CRISPRepi: a multi-omic atlas for CRISPR-based epigenome editing.

Area of Science:

• Molecular Biology
• Genetics
• Bioinformatics

Background:

• CRISPR-based epigenome editing enables precise gene regulation by modifying epigenetic marks without altering DNA sequences.
• Existing data on various epigenome editing systems are fragmented, hindering the evaluation of editing precision and sgRNA design.

Purpose of the Study:

• To develop CRISPRepi, a comprehensive platform for CRISPR-based epigenome editing data.
• To facilitate the evaluation of editing efficiency and off-target effects of different epigenome editing systems.
• To support the design of optimal single-guide RNAs (sgRNAs) for epigenome editing studies.

Main Methods:

• Consolidation of 671 RNA-seq, ChIP-seq, Bisulfite-seq, and ATAC-seq datasets from 87 cell types and 74 epigenome editing systems.
• Curation of 5962 sgRNAs targeting 283 genes across six species and 2277 samples.
• Development of analytical tools for editing outcomes, off-target effects, and cell/tissue-specific editing potentials.

Main Results:

• CRISPRepi integrates extensive multi-omic data for 74 epigenome editing systems.
• The platform includes data for 5962 sgRNAs, 283 target genes, and 2277 samples across six species.
• CRISPRepi provides tools for analyzing editing outcomes, assessing off-target effects, and predicting sgRNA potential.

Conclusions:

• CRISPRepi is a pioneering, user-friendly platform consolidating CRISPR-based epigenome editing data.
• It serves as an integrated resource for researchers to evaluate editing efficiency and off-target effects.
• The platform aids in designing optimal sgRNAs for functional studies in diverse organisms and cell types.