title: ParaAT: a parallel tool for constructing multiple protein-coding DNA alignments.
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.
authors.affiliation: CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics, Chinese Academy of Sciences, Beijing 100029, China. zhangzhang@big.ac.cn
authors.forename: Zhang
authors.initials: Z
authors.lastname: Zhang
authors.forename: Jingfa
authors.initials: J
authors.lastname: Xiao
authors.forename: Jiayan
authors.initials: J
authors.lastname: Wu
authors.forename: Haiyan
authors.initials: H
authors.lastname: Zhang
authors.forename: Guiming
authors.initials: G
authors.lastname: Liu
authors.forename: Xumin
authors.initials: X
authors.lastname: Wang
authors.forename: Lin
authors.initials: L
authors.lastname: Dai
mesh_terms: D000818:Animals; D006801:Humans; D051379:Mice; D002679:Pan troglodytes; D011506:Proteins / Q000235:genetics*; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
chemical_list: D011506:Proteins