ParaAT: A parallel tool for constructing multiple protein-coding DNA alignments

Zhang Zhang*, Jingfa Xiao, Jiayan Wu, Haiyan Zhang, Guiming Liu, Xumin Wang, Lin Dai

*Corresponding author for this work

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Abstract

Constructing multiple homologous alignments for protein-coding DNA sequences is crucial for a variety of bioinformatic analyses but remains computationally challenging. With the growing amount of sequence data available and the ongoing efforts largely dependent on protein-coding DNA alignments, there is an increasing demand for a tool that can process a large number of homologous groups and generate multiple protein-coding DNA alignments. Here we present a parallel tool - ParaAT that is capable of parallelly constructing multiple protein-coding DNA alignments for a large number of homologs. As testified on empirical datasets, ParaAT is well suited for large-scale data analysis in the high-throughput era, providing good scalability and exhibiting high parallel efficiency for computationally demanding tasks. ParaAT is freely available for academic use only at http://cbb.big.ac.cn/software.

Original languageEnglish
Pages (from-to)779-781
Number of pages3
JournalBiochemical and Biophysical Research Communications
Volume419
Issue number4
DOIs
Publication statusPublished - 23 Mar 2012

Keywords

  • Alignment
  • Back-translation
  • Homolog
  • Parallel
  • Protein-coding DNA alignment

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Zhang, Z., Xiao, J., Wu, J., Zhang, H., Liu, G., Wang, X., & Dai, L. (2012). ParaAT: A parallel tool for constructing multiple protein-coding DNA alignments. Biochemical and Biophysical Research Communications, 419(4), 779-781. https://doi.org/10.1016/j.bbrc.2012.02.101