TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations.
TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations.
复制标题
DOI：
10.1093/nar/gkq291
复制
发表时间：
2010-07
影响因子：
14.9
通讯作者：
Telford MJ
中科院分区：
文献类型：
--
作者：
Abascal F;Zardoya R;Telford MJ
我们提出了TranslatorX，一个Web服务器，旨在根据其相应的氨基酸翻译比对蛋白质编码核苷酸序列。生物序列（核酸和蛋白质）之间的许多比较涉及多重比对的构建。比对表示关于同源基因内的单个核苷酸或氨基酸之间的同源性的陈述。由于编码蛋白质的DNA序列作为核苷酸（密码子）的三联体进化，并且已知序列相似性在DNA上比在氨基酸水平上更快地降解，因此基于氨基酸的比对通常比基于其相应的核苷酸更准确。TranslatorX的新功能包括：（i）使用所有记录在案的遗传密码，并可能为每个序列分配不同的遗传密码;（ii）一组不同的多重比对程序;（iii）在可能的情况下翻译模糊的密码子;（iv）基于蛋白质信息用GBlocks进行核苷酸比对的创新标准;和（v）丰富的输出，包括比对的Jalview供电的图形可视化，根据相应氨基酸着色的基于密码子的比对，组成偏差的测量，第二和第三密码子位置特异性比对。TranslatorX服务器可在http://translatorx.co.uk免费获得。
We present TranslatorX, a web server designed to align protein-coding nucleotide sequences based on their corresponding amino acid translations. Many comparisons between biological sequences (nucleic acids and proteins) involve the construction of multiple alignments. Alignments represent a statement regarding the homology between individual nucleotides or amino acids within homologous genes. As protein-coding DNA sequences evolve as triplets of nucleotides (codons) and it is known that sequence similarity degrades more rapidly at the DNA than at the amino acid level, alignments are generally more accurate when based on amino acids than on their corresponding nucleotides. TranslatorX novelties include: (i) use of all documented genetic codes and the possibility of assigning different genetic codes for each sequence; (ii) a battery of different multiple alignment programs; (iii) translation of ambiguous codons when possible; (iv) an innovative criterion to clean nucleotide alignments with GBlocks based on protein information; and (v) a rich output, including Jalview-powered graphical visualization of the alignments, codon-based alignments coloured according to the corresponding amino acids, measures of compositional bias and first, second and third codon position specific alignments. The TranslatorX server is freely available at http://translatorx.co.uk.
登录
查看更多内容
影响因子：
10.7
作者：
Castresana, J
通讯作者：
Castresana, J
影响因子：
5.8
作者：
Posada, D;Crandall, KA
通讯作者：
Crandall, KA
影响因子：
3.9
作者：
Townsend, Jeffrey P.;Lopez-Giraldez, Francesc;Friedman, Robert
通讯作者：
Friedman, Robert
影响因子：
9.8
作者：
Abascal F;Posada D;Knight RD;Zardoya R
通讯作者：
Zardoya R
影响因子：
3
作者：
Bininda-Emonds OR
通讯作者：
Bininda-Emonds OR