QGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences.
QGRS Mapper: a web-based server for predicting G-quadruplexes in nucleotide sequences.
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DOI：
10.1093/nar/gkl253
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发表时间：
2006-07-01
影响因子：
14.9
通讯作者：
Bagga PS
中科院分区：
文献类型：
--
作者：
Kikin O;D'Antonio L;Bagga PS
富鸟嘌呤核酸序列所形成的四重结构近年来受到广泛关注，因为越来越多的证据表明它们在重要的生物过程中起着重要的作用，并可作为治疗靶点。g -四重体DNA被认为调节DNA复制并可能控制细胞增殖。能够在RNA中形成g -四联体的序列已被证明在哺乳动物转录本的聚腺苷化和剪接事件的调节中发挥重要作用。四重结构是否直接调控RNA加工还有待研究。研究g -四复体的计算方法允许对哺乳动物基因组进行详细分析。目前还没有已知的易于使用的用户友好的工具，可以计算核苷酸序列中的g -四重构象。我们开发了一个基于web的服务器，QGRS Mapper，用于预测核苷酸序列中四重体形成的富g序列（QGRS）。它是一个用户友好的应用程序，为定义和研究g -四联体提供了许多选项。它执行用户提供的基因组序列的分析，例如启动子和端粒区域，以及RNA序列。这对于预测寡核苷酸中的g -四重结构也很有用。该程序提供了从NCBI数据库中搜索和检索所需基因/核苷酸序列条目的选项，用于在RNA加工位点的背景下绘制g -四联体。这一特征对于研究g -四重体结构的功能相关性，特别是其通过选择性加工调节基因表达的作用非常有用。除了提供有关QGRS的组成和相对于mrna前序列加工位点的位置的数据外，QGRS Mapper还具有数据的交互式图形表示功能。用户还可以使用图形模块在单个屏幕上同时可视化一个基因的所有备选RNA产物之间的QGRS分布模式。QGRS Mapper可在以下网址访问。
The quadruplex structures formed by guanine-rich nucleic acid sequences have received significant attention recently because of growing evidence for their role in important biological processes and as therapeutic targets. G-quadruplex DNA has been suggested to regulate DNA replication and may control cellular proliferation. Sequences capable of forming G-quadruplexes in the RNA have been shown to play significant roles in regulation of polyadenylation and splicing events in mammalian transcripts. Whether quadruplex structure directly plays a role in regulating RNA processing requires investigation. Computational approaches to study G-quadruplexes allow detailed analysis of mammalian genomes. There are no known easily accessible user-friendly tools that can compute G-quadruplexes in the nucleotide sequences. We have developed a web-based server, QGRS Mapper, that predicts quadruplex forming G-rich sequences (QGRS) in nucleotide sequences. It is a user-friendly application that provides many options for defining and studying G-quadruplexes. It performs analysis of the user provided genomic sequences, e.g. promoter and telomeric regions, as well as RNA sequences. It is also useful for predicting G-quadruplex structures in oligonucleotides. The program provides options to search and retrieve desired gene/nucleotide sequence entries from NCBI databases for mapping G-quadruplexes in the context of RNA processing sites. This feature is very useful for investigating the functional relevance of G-quadruplex structure, in particular its role in regulating the gene expression by alternative processing. In addition to providing data on composition and locations of QGRS relative to the processing sites in the pre-mRNA sequence, QGRS Mapper features interactive graphic representation of the data. The user can also use the graphics module to visualize QGRS distribution patterns among all the alternative RNA products of a gene simultaneously on a single screen. QGRS Mapper can be accessed at .
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影响因子：
14.9
作者：
Arhin, GK;Boots, M;Wilusz, J
通讯作者：
Wilusz, J
影响因子：
4.8
作者：
Garneau, D;Revil, T;Chabot, B
通讯作者：
Chabot, B
影响因子：
2.9
作者：
Ladame, S;Schouten, JA;Roldan, J;Redman, JE;Neidle, S;Balasubramanian, S
通讯作者：
Balasubramanian, S
影响因子：
5.6
作者：
Oliver, AW;Bogdarina, I;Kneale, GG
通讯作者：
Kneale, GG
DOI：
10.1083/jcb.136.4.761
发表时间：
1997-02-24
期刊：
The Journal of cell biology
影响因子：
--
作者：
Bashkirov VI;Scherthan H;Solinger JA;Buerstedde JM;Heyer WD
通讯作者：
Heyer WD