CRISPR-viva: Universal off-target-free guide RNA design for RNA virus detection

CRISPR-viva is a universal and host cell context-aware guide RNA design framework for CRISPR-based RNA virus detection and inhibition facilitated by a foundation model.

CRISPR-viva is designed as a universal foundation model-driven framework to generate optimized guide RNA candidates that are targeted to RNA virus in a highly sensitive and specific way by considering the personalized host cell transcriptome and avoiding targeting the endogenous transcriptome of the treated cell. Thus, this framework can seamlessly adapt to virus detection and inhibition scenarios with any cell type, virus and rapidly evolving CRISPR system.

CRISPR-viva consists of two modules, the off-target-free module and the foundation model module (Figure). With the guide RNA candidates generated via the screening process of both modules, a package of high-efficacy guide RNAs for virus detection and inhibition with respect to designated CRISPR system can be obtained.

We have provided field-deployable guide RNA candidates for 8 CRISPR systems in this website. See the Database Tab.