Display options
Cite
Pai TW, Chen CM, Hsiao MC, et al. An online conserved SSR discovery through cross-species comparison. Adv Appl Bioinform Chem. 2009;2:23-35doi: 10.2147/aabc.s4744.
Pai, T. W., Chen, C. M., Hsiao, M. C., Cheng, R., Tzou, W. S., & Hu, C. H. (2009). An online conserved SSR discovery through cross-species comparison. Advances and applications in bioinformatics and chemistry : AABC, 223-35. https://doi.org/10.2147/aabc.s4744
Pai, Tun-Wen, et al. "An online conserved SSR discovery through cross-species comparison." Advances and applications in bioinformatics and chemistry : AABC vol. 2 (2009): 23-35. doi: https://doi.org/10.2147/aabc.s4744
Pai TW, Chen CM, Hsiao MC, Cheng R, Tzou WS, Hu CH. An online conserved SSR discovery through cross-species comparison. Adv Appl Bioinform Chem. 2009;2:23-35. doi: 10.2147/aabc.s4744. Epub 2009 Feb 08. PMID: 21918613; PMCID: PMC3169944.
Copy Download .nbib Format: NLM
Share it on

Adv Appl Bioinform Chem. 2009;2:23-35. doi: 10.2147/aabc.s4744. Epub 2009 Feb 08.

An online conserved SSR discovery through cross-species comparison.

Advances and applications in bioinformatics and chemistry : AABC

Tun-Wen Pai, Chien-Ming Chen, Meng-Chang Hsiao, Ronshan Cheng, Wen-Shyong Tzou, Chin-Hua Hu

Affiliations

  1. Department of Computer Science and Engineering, National Taiwan Ocean University, Keelung, Taiwan, Republic of China.

PMID: 21918613 PMCID: PMC3169944 DOI: 10.2147/aabc.s4744

Abstract

Simple sequence repeats (SSRs) play important roles in gene regulation and genome evolution. Although there exist several online resources for SSR mining, most of them only extract general SSR patterns without providing functional information. Here, an online search tool, CG-SSR (Comparative Genomics SSR discovery), has been developed for discovering potential functional SSRs from vertebrate genomes through cross-species comparison. In addition to revealing SSR candidates in conserved regions among various species, it also combines accurate coordinate and functional genomics information. CG-SSR is the first comprehensive and efficient online tool for conserved SSR discovery.

Keywords: comparative genomics; conserved region; functional SSR; gene ontology; genome; microsatellites

References

  1. J Biol Chem. 1998 Jun 5;273(23):14588-95 - PubMed
  2. Nat Genet. 2000 Oct;26(2):191-4 - PubMed
  3. Exp Anim. 2004 Apr;53(2):151-4 - PubMed
  4. Science. 1995 Jun 2;268(5215):1336-8 - PubMed
  5. Mol Biol Evol. 2004 Jun;21(6):991-1007 - PubMed
  6. Curr Opin Genet Dev. 2002 Jun;12(3):266-71 - PubMed
  7. Psychiatry Res. 1998 Aug 17;80(2):113-27 - PubMed
  8. J Biol Chem. 2001 Jul 20;276(29):27171-7 - PubMed
  9. Cancer Res. 2003 Mar 15;63(6):1172-8 - PubMed
  10. Nat Genet. 1998 Feb;18(2):164-7 - PubMed
  11. Nucleic Acids Res. 2006 Jan 1;34(Database issue):D247-51 - PubMed
  12. Cerebellum. 2005;4(1):2-6 - PubMed
  13. Nucleic Acids Res. 2007 Jan;35(Database issue):D224-8 - PubMed
  14. Nat Rev Genet. 2008 Apr;9(4):303-13 - PubMed
  15. Nature. 1994 Sep 15;371(6494):215-20 - PubMed
  16. Genome Biol. 2002;3(12):PREPRINT0011 - PubMed
  17. Biochim Biophys Acta. 1998 Jul 9;1398(3):315-20 - PubMed
  18. Int J Cancer. 2000 Apr 15;86(2):262-8 - PubMed
  19. BMC Bioinformatics. 2005 Jun 10;6:145 - PubMed
  20. Trends Neurosci. 2008 Jul;31(7):328-34 - PubMed
  21. Nat Genet. 2000 May;25(1):25-9 - PubMed
  22. Nucleic Acids Res. 2008 Jan;36(Database issue):D773-9 - PubMed
  23. Annu Rev Neurosci. 2000;23:217-47 - PubMed
  24. BMC Genomics. 2007 Jul 10;8:225 - PubMed
  25. Hum Mol Genet. 2001 Jul 1;10(14):1449-54 - PubMed
  26. J Natl Cancer Inst. 2001 Nov 7;93(21):1644-51 - PubMed
  27. Hepatology. 2002 Jul;36(1):156-63 - PubMed
  28. Comp Funct Genomics. 2003;4(3):342-5 - PubMed
  29. Hum Mol Genet. 2001 Jul 1;10(14):1441-8 - PubMed
  30. Nucleic Acids Res. 2008 Jan;36(Database issue):D707-14 - PubMed
  31. Annu Rev Genomics Hum Genet. 2000;1:281-328 - PubMed
  32. Trends Genet. 2006 May;22(5):253-9 - PubMed

Publication Types