DNAPlotter pipeline

DNAPlotter specifications

Information


Unique identifier OMICS_00906
Name DNAPlotter
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Input format EMBL, Genbank, GFF
Output data Images
Output format JPEG, PNG, BMP, WBMP, PostScript
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
License GNU General Public License version 2.0
Computer skills Medium
Stability Stable
Maintained Yes

Versioning


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Maintainer


  • person_outline Tim Carver <>

Publication for DNAPlotter

DNAPlotter IN pipelines

 (3)
2014
PMCID: 3914696
PMID: 24391155
DOI: 10.1093/gbe/evt209

[…] signalp 4.1 (petersen et al. 2011) and thmm v. 2.0 servers (centre for biological sequence analysis, technical university of denmark), respectively. the genome of atcc 700755t was visualized using dnaplotter (carver et al. 2009). crispr palindromic repeats were detected using crispr recognition tool (crt) (bland et al. 2007)., psychroflexus torquis atcc 700755t was grown on modified marine […]

2010
PMCID: 2887815
PMID: 20525227
DOI: 10.1186/1471-2164-11-350

[…] are used as evidences to identify structural regulatory elements located inside the leader sequences. a circular s. pneumoniae tigr4 genome map along with genes and srnas was generated using dnaplotter [68]. all srna sequences were searched against rfam database [31] for functional annotation. blastn searches were performed against non redundant nucleotide database at ncbi to determine […]

2010
PMCID: 3008741
PMID: 21203527
DOI: 10.1371/journal.pone.0015693

[…] was examined for candidate cdss or operons using the annotated k96243 genome and blastx analysis [6]. the distribution and location of positive loci on chromosome 1 and 2 were diagrammed using dnaplotter [39]., confluent monolayers of j774-2 macrophages on glass coverslips were treated with equivalent volumes of crude lysates (prepared as described above) from clones identified […]

DNAPlotter institution(s)
Wellcome Trust Sanger Institute, UK; European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, UK
DNAPlotter funding source(s)
The Wellcome trust

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