Literature DB >> 12874063

Genome visualization made fast and simple.

René Gibson1, Douglas R Smith.   

Abstract

SUMMARY: The easiest way to gain a quick overall understanding of genomic data is with a visual display that allows the user to view information about an entire genome or chromosome at once. We have constructed GenomePlot, a Perl/Tk script with a series of modules that allow us to display many types of information simultaneously. Menu options allow the user to zoom to the desired view of the data and to print or save the image to a file to produce publication quality illustrations. AVAILABILITY: The program is available on request. A license is required for commercial use.

Mesh:

Year:  2003        PMID: 12874063     DOI: 10.1093/bioinformatics/btg152

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  11 in total

1.  Circos: an information aesthetic for comparative genomics.

Authors:  Martin Krzywinski; Jacqueline Schein; Inanç Birol; Joseph Connors; Randy Gascoyne; Doug Horsman; Steven J Jones; Marco A Marra
Journal:  Genome Res       Date:  2009-06-18       Impact factor: 9.043

2.  Characterization of a marine gammaproteobacterium capable of aerobic anoxygenic photosynthesis.

Authors:  Bernhard M Fuchs; Stefan Spring; Hanno Teeling; Christian Quast; Jörg Wulf; Martha Schattenhofer; Shi Yan; Steve Ferriera; Justin Johnson; Frank Oliver Glöckner; Rudolf Amann
Journal:  Proc Natl Acad Sci U S A       Date:  2007-02-13       Impact factor: 11.205

3.  The genome of Cyanothece 51142, a unicellular diazotrophic cyanobacterium important in the marine nitrogen cycle.

Authors:  Eric A Welsh; Michelle Liberton; Jana Stöckel; Thomas Loh; Thanura Elvitigala; Chunyan Wang; Aye Wollam; Robert S Fulton; Sandra W Clifton; Jon M Jacobs; Rajeev Aurora; Bijoy K Ghosh; Louis A Sherman; Richard D Smith; Richard K Wilson; Himadri B Pakrasi
Journal:  Proc Natl Acad Sci U S A       Date:  2008-09-23       Impact factor: 11.205

4.  Interactive microbial genome visualization with GView.

Authors:  Aaron Petkau; Matthew Stuart-Edwards; Paul Stothard; Gary Van Domselaar
Journal:  Bioinformatics       Date:  2010-10-17       Impact factor: 6.937

5.  GenomeViz: visualizing microbial genomes.

Authors:  Rohit Ghai; Torsten Hain; Trinad Chakraborty
Journal:  BMC Bioinformatics       Date:  2004-12-15       Impact factor: 3.169

6.  The CGView Server: a comparative genomics tool for circular genomes.

Authors:  Jason R Grant; Paul Stothard
Journal:  Nucleic Acids Res       Date:  2008-04-14       Impact factor: 16.971

7.  Circleator: flexible circular visualization of genome-associated data with BioPerl and SVG.

Authors:  Jonathan Crabtree; Sonia Agrawal; Anup Mahurkar; Garry S Myers; David A Rasko; Owen White
Journal:  Bioinformatics       Date:  2014-07-29       Impact factor: 6.937

8.  Genomorama: genome visualization and analysis.

Authors:  Jason D Gans; Murray Wolinsky
Journal:  BMC Bioinformatics       Date:  2007-06-14       Impact factor: 3.169

9.  DNAPlotter: circular and linear interactive genome visualization.

Authors:  Tim Carver; Nick Thomson; Alan Bleasby; Matthew Berriman; Julian Parkhill
Journal:  Bioinformatics       Date:  2008-11-05       Impact factor: 6.937

10.  POMO--Plotting Omics analysis results for Multiple Organisms.

Authors:  Jake Lin; Richard Kreisberg; Aleksi Kallio; Aimée M Dudley; Matti Nykter; Ilya Shmulevich; Patrick May; Reija Autio
Journal:  BMC Genomics       Date:  2013-12-24       Impact factor: 3.969

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