Computational Analysis
@Adrian Villanueva
Molecular Dynamic Simulations
This paper was able to simulate the physical mechanism of the Cas9 enzyme using molecular dynamic simulations. The article linked mainly focuses on the sequence of conformational changes that prepare the Cas9 enzyme for cleavage, but was not able to simulate the actualy cleavage mechanism due to limitations.
Finding efficiency of gRNA
Harvard's CRISPR efficiency predictor
There are predictors out there (so far it seems like its only applicable to Cas9 systems) that is able to assess the effeciency of a gRNA sequence.
CRISPR/Cas9 sgRNA Prediction Tool (CCTop)
CCTop, an online predictor where given a query sequence, the algorithim can rank candidate sgRNA target sites according to their off-target quality.