Ben Gurion University of the
Department of Computer Science
Gene bi-targeting by viral and human miRNAs
Isana Veksler-Lublinsky1 , Yonat Shemer-Avni2 , Klara Kedem1, Michal Ziv-Ukelson1
1 Department of Computer Science, Ben-Gurion University, 84105 Beer Sheva, Israel
Virology and Developmental Genetics/Health Sciences, Ben-Gurion University,
84105 Beer Sheva, Israel
Our method consists of two stages:
1. A target prediction stage: performs all against all dynamic programming on two sets of sequences (miRNAs and mRNAs) in order to predict, for every miRNA in the set, its target mRNAs.
The code for target prediction is available here.
2. A module search stage: looks for modules that are enriched in some biological process, using the results from the first stage and information from Gene Ontology and the miRNA Atlas.
A list of predicted modules: All modules
The predicted modules with details (the files are partitioned by GO categories):
See example file.
Cell Cycle/Cell Growth
For more details about the method and results please refer to:
Isana Veksler-Lublinsky, Yonat Shemer-Avni, Klara Kedem and Michal Ziv-Ukelson. Gene bi-targeting by viral and human miRNAs. BMC Bioinformatics 11:249, 2010.
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