PHAST: A Fast Phage Search Tool

2011· article· en· 2,099 citations· W2100363512 on OpenAlex· 10.1093/nar/gkr485

Why is this work in the frame?

A frame that forgets how it found something cannot be audited. These are the routes that admitted this work.

Canadian affiliationAn author listed a Canadian institution. This is the only route the usual frame has.

Canadian funderA Canadian agency funded it. The work may carry no Canadian affiliation at all.

Machine scores (provisional)

Baseline scores from an immature model (maturity gate not passed, 7 training rounds). Scores rank; they never assert a category.

The two teacher heads of the student model, read on this work. A score orders the frame for review; it never asserts a category, and the validation status ships verbatim with every row.

Opus teacher head0.078

GPT teacher head0.335

Teacher spread: 0.257 · how far apart the two teachers sit on this one work
Validation status: score_only:v0-immature-baseline · verbatim from the scoring run: score_only means the number may rank works, and no category label ships from it

Abstract

PHAge Search Tool (PHAST) is a web server designed to rapidly and accurately identify, annotate and graphically display prophage sequences within bacterial genomes or plasmids. It accepts either raw DNA sequence data or partially annotated GenBank formatted data and rapidly performs a number of database comparisons as well as phage 'cornerstone' feature identification steps to locate, annotate and display prophage sequences and prophage features. Relative to other prophage identification tools, PHAST is up to 40 times faster and up to 15% more sensitive. It is also able to process and annotate both raw DNA sequence data and Genbank files, provide richly annotated tables on prophage features and prophage 'quality' and distinguish between intact and incomplete prophage. PHAST also generates downloadable, high quality, interactive graphics that display all identified prophage components in both circular and linear genomic views. PHAST is available at (http://phast.wishartlab.com).

Fetched live from OpenAlex and de-inverted. Abstracts are not stored in this database: the inverted indexes are 8.6 GB of the frame’s 9.3 GB of text, and the host has 13 GB free.

The record

Venue: Nucleic Acids Research
Topic: Bacteriophages and microbial interactions
Field: Environmental Science
Canadian institutions: National Institute for NanotechnologyUniversity of Alberta
Funders: Canadian Institutes of Health ResearchGenome AlbertaGenome Canada
Keywords: ProphageGenBankBiologyGenomeGeneticsReference genomeComputational biologyBacteriophageGene
Has abstract in OpenAlex: yes
API: /api/v1/works/W2100363512