CRISPR/Cas9 is a powerful genome-editing technology that has been widely applied in targeted gene repair and gene expression regulation. One of the main challenges for the CRISPR/Cas9 system is the occurrence of unexpected cleavage at some sites (off-targets) and predicting them is necessary due to its relevance in gene editing research. Very few deep learning models have been developed so far to predict the off-target propensity of single guide RNA (sgRNA) at specific DNA fragments by using artificial feature extract operations and machine learning techniques; however, this is a convoluted process that is difficult to understand and implement for researchers. In this research work, we introduce a novel graph-based approach to predict off-target efficacy of sgRNA in the CRISPR/Cas9 system that is easy to understand and replicate for researchers. This is achieved by creating a graph with sequences as nodes and by using a link prediction method to predict the presence of links between sgRNA and off-target inducing target DNA sequences. Features for the sequences are extracted from within the sequences. We used HEK293 and K562 t datasets in our experiments. GCN predicted the off-target gene knockouts (using link prediction) by predicting the links between sgRNA and off-target sequences with an auROC value of 0.987.

The computer vision, graphics, and machine learning research groups have given a significant amount of focus to 3D object recognition (segmentation, detection, and classification). Deep learning approaches have lately emerged as the preferred method for 3D segmentation problems as a result of their outstanding performance in 2D computer vision. As a result, many innovative approaches have been proposed and validated on multiple benchmark datasets. This study offers an in-depth assessment of the latest developments in deep learning-based 3D object recognition. We discuss the most well-known 3D object recognition models, along with evaluations of their distinctive qualities.