Figure 1. Demo result of ceRNA regulatory network construction service.

Demo result interpretation

By showing the regulation mechanism of ceRNA of different genes, the different types of ceRNA mechanisms in the experimental group and the control group were discovered, and specific ceRNAs were found. The lines represent different microRNAs, blue is mRNA, red is circRNA, and green is lncRNA.

Overall solutions

We established a computational mechanism to use circRNA (lncRNA) as ceRNA to protect mRNA from miRNA degradation. Based on the expression value of the gene, through regression model analysis and seed sequence matching method, a regulatory network of microRNA sponge adsorption is established.

Classifications

ceRNA regulatory network analysis currently contains four types of RNA, namely mRNA, miRNA, IncRNA and circRNA. Among them, miRNA is at the core of regulation. When miRNA is competitively bound by ceRNA such as IncRNA or circRNA, the transcription level of mRNA regulated by miRNA will increase.

The process of our ceRNA regulatory network construction service

• The first step is the result of differential analysis, including mRNA, miRNA, and IncRNA three times.
• Secondly, perform IncRNA-mRNA co-expression analysis based on the data. Here we are concerned about the positively related IncRNA-mRNA, because only the strength is balanced, is eligible to compete for miRNA.
• Then, based on the database prediction of miRNA-IncRNA, miRNA- is eligible to compete for miRNA. Predict the miRNA-IncRNA, miRNA-mRNA relationship pair based on the database.

Figure 2. The process of ceRNA regulatory network construction.

ceRNA regulatory network construction service

Analysis requirements

• Customers need to provide microRNA expression data (optional), circRNA (lncRNA) expression.
• Data (required), mRNA expression data (required).
• Each set of data has 3 or more biological replicates.

The results we provide:

• Picture files (Network diagrams), including png, PDF formats.
• Cytocape file: can be opened by cytoscape for detailed adjustment.
• Text file: CeRNA regulatory relationship between genes, regulatory scores, circRNA (lncRNA) microRNA, mRNA core regulatory relationship ranking.

CD ComputaBio provides corresponding ceRNA regulatory network construction service has proven to be very useful for understanding the biochemical basis of physiological events at different stages of drug development (even in different fields such as materials science). CD ComputaBio team has been working in this field for more than ten years and has published his findings in top scientific journals. If you have a need for network analysis services, please feel free to contact us.

We provide a variety of modeling services, but not limited to:

• Network Analysis Services in Biology
• PPI Network Service
• Gene Co-Expression Network Analysis