{"doi":"10.1016/j.gpb.2019.05.008","title":"Data Comparison and Software Design for Easy Selection and Application of CRISPR-Based Genome Editing Systems in Plants","abstract":"CRISPR-based genome editing systems have been successfully and effectively used in many organisms. However, only a few studies have reported the comparison between CRISPR/Cas9 and CRISPR/Cpf1 systems in the whole-genome applications. Although many web-based toolkits are available, there is still a shortage of comprehensive, user-friendly, and plant-specific CRISPR databases and desktop software. In this study, we identified and analyzed the similarities and differences between CRISPR/Cas9 and CRISPR/Cpf1 systems by considering the abundance of proto-spacer adjacent motif (PAM) sites, the effects of GC content, optimal proto-spacer length, potential universality within the plant kingdom, PAM-rich region (PARR) inhibiting ratio, and the effects of G-quadruplex (G-Q) structures. Using this information, we built a comprehensive CRISPR database (including 138 plant genome data sources, www.grapeworld.cn/pc/index.html), which provides search tools for the identification of CRISPR editing sites in both CRISPR/Cas9 and CRISPR/Cpf1 systems. We also developed a desktop software on the basis of the Perl/Tk tool, which facilitates and improves the detection and analysis of CRISPR editing sites at the whole-genome level on Linux and/or Windows platform. Therefore, this study provides helpful data and software for easy selection and application of CRISPR-based genome editing systems in plants.","journal":"Genomics Proteomics & Bioinformatics","year":2021,"id":202612,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":6,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.7869,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2021-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":782733,"name":"Fatma Lecourieux","orcid":"0000-0003-1601-2500","position":1,"is_corresponding":false},{"id":782734,"name":"Rui Zhang","orcid":"0000-0002-0897-7161","position":2,"is_corresponding":false},{"id":782735,"name":"Zhanwu Dai","orcid":"0000-0002-7625-8337","position":3,"is_corresponding":false},{"id":782736,"name":"David Lecourieux","orcid":"0000-0001-8703-8674","position":4,"is_corresponding":false},{"id":782737,"name":"Shaohua Li","orcid":"0000-0001-7707-206X","position":5,"is_corresponding":false},{"id":782738,"name":"Zhenchang Liang","orcid":"0000-0002-4644-4454","position":6,"is_corresponding":false},{"id":782732,"name":"Yi Wang","orcid":"0000-0002-4534-8946","position":0,"is_corresponding":true}],"reference_count":30,"raw_metadata":null,"created_at":"2026-07-18T23:51:10.291262Z","pmid":"34280549","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}