相似文献
1
Simple chained guide trees give poorer multiple sequence alignments than inferred trees in simulation and phylogenetic benchmarks.在模拟和系统发育基准测试中，简单的链式引导树给出的多序列比对结果比推断树的结果更差。
Proc Natl Acad Sci U S A. 2015 Jan 13;112(2):E99-100. doi: 10.1073/pnas.1417526112. Epub 2015 Jan 6.
2
Simple chained guide trees give high-quality protein multiple sequence alignments.简单的链式引导树可生成高质量的蛋白质多重序列比对。
Proc Natl Acad Sci U S A. 2014 Jul 22;111(29):10556-61. doi: 10.1073/pnas.1405628111. Epub 2014 Jul 7.
3
Systematic exploration of guide-tree topology effects for small protein alignments.系统探索引导树拓扑结构效应对小蛋白比对的影响。
BMC Bioinformatics. 2014 Oct 4;15(1):338. doi: 10.1186/1471-2105-15-338.
4
Multiple Alignment of protein structures and sequences for VMD.用于VMD的蛋白质结构和序列的多序列比对。
Bioinformatics. 2006 Feb 15;22(4):504-6. doi: 10.1093/bioinformatics/bti825. Epub 2005 Dec 8.
5
SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees.SATe-II：一种非常快速且准确的同时估计多个序列比对和系统发育树的方法。
Syst Biol. 2012 Jan;61(1):90-106. doi: 10.1093/sysbio/syr095. Epub 2011 Dec 1.
6
On the quality of tree-based protein classification.论基于树的蛋白质分类的质量。
Bioinformatics. 2005 May 1;21(9):1876-90. doi: 10.1093/bioinformatics/bti244. Epub 2005 Jan 12.
7
A method of alignment masking for refining the phylogenetic signal of multiple sequence alignments.一种对齐掩蔽方法，用于细化多重序列比对的系统发育信号。
Mol Biol Evol. 2013 Mar;30(3):689-712. doi: 10.1093/molbev/mss264. Epub 2012 Nov 27.
8
GLProbs: Aligning Multiple Sequences Adaptively.GL问题：自适应多序列比对
IEEE/ACM Trans Comput Biol Bioinform. 2015 Jan-Feb;12(1):67-78. doi: 10.1109/TCBB.2014.2316820.
9
Reply to Tan et al.: Differences between real and simulated proteins in multiple sequence alignments.对Tan等人的回复：多序列比对中真实蛋白质与模拟蛋白质之间的差异。
Proc Natl Acad Sci U S A. 2015 Jan 13;112(2):E101. doi: 10.1073/pnas.1419351112. Epub 2015 Jan 6.
10
OXBench: a benchmark for evaluation of protein multiple sequence alignment accuracy.OXBench：一种用于评估蛋白质多序列比对准确性的基准。
BMC Bioinformatics. 2003 Oct 10;4:47. doi: 10.1186/1471-2105-4-47.
引用本文的文献
1
Developments in Algorithms for Sequence Alignment: A Review.序列比对算法的发展：综述。
Biomolecules. 2022 Apr 6;12(4):546. doi: 10.3390/biom12040546.
2
ProPIP: a tool for progressive multiple sequence alignment with Poisson Indel Process.ProPIP：一种基于泊松分布插入缺失模型的渐进式多序列比对工具。
BMC Bioinformatics. 2021 Oct 24;22(1):518. doi: 10.1186/s12859-021-04442-8.
3
The Cumulative Indel Model: Fast and Accurate Statistical Evolutionary Alignment.累积插入缺失模型：快速准确的统计进化比对。
Syst Biol. 2021 Feb 10;70(2):236-257. doi: 10.1093/sysbio/syaa050.
4
Systematic benchmarking of omics computational tools.系统生物学计算工具的基准测试。
Nat Commun. 2019 Mar 27;10(1):1393. doi: 10.1038/s41467-019-09406-4.
5
Progressive multiple sequence alignment with indel evolution.渐进式空位进化多序列比对。
BMC Bioinformatics. 2018 Sep 21;19(1):331. doi: 10.1186/s12859-018-2357-1.
6
Alignment Modulates Ancestral Sequence Reconstruction Accuracy.比对方式调节祖先序列重建准确性。
Mol Biol Evol. 2018 Jul 1;35(7):1783-1797. doi: 10.1093/molbev/msy055.
7
MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization.MAFFT 在线服务：多序列比对、交互式序列选择和可视化。
Brief Bioinform. 2019 Jul 19;20(4):1160-1166. doi: 10.1093/bib/bbx108.
8
QuickProbs 2: Towards rapid construction of high-quality alignments of large protein families.QuickProbs 2：快速构建高质量的大型蛋白质家族序列比对
Sci Rep. 2017 Jan 31;7:41553. doi: 10.1038/srep41553.
9
Protein multiple sequence alignment benchmarking through secondary structure prediction.通过二级结构预测进行蛋白质多序列比对基准测试。
Bioinformatics. 2017 May 1;33(9):1331-1337. doi: 10.1093/bioinformatics/btw840.
10
FAMSA: Fast and accurate multiple sequence alignment of huge protein families.FAMSA：超大型蛋白质家族的快速准确多序列比对
Sci Rep. 2016 Sep 27;6:33964. doi: 10.1038/srep33964.
本文引用的文献
1
Simple chained guide trees give high-quality protein multiple sequence alignments.简单的链式引导树可生成高质量的蛋白质多重序列比对。
Proc Natl Acad Sci U S A. 2014 Jul 22;111(29):10556-61. doi: 10.1073/pnas.1405628111. Epub 2014 Jul 7.
2
Who watches the watchmen? An appraisal of benchmarks for multiple sequence alignment.谁来监督监督者？多重序列比对基准的评估。
Methods Mol Biol. 2014;1079:59-73. doi: 10.1007/978-1-62703-646-7_4.
3
ALF--a simulation framework for genome evolution.ALF--一个用于基因组进化的模拟框架。
Mol Biol Evol. 2012 Apr;29(4):1115-23. doi: 10.1093/molbev/msr268. Epub 2011 Dec 8.
4
Phylogenetic assessment of alignments reveals neglected tree signal in gaps.系统发育评估揭示了空位中被忽视的树信号。
Genome Biol. 2010;11(4):R37. doi: 10.1186/gb-2010-11-4-r37. Epub 2010 Apr 6.
5
Phylogeny-aware gap placement prevents errors in sequence alignment and evolutionary analysis.系统发育感知缺口放置可防止序列比对和进化分析中的错误。
Science. 2008 Jun 20;320(5883):1632-5. doi: 10.1126/science.1158395.
Zotero 插件