Zisland Explorer specifications

Information


Unique identifier OMICS_11357
Interface Web user interface
Restrictions to use None
Input data When performing island prediction, the users only need to submit a standard FASTA sequence file of the genome and optionally upload an annotation file in GenBank ptt style. If the annotation file is unavailable, Zisland Explorer will identify genes using ZCURVE, a gene annotation tool based on Z-curve theory and having been validated on hundreds of genomes.
Output data The users will obtain a file of predicted islands and an image of the cumulative GC profile displaying the predicted islands.
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Feng-Biao Guo <>

Information


Unique identifier OMICS_11357
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data When performing island prediction, the users only need to submit a standard FASTA sequence file of the genome and optionally upload an annotation file in GenBank ptt style. If the annotation file is unavailable, Zisland Explorer will identify genes using ZCURVE, a gene annotation tool based on Z-curve theory and having been validated on hundreds of genomes.
Output data The users will obtain a file of predicted islands and an image of the cumulative GC profile displaying the predicted islands.
Operating system Unix/Linux, Mac OS, Windows
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


Add your version

Documentation


Maintainer


  • person_outline Feng-Biao Guo <>

Zisland Explorer article

Zisland Explorer citation

2016
PMCID: 4955295

[…] functional annotation was performed using rast (rapid annotations using subsystem technology) server version 2.03 (delcher et al., 2007; aziz et al., 2008). genomic islands were predicted by zisland explorer method4 (wei and guo, 2011; wei et al., 2016)., the phylogenetic tree based on entire genome sequences was constructed by neighbor-joining method using ggdc distance (formula 2) […]

Zisland Explorer institution(s)
School of Life Sciences, Chongqing University, China; Department of Physics, Tianjin University, China; Bioinformatics Center, University of Electronic Science and Technology of China, China; School of Biomedical Engineering, Tianjin Medical University, China
Zisland Explorer funding source(s)
This work was supported by the National Natural Science Foundation of China (grant numbers 31470068, 31501063, 31171238 and 31571358); Sichuan Youth Science and Technology Foundation of China (2014JQ0051); China National 863 High-Tech Program (2015AA020101); Postdoctoral Science Foundation of China (2015M580211); and Fundamental Research Funds for the Central Universities of China (ZYGX2013J101, ZYGX2015Z006 and ZYGX2015J144).

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