Filters








2 Hits in 1.5 sec

SpacePHARER: Sensitive identification of phages from CRISPR spacers in prokaryotic hosts [article]

Ruoshi Zhang, Milot Mirdita, Eli Levy Karin, Clovis Norroy, Clovis Galiez, Johannes Soeding
2020 bioRxiv   pre-print
Summary: SpacePHARER (CRISPR Spacer Phage-Host Pair Finder) is a sensitive and fast tool for de novo prediction of phage-host relationships via identifying phage genomes that match CRISPR spacers in genomic  ...  SpacePHARER gains sensitivity by comparing spacers and phages at the protein-level, optimizing its scores for matching very short sequences, and combining evidences from multiple matches, while controlling  ...  Each query set Q consists of the translated ORFs q of CRISPR spacers extracted from one prokaryotic genome, and each target set T comprises the putative protein sequences t from a single phage.  ... 
doi:10.1101/2020.05.15.090266 fatcat:ejjwht7vwbemvj7edbhhpq42ji

SpacePHARER: Sensitive identification of phages from CRISPR spacers in prokaryotic hosts

R Zhang, M Mirdita, E Levy Karin, C Norroy, C Galiez, J Söding
2021 Bioinformatics  
SpacePHARER (CRISPR Spacer Phage-Host Pair Finder) is a sensitive and fast tool for de novo prediction of phage-host relationships via identifying phage genomes that match CRISPR spacers in genomic or  ...  SpacePHARER gains sensitivity by comparing spacers and phages at the protein level, optimizing its scores for matching very short sequences, and combining evidence from multiple matches, while controlling  ...  The viral genomes were downloaded from NCBI Genbank in 09/2018.  ... 
doi:10.1093/bioinformatics/btab222 pmid:33792634 pmcid:PMC8504623 fatcat:5rrij3tzlvbk5edflv2a4lhq6y