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ARTIST specifications

Information


Unique identifier OMICS_10216
Name ARTIST
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability No
Maintained Yes

Versioning


No version available

Maintainer


  • person_outline Matthew K. Waldor <>

Publication for ARTIST

ARTIST citations

 (8)
library_books

The Streptococcus agalactiae Stringent Response Enhances Virulence and Persistence in Human Blood

2017
PMCID: 5736797
PMID: 29109175
DOI: 10.1128/IAI.00612-17

[…] versus experimental insertion density fold change cutoff generated by essentials was used to separate ce from nonessential genes. the ta site insertion tallies for the data in were generated using artist ()., the vector insertion mutant gbs δrela was generated using the temperature-sensitive shuttle vector phy304 as previously described (), with the following details. phy304 was linearized […]

library_books

A Comprehensive Assessment of the Genetic Determinants in Salmonella Typhimurium for Resistance to Hydrogen Peroxide Using Proteogenomics

2017
PMCID: 5719062
PMID: 29213059
DOI: 10.1038/s41598-017-17149-9

[…] the details available in supplementary information. of the 21 genes identified by transit, 19 of these genes were also identified by tn-seq explorer, but only 3 out of this 21 were identified by artist. the 19 genes were hsca, rbsr, fepd, efp, oxyr, pola, ybad, arod, ruva, xtha, dps, arob, uvrd, tonb, uvra, arok, ybbm, lon, and proc. two genes, fepd and xtha, were identified by the all 3 […]

library_books

Identification of Fitness Determinants during Energy Limited Growth Arrest in Pseudomonas aeruginosa

2017
PMCID: 5705914
PMID: 29184024
DOI: 10.1128/mBio.01170-17

[…] hiseq 2500 platform at the millard and muriel jacobs genetics and genomics laboratory at caltech. sequences were mapped to the ucbpp-pa14 genome sequence using bowtie () and analyzed using the artist tn-seq analysis pipeline in matlab (). briefly, total reads mapping to each gene in the carbon- or oxygen-limited samples were compared to their corresponding reads in the control samples […]

library_books

Time Resolved Transposon Insertion Sequencing Reveals Genome Wide Fitness Dynamics during Infection

2017
PMCID: 5626973
PMID: 28974620
DOI: 10.1128/mBio.01581-17

[…] in e. piscicida eib202 () and then determined the genomic distribution of insertion sites using massively parallel sequencing. the distribution of insertion sites was further characterized using el-artist, a hidden markov model (hmm) analysis pipeline that identifies loci statistically underrepresented among insertion mutants (). sequencing of the e. piscicida library identified 80,616 distinct […]

library_books

Global Screening of Salmonella enterica Serovar Typhimurium Genes for Desiccation Survival

2017
PMCID: 5596212
PMID: 28943871
DOI: 10.3389/fmicb.2017.01723

[…] oregon state university, corvallis)., sequencing reads obtained from the illumina hiseq 2000 single end read were analyzed using analysis of high-resolution transposon-insertion sequences technique (artist; pritchard et al., ). briefly, demultiplexed reads with 20 bp transposon junction sequence were aligned against s. typhimurium 14028s complete genome (accession number: nc_016856.1) using […]

library_books

Essential genome of Campylobacter jejuni

2017
PMCID: 5557513
PMID: 28806924
DOI: 10.1186/s12864-017-4032-8

[…] libraries shared 200 common essential genes (additional file : figure s2)., however, when the tn5 insertions were examined closely at the gene level, multiple genes identified as essential by el-artist had significant sequence reads corresponding to the insertions in the genes. for example, spot had 64 tn5 unique insertions with 358 reads (in s-cj11168 library) that was called as essential […]


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ARTIST institution(s)
Department of Microbiology, Harvard Medical School, Boston, MA, USA
ARTIST funding source(s)
This work was supported by the Howard Hughes Medical Institute, the National Institutes of Health (AI R37-42347; 5F32 GM108355-02) and the Swiss Foundation for Grants in Biology and Medicine (PASMP3_142724/1).

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