Jin Liu

Structure-Based Classification of CRISPR/Cas9 Proteins: A Machine Learning Approach to Elucidating Cas9 Allostery

This paper uses machine learning to identify allosteric networks in Cas9, revealing key residues and an electrostatic valley that stabilize its structure and specificity.

CasGen: A Regularized Generative Model for CRISPR Cas Protein Design with Classification and Margin-Based Optimization

CasGen generates novel Cas9 and Cas12 proteins using a transformer-based model with margin-based regularization, achieving structural similarity and functional integrity.

Identification of Family-Specific Features in Cas9 and Cas12 Proteins: A Machine Learning Approach Using Complete Protein Feature Spectrum

The paper uses machine learning to identify distinguishing features of Cas9 and Cas12 proteins, finding specific tripeptides important for their function.

Transformer-Based Deep Learning Model with Latent Space Regularization for CRISPR-Cas Protein Sequence Classification

This paper develops two deep learning models for classifying CRISPR-Cas proteins, achieving high accuracy in distinguishing CAS from non-CAS and sub-classifying CAS9 and CAS12.