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PrimerZ: streamlined primer design for promoters, exons and human SNPs.

Publication ,  Journal Article
Tsai, M-F; Lin, Y-J; Cheng, Y-C; Lee, K-H; Huang, C-C; Chen, Y-T; Yao, A
Published in: Nucleic Acids Res
July 2007

PrimerZ (http://genepipe.ngc.sinica.edu.tw/primerz/) is a web application dedicated primarily to primer design for genes and human SNPs. PrimerZ accepts genes by gene name or Ensembl accession code, and SNPs by dbSNP rs or AFFY_Probe IDs. The promoter and exon sequence information of all gene transcripts fetched from the Ensembl database (http://www.ensembl.org) are processed before being passed on to Primer3 (http://frodo.wi.mit.edu/cgi-bin/primer3/primer3_www.cgi) for individual primer design. All results returned from Primer 3 are organized and integrated in a specially designed web page for easy browsing. Besides the web page presentation, csv text file export is also provided for enhanced user convenience. PrimerZ automates highly standard but tedious gene primer design to improve the success rate of PCR experiments. More than 2000 primers have been designed with PrimerZ at our institute since 2004 and the success rate is over 70%. The addition of several new features has made PrimerZ even more useful to the research community in facilitating primer design for promoters, exons and SNPs.

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Published In

Nucleic Acids Res

DOI

EISSN

1362-4962

Publication Date

July 2007

Volume

35

Issue

Web Server issue

Start / End Page

W63 / W65

Location

England

Related Subject Headings

  • Software
  • RNA, Messenger
  • Promoter Regions, Genetic
  • Polymorphism, Single Nucleotide
  • Polymerase Chain Reaction
  • Humans
  • Genetic Techniques
  • Exons
  • Developmental Biology
  • Databases, Genetic
 

Citation

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Tsai, M.-F., Lin, Y.-J., Cheng, Y.-C., Lee, K.-H., Huang, C.-C., Chen, Y.-T., & Yao, A. (2007). PrimerZ: streamlined primer design for promoters, exons and human SNPs. Nucleic Acids Res, 35(Web Server issue), W63–W65. https://doi.org/10.1093/nar/gkm383
Tsai, Ming-Fang, Yi-Jung Lin, Yu-Chang Cheng, Kuo-Hsi Lee, Cheng-Chih Huang, Yuan-Tsong Chen, and Adam Yao. “PrimerZ: streamlined primer design for promoters, exons and human SNPs.Nucleic Acids Res 35, no. Web Server issue (July 2007): W63–65. https://doi.org/10.1093/nar/gkm383.
Tsai M-F, Lin Y-J, Cheng Y-C, Lee K-H, Huang C-C, Chen Y-T, et al. PrimerZ: streamlined primer design for promoters, exons and human SNPs. Nucleic Acids Res. 2007 Jul;35(Web Server issue):W63–5.
Tsai, Ming-Fang, et al. “PrimerZ: streamlined primer design for promoters, exons and human SNPs.Nucleic Acids Res, vol. 35, no. Web Server issue, July 2007, pp. W63–65. Pubmed, doi:10.1093/nar/gkm383.
Tsai M-F, Lin Y-J, Cheng Y-C, Lee K-H, Huang C-C, Chen Y-T, Yao A. PrimerZ: streamlined primer design for promoters, exons and human SNPs. Nucleic Acids Res. 2007 Jul;35(Web Server issue):W63–W65.
Journal cover image

Published In

Nucleic Acids Res

DOI

EISSN

1362-4962

Publication Date

July 2007

Volume

35

Issue

Web Server issue

Start / End Page

W63 / W65

Location

England

Related Subject Headings

  • Software
  • RNA, Messenger
  • Promoter Regions, Genetic
  • Polymorphism, Single Nucleotide
  • Polymerase Chain Reaction
  • Humans
  • Genetic Techniques
  • Exons
  • Developmental Biology
  • Databases, Genetic