271 related articles for article (PubMed ID: 23469223)
1. Alignment of helical membrane protein sequences using AlignMe.
Stamm M; Staritzbichler R; Khafizov K; Forrest LR
PLoS One; 2013; 8(3):e57731. PubMed ID: 23469223
[TBL] [Abstract][Full Text] [Related]
2. AlignMe--a membrane protein sequence alignment web server.
Stamm M; Staritzbichler R; Khafizov K; Forrest LR
Nucleic Acids Res; 2014 Jul; 42(Web Server issue):W246-51. PubMed ID: 24753425
[TBL] [Abstract][Full Text] [Related]
3. Refining pairwise sequence alignments of membrane proteins by the incorporation of anchors.
Staritzbichler R; Sarti E; Yaklich E; Aleksandrova A; Stamm M; Khafizov K; Forrest LR
PLoS One; 2021; 16(4):e0239881. PubMed ID: 33930031
[TBL] [Abstract][Full Text] [Related]
4. AlignMe: an update of the web server for alignment of membrane protein sequences.
Staritzbichler R; Yaklich E; Sarti E; Ristic N; Hildebrand PW; Forrest LR
Nucleic Acids Res; 2022 Jul; 50(W1):W29-W35. PubMed ID: 35609986
[TBL] [Abstract][Full Text] [Related]
5. Iterative sequence/secondary structure search for protein homologs: comparison with amino acid sequence alignments and application to fold recognition in genome databases.
Wallqvist A; Fukunishi Y; Murphy LR; Fadel A; Levy RM
Bioinformatics; 2000 Nov; 16(11):988-1002. PubMed ID: 11159310
[TBL] [Abstract][Full Text] [Related]
6. High quality protein sequence alignment by combining structural profile prediction and profile alignment using SABER-TOOTH.
Teichert F; Minning J; Bastolla U; Porto M
BMC Bioinformatics; 2010 May; 11():251. PubMed ID: 20470364
[TBL] [Abstract][Full Text] [Related]
7. DECIPHER: harnessing local sequence context to improve protein multiple sequence alignment.
Wright ES
BMC Bioinformatics; 2015 Oct; 16():322. PubMed ID: 26445311
[TBL] [Abstract][Full Text] [Related]
8. AlignHUSH: alignment of HMMs using structure and hydrophobicity information.
Krishnadev O; Srinivasan N
BMC Bioinformatics; 2011 Jul; 12():275. PubMed ID: 21729312
[TBL] [Abstract][Full Text] [Related]
9. Improved pairwise alignments of proteins in the Twilight Zone using local structure predictions.
Huang YM; Bystroff C
Bioinformatics; 2006 Feb; 22(4):413-22. PubMed ID: 16352653
[TBL] [Abstract][Full Text] [Related]
10. 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]
11. Robust sequence alignment using evolutionary rates coupled with an amino acid substitution matrix.
Ndhlovu A; Hazelhurst S; Durand PM
BMC Bioinformatics; 2015 Aug; 16():255. PubMed ID: 26269100
[TBL] [Abstract][Full Text] [Related]
12. Optimizing substitution matrix choice and gap parameters for sequence alignment.
Edgar RC
BMC Bioinformatics; 2009 Dec; 10():396. PubMed ID: 19954534
[TBL] [Abstract][Full Text] [Related]
13. Improving pairwise sequence alignment between distantly related proteins.
Feng JA
Methods Mol Biol; 2007; 395():255-68. PubMed ID: 17993679
[TBL] [Abstract][Full Text] [Related]
14. Structure alignment of membrane proteins: Accuracy of available tools and a consensus strategy.
Stamm M; Forrest LR
Proteins; 2015 Sep; 83(9):1720-32. PubMed ID: 26178143
[TBL] [Abstract][Full Text] [Related]
15. SSALN: an alignment algorithm using structure-dependent substitution matrices and gap penalties learned from structurally aligned protein pairs.
Qiu J; Elber R
Proteins; 2006 Mar; 62(4):881-91. PubMed ID: 16385554
[TBL] [Abstract][Full Text] [Related]
16. Accuracy of structure-based sequence alignment of automatic methods.
Kim C; Lee B
BMC Bioinformatics; 2007 Sep; 8():355. PubMed ID: 17883866
[TBL] [Abstract][Full Text] [Related]
17. Improving the alignment quality of consistency based aligners with an evaluation function using synonymous protein words.
Lin HN; Notredame C; Chang JM; Sung TY; Hsu WL
PLoS One; 2011; 6(12):e27872. PubMed ID: 22163274
[TBL] [Abstract][Full Text] [Related]
18. 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]
19. PROMALS: towards accurate multiple sequence alignments of distantly related proteins.
Pei J; Grishin NV
Bioinformatics; 2007 Apr; 23(7):802-8. PubMed ID: 17267437
[TBL] [Abstract][Full Text] [Related]
20. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice.
Thompson JD; Higgins DG; Gibson TJ
Nucleic Acids Res; 1994 Nov; 22(22):4673-80. PubMed ID: 7984417
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]
