200 nucleotides are called long non-coding RNAs (lncRNAs). [0003] lncRNA plays an important role in various biological processes, and it participates in the regulation of gene expression, affects the formation of nuclear domains, and regulates chromosome structure through direct mechanisms. The functions of almost all lncRNAs can b...

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Problems solved by technology

[0007] In view of this, the present invention provides a lncRNA protein association prediction method based on projected neighborhood non-negative matrix factorization, to solve or at least partially solve the technical problem of low prediction accuracy existing in the methods in the prior art

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