dc.contributor.author | Cao, Qingyi | en_US |
dc.contributor.author | Ma, Jian | en_US |
dc.contributor.author | Chen, Chen-Hao | en_US |
dc.contributor.author | Xu, Han | en_US |
dc.contributor.author | Chen, Zhi | en_US |
dc.contributor.author | Li, Wei | en_US |
dc.contributor.author | Liu, X. Shirley | en_US |
dc.date.accessioned | 2017-12-05T23:52:55Z | |
dc.date.issued | 2017 | en_US |
dc.identifier.citation | Cao, Qingyi, Jian Ma, Chen-Hao Chen, Han Xu, Zhi Chen, Wei Li, and X. Shirley Liu. 2017. “CRISPR-FOCUS: A web server for designing focused CRISPR screening experiments.” PLoS ONE 12 (9): e0184281. doi:10.1371/journal.pone.0184281. http://dx.doi.org/10.1371/journal.pone.0184281. | en |
dc.identifier.issn | | en |
dc.identifier.uri | http://nrs.harvard.edu/urn-3:HUL.InstRepos:34492092 | |
dc.description.abstract | The recently developed CRISPR screen technology, based on the CRISPR/Cas9 genome editing system, enables genome-wide interrogation of gene functions in an efficient and cost-effective manner. Although many computational algorithms and web servers have been developed to design single-guide RNAs (sgRNAs) with high specificity and efficiency, algorithms specifically designed for conducting CRISPR screens are still lacking. Here we present CRISPR-FOCUS, a web-based platform to search and prioritize sgRNAs for CRISPR screen experiments. With official gene symbols or RefSeq IDs as the only mandatory input, CRISPR-FOCUS filters and prioritizes sgRNAs based on multiple criteria, including efficiency, specificity, sequence conservation, isoform structure, as well as genomic variations including Single Nucleotide Polymorphisms and cancer somatic mutations. CRISPR-FOCUS also provides pre-defined positive and negative control sgRNAs, as well as other necessary sequences in the construct (e.g., U6 promoters to drive sgRNA transcription and RNA scaffolds of the CRISPR/Cas9). These features allow users to synthesize oligonucleotides directly based on the output of CRISPR-FOCUS. Overall, CRISPR-FOCUS provides a rational and high-throughput approach for sgRNA library design that enables users to efficiently conduct a focused screen experiment targeting up to thousands of genes. (CRISPR-FOCUS is freely available at http://cistrome.org/crispr-focus/) | en |
dc.language.iso | en_US | en |
dc.publisher | Public Library of Science | en |
dc.relation.isversionof | doi:10.1371/journal.pone.0184281 | en |
dc.relation.hasversion | http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5584922/pdf/ | en |
dash.license | LAA | en_US |
dc.subject | Biology and Life Sciences | en |
dc.subject | Biotechnology | en |
dc.subject | Bioengineering | en |
dc.subject | Synthetic Bioengineering | en |
dc.subject | Genome Engineering | en |
dc.subject | Synthetic Genome Editing | en |
dc.subject | Crispr | en |
dc.subject | Engineering and Technology | en |
dc.subject | Synthetic Biology | en |
dc.subject | Synthetic Genomics | en |
dc.subject | Molecular Biology | en |
dc.subject | Molecular Biology Techniques | en |
dc.subject | Molecular Biology Assays and Analysis Techniques | en |
dc.subject | Library Screening | en |
dc.subject | Genomic Library Screening | en |
dc.subject | Database and Informatics Methods | en |
dc.subject | Biological Databases | en |
dc.subject | Genomic Databases | en |
dc.subject | Computational Biology | en |
dc.subject | Genome Analysis | en |
dc.subject | Genetics | en |
dc.subject | Genomics | en |
dc.subject | Gene Identification and Analysis | en |
dc.subject | Genetic Screens | en |
dc.subject | Bioinformatics | en |
dc.subject | Sequence Analysis | en |
dc.subject | Sequence Motif Analysis | en |
dc.subject | Biology and life sciences | en |
dc.subject | Molecular biology | en |
dc.subject | Molecular biology techniques | en |
dc.subject | DNA construction | en |
dc.subject | DNA library construction | en |
dc.subject | Genomic Library Construction | en |
dc.subject | Animal Genomics | en |
dc.subject | Mammalian Genomics | en |
dc.title | CRISPR-FOCUS: A web server for designing focused CRISPR screening experiments | en |
dc.type | Journal Article | en_US |
dc.description.version | Version of Record | en |
dc.relation.journal | PLoS ONE | en |
dash.depositing.author | Li, Wei | en_US |
dc.date.available | 2017-12-05T23:52:55Z | |
dc.identifier.doi | 10.1371/journal.pone.0184281 | * |
dash.authorsordered | false | |
dash.contributor.affiliated | Li, Wei | |