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VizPrimer: a web server for visualized PCR primer design based on known gene structure

Identifieur interne : 000C12 ( Main/Exploration ); précédent : 000C11; suivant : 000C13

VizPrimer: a web server for visualized PCR primer design based on known gene structure

Auteurs : YANG ZHOU [République populaire de Chine] ; WUBIN QU [République populaire de Chine] ; YIMING LU [République populaire de Chine] ; YANCHUN ZHANG [République populaire de Chine] ; XIAOLEI WANG [République populaire de Chine] ; DONGSHENG ZHAO [République populaire de Chine] ; YI YANG [République populaire de Chine] ; CHENGGANG ZHANG [République populaire de Chine]

Source :

RBID : Pascal:12-0030095

Descripteurs français

English descriptors

Abstract

Summary: The visualization of gene structure plays an important role in polymerase chain reaction (PCR) primer design, especially for eukaryotic genes with a number of splice variants that users need to distinguish between via PCR. Here, we describe a visualized web server for primer design named VizPrimer. It utilizes the new information technology (IT) tools, HTML5 to display gene structure and JavaScript to interact with the users. In VizPrimer, the users can focus their attention on the gene structure and primer design strategy, without wasting time calculating the exon positions of splice variants or manually configuring complicated parameters. In addition, VizPrimer is also suitable for the design of PCR primers for amplifying open reading frames and detecting single nucleotide polymorphisms (SNPs). Availability: VizPrimer is freely available at http://biocompute.bmi.ac .cn/CZlab/VizPrimer/. The web server supported browsers: Chrome (>5.0), Firefox (>3.0), Safari (>4.0) and Opera (>10.0). Contact: zhangcg@bmi.ac.cn; yangyi528@vip.sina.com.


Affiliations:


Links toward previous steps (curation, corpus...)


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<div type="abstract" xml:lang="en">Summary: The visualization of gene structure plays an important role in polymerase chain reaction (PCR) primer design, especially for eukaryotic genes with a number of splice variants that users need to distinguish between via PCR. Here, we describe a visualized web server for primer design named VizPrimer. It utilizes the new information technology (IT) tools, HTML5 to display gene structure and JavaScript to interact with the users. In VizPrimer, the users can focus their attention on the gene structure and primer design strategy, without wasting time calculating the exon positions of splice variants or manually configuring complicated parameters. In addition, VizPrimer is also suitable for the design of PCR primers for amplifying open reading frames and detecting single nucleotide polymorphisms (SNPs). Availability: VizPrimer is freely available at http://biocompute.bmi.ac .cn/CZlab/VizPrimer/. The web server supported browsers: Chrome (>5.0), Firefox (>3.0), Safari (>4.0) and Opera (>10.0). Contact: zhangcg@bmi.ac.cn; yangyi528@vip.sina.com.</div>
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