FMLNCSIM – fuzzy measure-based lncRNA functional similarity calculation model

Accumulating experimental studies have indicated the influence of lncRNAs on various critical biological processes as well as disease development and progression. Calculating lncRNA functional similarity is of high value in inferring lncRNA functions and identifying potential lncRNA-disease associations. However, little effort has been attempt to measure the functional similarity among lncRNAs on a large scale.

Now, researchers have developed a Fuzzy Measure-based LNCRNA functional SIMilarity calculation model (FMLNCSIM) based on the assumption that functionally similar lncRNAs tend to be associated with similar diseases. The performance improvement of FMLNCSIM mainly comes from the combination of information content and the concept of fuzzy measure, which was applied to the directed acyclic graphs of disease MeSH descriptors.

To evaluate the effectiveness of FMLNCSIM, the researchers further combined it with the previously proposed model of Laplacian Regularized Least Squares for lncRNA-Disease Association (LRLSLDA). As a result, the integrated model, LRLSLDA-FMLNCSIM, achieve good performance in the frameworks of global LOOCV and 5-fold cross validation, which significantly improve the performance of previous classical models. It is anticipated that FMLNCSIM could be used for searching functionally similar lncRNAs and inferring lncRNA functions in future research.


Flowchart of disease semantic similarity calculation in FMLNCSIM based on disease directed acyclic graphs

Availability – A web server which implements the function of the proposed FMLNCSIM model is available at

Chen X, Huang YA, Wang XS, You ZH, Chan KC. (2016) FMLNCSIM: fuzzy measure-based lncRNA functional similarity calculation model. Oncotarget [Epub ahead of print]. [article]

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