Proceedings of the 26th annual international ACM SIGIR conference on Research and development in informaion retrieval
The Journal of Machine Learning Research
Probabilistic author-topic models for information discovery
Proceedings of the tenth ACM SIGKDD international conference on Knowledge discovery and data mining
Review: Computational identification of microRNAs and their targets
Computational Biology and Chemistry
Discovery of functional miRNA-mRNA regulatory modules with computational methods
Journal of Biomedical Informatics
Detecting MicroRNA targets by linking sequence, MicroRNA and gene expression data
RECOMB'06 Proceedings of the 10th annual international conference on Research in Computational Molecular Biology
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MicroRNAs (miRNAs) play important roles in gene regulatory networks. In this paper, we propose a probabilistic topic model to infer regulatory networks of miRNAs and their target mRNAs for specific biological conditions at the post-transcriptional level, so-called functional miRNA-mRNA regulatory modules (FMRMs). The probabilistic model used in this paper can effectively capture the relationship between miRNAs and mRNAs in specific cellular conditions. Furthermore, the proposed method identifies negatively and positively correlated miRNA-mRNA pairs which are associated with epithelial, mesenchymal, and other condition in EMT (epithelial-mesenchymal transition) data set, respectively. Results on EMT data sets show that the inferred FMRMs can potentially construct the biological chain of 'miRNA-mRNA-condition' at the post-transcriptional level.