RRC ID 56027
Author Schoonenberg VAC, Cole MA, Yao Q, Macias-Treviño C, Sher F, Schupp PG, Canver MC, Maeda T, Pinello L, Bauer DE.
Title CRISPRO: identification of functional protein coding sequences based on genome editing dense mutagenesis.
Journal Genome Biol
Abstract CRISPR/Cas9 pooled screening permits parallel evaluation of comprehensive guide RNA libraries to systematically perturb protein coding sequences in situ and correlate with functional readouts. For the analysis and visualization of the resulting datasets, we develop CRISPRO, a computational pipeline that maps functional scores associated with guide RNAs to genomes, transcripts, and protein coordinates and structures. No currently available tool has similar functionality. The ensuing genotype-phenotype linear and three-dimensional maps raise hypotheses about structure-function relationships at discrete protein regions. Machine learning based on CRISPRO features improves prediction of guide RNA efficacy. The CRISPRO tool is freely available at gitlab.com/bauerlab/crispro .
Volume 19(1)
Pages 169
Published 2018-10-19
DOI 10.1186/s13059-018-1563-5
PII 10.1186/s13059-018-1563-5
PMID 30340514
PMC PMC6195731
MeSH CRISPR-Cas Systems / genetics* Cell Line Gene Editing* Genome* Humans Molecular Sequence Annotation Mutagenesis / genetics* Open Reading Frames / genetics* Protein Structure, Secondary RNA, Guide / genetics RNA, Messenger / genetics RNA, Messenger / metabolism
IF 14.028
Times Cited 7
Resource
Human and Animal Cells HUDEP-2(RCB4557)