A web server for interactive and zoomable Chaos Game Representation images

Source Code for Biology and Medicine

Volumn 4, Issue , 2009, Pages 6-

  Arakawa, Kazuharu ^a   Oshita, Kazuki ^a   Tomita, Masaru ^a  

^a KEIO UNIVERSITY   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 70449396756     PISSN: None     EISSN: 17510473     Source Type: Journal    
DOI: 10.1186/1751-0473-4-6     Document Type: Article

References (20)

1. Karlin S, Mrazek J, Campbell AM. Compositional biases of bacterial genomes and evolutionary implications. J Bacteriol 1997, 179(12):3899-3913. 179198, 9190805.
2. Karlin S, Burge C. Dinucleotide relative abundance extremes: a genomic signature. Trends Genet 1995, 11(7):283-290. 10.1016/S0168-9525(00)89076-9, 7482779.
3. Karlin S, Campbell AM, Mrazek J. Comparative DNA analysis across diverse genomes. Annu Rev Genet 1998, 32:185-225. 10.1146/annurev.genet.32.1.185, 9928479.
4. Jeffrey HJ. Chaos game representation of gene structure. Nucleic Acids Res 1990, 18(8):2163-2170. 10.1093/nar/18.8.2163, 330698, 2336393.
5. Almeida JS, Carrico JA, Maretzek A, Noble PA, Fletcher M. Analysis of genomic sequences by Chaos Game Representation. Bioinformatics 2001, 17(5):429-437. 10.1093/bioinformatics/17.5.429, 11331237.
6. Almeida JS, Vinga S. Universal sequence map (USM) of arbitrary discrete sequences. BMC Bioinformatics 2002, 3:6. 10.1186/1471-2105-3-6, 90187, 11895567.
7. Almeida JS, Vinga S. Computing distribution of scale independent motifs in biological sequences. Algorithms Mol Biol 2006, 1:18. 10.1186/1748-7188-1-18, 1630425, 17049089.
8. Almeida JS, Vinga S. Biological sequences as pictures: a generic two dimensional solution for iterated maps. BMC Bioinformatics 2009, 10:100. 10.1186/1471-2105-10-100, 2678093, 19335894.
9. Bikandi J, San Millan R, Rementeria A, Garaizar J. In silico analysis of complete bacterial genomes: PCR, AFLP-PCR and endonuclease restriction. Bioinformatics 2004, 20(5):798-799. 10.1093/bioinformatics/btg491, 14752001.
10. Rice P, Longden I, Bleasby A. EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet 2000, 16(6):276-277. 10.1016/S0168-9525(00)02024-2, 10827456.
11. Arakawa K, Tamaki S, Kono N, Kido N, Ikegami K, Ogawa R, Tomita M. Genome Projector: zoomable genome map with multiple views. BMC Bioinformatics 2009, 10:31. 10.1186/1471-2105-10-31, 2636772, 19166610.
12. Google Maps. , http://maps.google.com/
13. Google Maps API. , http://code.google.com/apis/maps/
14. Zhang Z, Cheung KH, Townsend JP. Bringing Web 2.0 to bioinformatics. Brief Bioinform 2008, 10:1-10. 10.1093/bib/bbn041, 18842678.
15. Arakawa K, Mori K, Ikeda K, Matsuzaki T, Kobayashi Y, Tomita M. G-language Genome Analysis Environment: a workbench for nucleotide sequence data mining. Bioinformatics 2003, 19(2):305-306. 10.1093/bioinformatics/19.2.305, 12538262.
16. Arakawa K, Suzuki H, Tomita M. Computational Genome Analysis Using The G-language System. Genes, Genomes and Genomics 2008, 2(1):1-13.
17. Arakawa K, Tomita M. G-language System as a platform for large-scale analysis of high-throughput omics data. Journal of Pesticide Science 2006, 31(3):282-288.
18. G-language REST Service. , http://rest.g-language.org/
19. CGR Web Server. , http://www.g-language.org/wiki/cgr/
20. Stockinger H, Attwood T, Chohan SN, Cote R, Cudre-Mauroux P, Falquet L, Fernandes P, Finn RD, Hupponen T, Korpelainen E. Experience using web services for biological sequence analysis. Brief Bioinform 2008, 9(6):493-505. 10.1093/bib/bbn029, 18621748.