GenomeVx: simple web-based creation of editable circular chromosome maps

被引：302

作者：

Conant, Gavin C. ^{[1
]}

Wolfe, Kenneth H. ^{[1
]}

机构：

[1] Univ Dublin Trinity Coll, Smurfit Inst Genet, Dublin 2, Ireland

来源：

BIOINFORMATICS | 2008年 / 24卷 / 06期

基金：

爱尔兰科学基金会;

关键词：

D O I：

10.1093/bioinformatics/btm598

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

We describe GenomeVx, a web-based tool for making editable, publication-quality, maps of mitochondrial and chloroplast genomes and of large plasmids. These maps show the location of genes and chromosomal features as well as a position scale. The program takes as input either raw feature positions or GenBank records. In the latter case, features are automatically extracted and colored, an example of which is given. Output is in the Adobe Portable Document Format (PDF) and can be edited by programs such as Adobe Illustrator.

引用

页码：861 / 862

页数：2

共 13 条

[1] Complete plastid genome sequences of Drimys, Liriodendron, and Piper:: implications for the phylogenetic relationships of magnoliids [J].

Cai, Zhengqiu ;

Penaflor, Cynthia ;

Kuehl, Jennifer V. ;

Leebens-Mack, James ;

Carlson, John E. ;

dePamphilis, Claude W. ;

Boore, Jeffrey L. ;

Jansen, Robert K. .

BMC EVOLUTIONARY BIOLOGY, 2006, 6 (1)

[2] The human genome project: Lessons from large-scale biology [J].

Collins, FS ;

Morgan, M ;

Patrinos, A .

SCIENCE, 2003, 300 (5617) :286-290

[3] Genome visualization made fast and simple [J].

Gibson, R ;

Smith, DR .

BIOINFORMATICS, 2003, 19 (11) :1449-1450

[4] Rapid evolutionary change of common bean (Phaseolus vulgaris L) plastome, and the genomic diversification of legume chloroplasts [J].

Guo, Xianwu ;

Castillo-Ramirez, Santiago ;

Gonzalez, Victor ;

Bustos, Patricia ;

Fernandez-Vazquez, Jose Luis ;

Santamaria, Rosa Isela ;

Arellano, Jesus ;

Cevallos, Miguel A. ;

Davila, Guillermo .

BMC GENOMICS, 2007, 8

[5] Rapid and accurate pyrosequencing of angiosperm plastid genomes [J].

Moore, Michael J. ;

Dhingra, Amit ;

Soltis, Pamela S. ;

Shaw, Regina ;

Farmerie, William G. ;

Folta, Kevin M. ;

Soltis, Douglas E. .

BMC PLANT BIOLOGY, 2006, 6 (1)

[6] CHLOROPLAST GENE ORGANIZATION DEDUCED FROM COMPLETE SEQUENCE OF LIVERWORT MARCHANTIA-POLYMORPHA CHLOROPLAST DNA [J].

OHYAMA, K ;

FUKUZAWA, H ;

KOHCHI, T ;

SHIRAI, H ;

SANO, T ;

SANO, S ;

UMESONO, K ;

SHIKI, Y ;

TAKEUCHI, M ;

CHANG, Z ;

AOTA, S ;

INOKUCHI, H ;

OZEKI, H .

NATURE, 1986, 322 (6079) :572-574

[7] NUCLEOTIDE-SEQUENCE OF BACTERIOPHAGE PHICHI174 DNA [J].

SANGER, F ;

AIR, GM ;

BARRELL, BG ;

BROWN, NL ;

COULSON, AR ;

FIDDES, JC ;

HUTCHISON, CA ;

SLOCOMBE, PM ;

SMITH, M .

NATURE, 1977, 265 (5596) :687-695

[8] Complete chloroplast genome sequence of Glycine max and comparative analyses with other legume genomes [J].

Saski, C ;

Lee, SB ;

Daniell, H ;

Wood, TC ;

Tomkins, J ;

Kim, HG ;

Jansen, RK .

PLANT MOLECULAR BIOLOGY, 2005, 59 (02) :309-322

[9] GenoMap, a circular genome data viewer [J].

Sato, N ;

Ehira, S .

BIOINFORMATICS, 2003, 19 (12) :1583-1584

[10] THE COMPLETE NUCLEOTIDE-SEQUENCE OF THE TOBACCO CHLOROPLAST GENOME - ITS GENE ORGANIZATION AND EXPRESSION [J].

SHINOZAKI, K ;

OHME, M ;

TANAKA, M ;

WAKASUGI, T ;

HAYASHIDA, N ;

MATSUBAYASHI, T ;

ZAITA, N ;

CHUNWONGSE, J ;

OBOKATA, J ;

YAMAGUCHISHINOZAKI, K ;

OHTO, C ;

TORAZAWA, K ;

MENG, BY ;

SUGITA, M ;

DENO, H ;

KAMOGASHIRA, T ;

YAMADA, K ;

KUSUDA, J ;

TAKAIWA, F ;

KATO, A ;

TOHDOH, N ;

SHIMADA, H ;

SUGIURA, M .

EMBO JOURNAL, 1986, 5 (09) :2043-2049

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