Name
Abstract | ||
|---|---|---|
Motivation: Despite the growing popularity in using CRISPR/Cas9 technology for genome editing and gene knockout, its performance still relies on well-designed single guide RNAs (sgRNA). In this study, we propose a web application for the Design and Optimization (CRISPR-DO) of guide sequences that target both coding and non-coding regions in spCas9 CRISPR system across human, mouse, zebrafish, fly and worm genomes. CRISPR-DO uses a computational sequence model to predict sgRNA efficiency, and employs a specificity scoring function to evaluate the potential of off-target effect. It also provides information on functional conservation of target sequences, as well as the overlaps with exons, putative regulatory sequences and single-nucleotide polymorphisms (SNPs). The web application has a user-friendly genome-browser interface to facilitate the selection of the best target DNA sequences for experimental design. |
Year | DOI | Venue |
|---|---|---|
2016 | 10.1093/bioinformatics/btw476 | BIOINFORMATICS |
Field | DocType | Volume |
Genome,Cas9,Genome editing,Guide RNA,Computer science,DNA sequencing,Bioinformatics,Web application,CRISPR,Cistrome | Journal | 32 |
Issue | ISSN | Citations |
21 | 1367-4803 | 0 |
PageRank | References | Authors |
0.34 | 4 | 12 |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Jian Ma | 1 | 0 | 0.34 |
| Johannes Köster | 2 | 7 | 2.65 |
| Qian Qin | 3 | 0 | 0.34 |
| Sheng'en Hu | 4 | 9 | 1.15 |
| Wei Li | 5 | 1 | 2.73 |
| Chenhao Chen | 6 | 0 | 1.01 |
| Qingyi Cao | 7 | 3 | 0.82 |
| Jinzeng Wang | 8 | 0 | 0.34 |
| Shenglin Mei | 9 | 0 | 0.34 |
| Qi Liu | 10 | 0 | 1.35 |
| Han Xu | 11 | 4 | 3.18 |
| X. Shirley Liu | 12 | 451 | 50.05 |