198 related articles for article (PubMed ID: 37200156)
1. WMSA 2: a multiple DNA/RNA sequence alignment tool implemented with accurate progressive mode and a fast win-win mode combining the center star and progressive strategies.
Chen J; Chao J; Liu H; Yang F; Zou Q; Tang F
Brief Bioinform; 2023 Jul; 24(4):. PubMed ID: 37200156
[TBL] [Abstract][Full Text] [Related]
2. WMSA: a novel method for multiple sequence alignment of DNA sequences.
Wei Y; Zou Q; Tang F; Yu L
Bioinformatics; 2022 Nov; 38(22):5019-5025. PubMed ID: 36179076
[TBL] [Abstract][Full Text] [Related]
3. HAlign 3: Fast Multiple Alignment of Ultra-Large Numbers of Similar DNA/RNA Sequences.
Tang F; Chao J; Wei Y; Yang F; Zhai Y; Xu L; Zou Q
Mol Biol Evol; 2022 Aug; 39(8):. PubMed ID: 35915051
[TBL] [Abstract][Full Text] [Related]
4. TPMA: A two pointers meta-alignment tool to ensemble different multiple nucleic acid sequence alignments.
Zhai Y; Chao J; Wang Y; Zhang P; Tang F; Zou Q
PLoS Comput Biol; 2024 Apr; 20(4):e1011988. PubMed ID: 38557416
[TBL] [Abstract][Full Text] [Related]
5. An alignment-free heuristic for fast sequence comparisons with applications to phylogeny reconstruction.
Chockalingam SP; Pannu J; Hooshmand S; Thankachan SV; Aluru S
BMC Bioinformatics; 2020 Nov; 21(Suppl 6):404. PubMed ID: 33203364
[TBL] [Abstract][Full Text] [Related]
6. CMSA: a heterogeneous CPU/GPU computing system for multiple similar RNA/DNA sequence alignment.
Chen X; Wang C; Tang S; Yu C; Zou Q
BMC Bioinformatics; 2017 Jun; 18(1):315. PubMed ID: 28646874
[TBL] [Abstract][Full Text] [Related]
7. SATe-II: very fast and accurate simultaneous estimation of multiple sequence alignments and phylogenetic trees.
Liu K; Warnow TJ; Holder MT; Nelesen SM; Yu J; Stamatakis AP; Linder CR
Syst Biol; 2012 Jan; 61(1):90-106. PubMed ID: 22139466
[TBL] [Abstract][Full Text] [Related]
8. On the quality of tree-based protein classification.
Lazareva-Ulitsky B; Diemer K; Thomas PD
Bioinformatics; 2005 May; 21(9):1876-90. PubMed ID: 15647305
[TBL] [Abstract][Full Text] [Related]
9. kmer2vec: A Novel Method for Comparing DNA Sequences by word2vec Embedding.
Ren R; Yin C; S-T Yau S
J Comput Biol; 2022 Sep; 29(9):1001-1021. PubMed ID: 35593919
[TBL] [Abstract][Full Text] [Related]
10. The effect of the guide tree on multiple sequence alignments and subsequent phylogenetic analyses.
Nelesen S; Liu K; Zhao D; Linder CR; Warnow T
Pac Symp Biocomput; 2008; ():25-36. PubMed ID: 18229674
[TBL] [Abstract][Full Text] [Related]
11. FMAlign2: a novel fast multiple nucleotide sequence alignment method for ultralong datasets.
Zhang P; Liu H; Wei Y; Zhai Y; Tian Q; Zou Q
Bioinformatics; 2024 Jan; 40(1):. PubMed ID: 38200554
[TBL] [Abstract][Full Text] [Related]
12. PnpProbs: a better multiple sequence alignment tool by better handling of guide trees.
Ye Y; Lam TW; Ting HF
BMC Bioinformatics; 2016 Aug; 17 Suppl 8(Suppl 8):285. PubMed ID: 27585754
[TBL] [Abstract][Full Text] [Related]
13. Ancestral sequence alignment under optimal conditions.
Hudek AK; Brown DG
BMC Bioinformatics; 2005 Nov; 6():273. PubMed ID: 16293191
[TBL] [Abstract][Full Text] [Related]
14. Simultaneous phylogeny reconstruction and multiple sequence alignment.
Yue F; Shi J; Tang J
BMC Bioinformatics; 2009 Jan; 10 Suppl 1(Suppl 1):S11. PubMed ID: 19208110
[TBL] [Abstract][Full Text] [Related]
15. PartTree: an algorithm to build an approximate tree from a large number of unaligned sequences.
Katoh K; Toh H
Bioinformatics; 2007 Feb; 23(3):372-4. PubMed ID: 17118958
[TBL] [Abstract][Full Text] [Related]
16. DNACLUST: accurate and efficient clustering of phylogenetic marker genes.
Ghodsi M; Liu B; Pop M
BMC Bioinformatics; 2011 Jun; 12():271. PubMed ID: 21718538
[TBL] [Abstract][Full Text] [Related]
17. Multiple Sequence Alignment Based on a Suffix Tree and Center-Star Strategy: A Linear Method for Multiple Nucleotide Sequence Alignment on Spark Parallel Framework.
Su W; Liao X; Lu Y; Zou Q; Peng S
J Comput Biol; 2017 Dec; 24(12):1230-1242. PubMed ID: 29116822
[TBL] [Abstract][Full Text] [Related]
18. ProbPFP: a multiple sequence alignment algorithm combining hidden Markov model optimized by particle swarm optimization with partition function.
Zhan Q; Wang N; Jin S; Tan R; Jiang Q; Wang Y
BMC Bioinformatics; 2019 Nov; 20(Suppl 18):573. PubMed ID: 31760933
[TBL] [Abstract][Full Text] [Related]
19. Using CLUSTAL for multiple sequence alignments.
Higgins DG; Thompson JD; Gibson TJ
Methods Enzymol; 1996; 266():383-402. PubMed ID: 8743695
[TBL] [Abstract][Full Text] [Related]
20. SPARK-MSNA: Efficient algorithm on Apache Spark for aligning multiple similar DNA/RNA sequences with supervised learning.
Vineetha V; Biji CL; Nair AS
Sci Rep; 2019 Apr; 9(1):6631. PubMed ID: 31036850
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
