This is a website for predicting the interaction between long noncoding RNAs and proteins. By coding RNA and protein sequences into vectors, we use matrix multiplication to give score to each RNA-protein pair. This score can be the measurement of interactions between the RNA-protein pair. Comparing to existing approaches, this method shortens the time for training matrix. It also theoretically guarantees the results to be the best solution. The method has shown good ability to discriminate interacting/non-interacting RNA-protein pairs and to predict the RNA-protein interaction within a given complex.
Firstly, 4-fold cross validation was used to validate the ability of discriminating interactive and non-interactive pairs.
Secondly, we tested the method in Human MRP, RNase P, and HOTAIR complex. Our method can predict the interactions within given complex.
Thirdly, our method predicted nuclear proteins tend to interact with lncRNAs, which is in agreement of known fact.
Detail data and results can be found in paper
- (input a single RNA and multiple protein sequences)
Citation: Lu Q, Ren S, Lu M, Zhang Y, Zhu D, Zhang X, Li T. Computational prediction of associations between long non-coding RNAs and proteins. BMC Genomics. 2013 Sep 24;14:651. doi: 10.1186/1471-2164-14-651.