These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.
3. New flexible approaches for multiple sequence alignment. Shibuya T; Imai H J Comput Biol; 1997; 4(3):385-413. PubMed ID: 9278067 [TBL] [Abstract][Full Text] [Related]
4. In search for more accurate alignments in the twilight zone. Jaroszewski L; Li W; Godzik A Protein Sci; 2002 Jul; 11(7):1702-13. PubMed ID: 12070323 [TBL] [Abstract][Full Text] [Related]
6. Number of distinct sequence alignments with k-match and match sections. Liu X; Yang X; Wang C; Yao Y; Dai Q Comput Biol Med; 2015 Aug; 63():287-92. PubMed ID: 25791335 [TBL] [Abstract][Full Text] [Related]
7. Significant improvement in accuracy of multiple protein sequence alignments by iterative refinement as assessed by reference to structural alignments. Gotoh O J Mol Biol; 1996 Dec; 264(4):823-38. PubMed ID: 8980688 [TBL] [Abstract][Full Text] [Related]
8. Probabilistic description of protein alignments for sequences and structures. Koike R; Kinoshita K; Kidera A Proteins; 2004 Jul; 56(1):157-66. PubMed ID: 15162495 [TBL] [Abstract][Full Text] [Related]
10. Aligning protein sequences with predicted secondary structure. Kececioglu J; Kim E; Wheeler T J Comput Biol; 2010 Mar; 17(3):561-80. PubMed ID: 20377464 [TBL] [Abstract][Full Text] [Related]
11. A configuration space of homologous proteins conserving mutual information and allowing a phylogeny inference based on pair-wise Z-score probabilities. Bastien O; Ortet P; Roy S; Maréchal E BMC Bioinformatics; 2005 Mar; 6():49. PubMed ID: 15757521 [TBL] [Abstract][Full Text] [Related]
12. OXBench: a benchmark for evaluation of protein multiple sequence alignment accuracy. Raghava GP; Searle SM; Audley PC; Barber JD; Barton GJ BMC Bioinformatics; 2003 Oct; 4():47. PubMed ID: 14552658 [TBL] [Abstract][Full Text] [Related]
13. A simple method to generate non-trivial alternate alignments of protein sequences. Saqi MA; Sternberg MJ J Mol Biol; 1991 Jun; 219(4):727-32. PubMed ID: 1905360 [TBL] [Abstract][Full Text] [Related]
14. [Increasing the accuracy of the global alignment of amino acid sequences by constructing a set of alignment candidates]. Iakovlev VV; Roĭtberg MA Biofizika; 2010; 55(6):965-75. PubMed ID: 21268338 [TBL] [Abstract][Full Text] [Related]
15. 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]
17. Multiple sequence alignment with affine gap by using multi-objective genetic algorithm. Kaya M; Sarhan A; Alhajj R Comput Methods Programs Biomed; 2014 Apr; 114(1):38-49. PubMed ID: 24534604 [TBL] [Abstract][Full Text] [Related]
18. An integrated approach to the analysis and modeling of protein sequences and structures. III. A comparative study of sequence conservation in protein structural families using multiple structural alignments. Yang AS; Honig B J Mol Biol; 2000 Aug; 301(3):691-711. PubMed ID: 10966778 [TBL] [Abstract][Full Text] [Related]
19. Multiple sequence threading: an analysis of alignment quality and stability. Taylor WR J Mol Biol; 1997 Jun; 269(5):902-43. PubMed ID: 9223650 [TBL] [Abstract][Full Text] [Related]
20. From analysis of protein structural alignments toward a novel approach to align protein sequences. Sunyaev SR; Bogopolsky GA; Oleynikova NV; Vlasov PK; Finkelstein AV; Roytberg MA Proteins; 2004 Feb; 54(3):569-82. PubMed ID: 14748004 [TBL] [Abstract][Full Text] [Related] [Next] [New Search]