Literature DB >> 14988111

Visualization for genomics: the Microbial Genome Viewer.

Robert Kerkhoven1, Frank H J van Enckevort, Jos Boekhorst, Douwe Molenaar, Roland J Siezen.   

Abstract

SUMMARY: A Web-based visualization tool, the Microbial Genome Viewer, is presented that allows the user to combine complex genomic data in a highly interactive way. This Web tool enables the interactive generation of chromosome wheels and linear genome maps from genome annotation data stored in a MySQL database. The generated images are in scalable vector graphics (SVG) format, which is suitable for creating high-quality scalable images and dynamic Web representations. Gene-related data such as transcriptome and time-course microarray experiments can be superimposed on the maps for visual inspection. AVAILABILITY: The Microbial Genome Viewer 1.0 is freely available at http://www.cmbi.kun.nl/MGV

Mesh：

Year:  2004        PMID： 14988111     DOI： 10.1093/bioinformatics/bth159

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


  39 in total

1.  Information Visualization Techniques in Bioinformatics during the Postgenomic Era.

Authors:  Ying Tao; Yang Liu; Carol Friedman; Yves A Lussier
Journal:  Drug Discov Today Biosilico       Date:  2004-11

2.  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

3.  A new dehydrogenase from Clostridium acetobutylicum for asymmetric synthesis: dynamic reductive kinetic resolution entry into the Taxotère side chain.

Authors:  Gregory A Applegate; Ross W Cheloha; David L Nelson; David B Berkowitz
Journal:  Chem Commun (Camb)       Date:  2010-12-20       Impact factor: 6.222

4.  Spatial and temporal expression of Lactobacillus plantarum genes in the gastrointestinal tracts of mice.

Authors:  Maria L Marco; Roger S Bongers; Willem M de Vos; Michiel Kleerebezem
Journal:  Appl Environ Microbiol       Date:  2006-10-27       Impact factor: 4.792

5.  SimplevisGrid: grid services for visualization of diverse biomedical knowledge and molecular systems data.

Authors:  Todd H Stokes; May D Wang
Journal:  Conf Proc IEEE Eng Med Biol Soc       Date:  2009

6.  Large intergenic cruciform-like supermotifs in the Lactobacillus plantarum genome.

Authors:  Michiel Wels; Roger S Bongers; Jos Boekhorst; Douwe Molenaar; Mark Sturme; Willem M de Vos; Roland J Siezen; Michiel Kleerebezem
Journal:  J Bacteriol       Date:  2009-03-13       Impact factor: 3.490

7.  Genome instability in Lactobacillus rhamnosus GG.

Authors:  Wilbert Sybesma; Douwe Molenaar; Wilfred van IJcken; Koen Venema; Remco Kort
Journal:  Appl Environ Microbiol       Date:  2013-01-25       Impact factor: 4.792

8.  In silico prediction of horizontal gene transfer events in Lactobacillus bulgaricus and Streptococcus thermophilus reveals protocooperation in yogurt manufacturing.

Authors:  Mengjin Liu; Roland J Siezen; Arjen Nauta
Journal:  Appl Environ Microbiol       Date:  2009-04-24       Impact factor: 4.792

9.  Genomic differences between Campylobacter jejuni isolates identify surface membrane and flagellar function gene products potentially important for colonizing the chicken intestine.

Authors:  Kelli L Hiett; Alain Stintzi; Tracy M Andacht; Robin L Kuntz; Bruce S Seal
Journal:  Funct Integr Genomics       Date:  2008-07-01       Impact factor: 3.410

10.  Genome-scale identification method applied to find cryptic aminoglycoside resistance genes in Pseudomonas aeruginosa.

Authors:  Julie M Struble; Ryan T Gill
Journal:  PLoS One       Date:  2009-11-11       Impact factor: 3.240
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