The simplicity of site-specific genome targeting by type II clustered, regularly interspaced, short palindromic repeat (CRISPR)-Cas9 nucleases, along with their robust activity profile, has changed the landscape of genome editing. These favorable properties have made the CRISPR-Cas9 system the technology of choice for sequence-specific modifications in vertebrate systems.
Uses methods to compute, visualize and select optimal CRISPR sites in a genome browser environment. The WGE database currently stores single and paired CRISPR sites and pre-calculated off-target information for CRISPRs located in the mouse and human exomes. Scoring and display of off-target sites is simple, and intuitive, and filters can be applied to identify high-quality CRISPR sites rapidly. WGE also provides a tool for the design and display of gene targeting vectors in the same genome browser, along with gene models, protein translation and variation tracks.
A database for high-throughput CRISPR/Cas9 screening experiments. GenomeCRISPR contains data on the performance of more than 550 000 single guide RNAs (sgRNAs) which were used in >80 different experiments performed in 48 different human cell lines. It provides several data mining options and tools allowing users to easily investigate and compare the results of different screens. An API can be used for automated data access.
A database of CRISPR/Cas9 target sequences that have been experimentally validated in zebrafish. CRISPRz can be searched using multiple inputs such as ZFIN IDs, accession number, UniGene ID, or gene symbols from zebrafish, human and mouse. CRISPRz was developed in an effort to provide a comprehensive list of validated CRISPR targets from published sources as well as from an ongoing genome-wide knockout project in the zebrafish genome. Data will be added as more validated CRISPR targets are published or contributed from unpublished, in-house projects. The database is also open for data submission from the research community.
Assists users in the construction of a sequence-optimized gRNA library. TKO is based on an expanded set of reference core essential genes (CEG2), plus empirical data from six clustered regularly interspaced short palindromic repeats (CRISPR) knockout screens. It contains four sequence-optimized guides targeting each of more than 18 000 protein-coding genes.
Provides a universal CRISPR annotation system. grID is an extensive compilation of gRNA properties including sequence and variations, thermodynamic parameters, off-target analyses, and alternative PAM sites, among others. The database is designed to keep up with the rapidly evolving CRISPR technology. Users can search in the database by NCBI reference sequence ID, Gene Symbol or any valid 23-bp targeting sequence in the form N20NGG.
Allows rapid identification of sgRNA target sequences in the Chinese hamster ovary (CHO-K1) genome. The CRISPy tool identified 1,970,449 CRISPR targets divided into 27,553 genes and lists the number of off-target sites in the genome. The proven functionality of Cas9 to edit CHO genomes combined with the CRISPy database have the potential to accelerate genome editing and synthetic biology efforts in CHO cells.