215 related articles for article (PubMed ID: 18776193)
1. INTREPID--INformation-theoretic TREe traversal for Protein functional site IDentification.
Sankararaman S; Sjölander K
Bioinformatics; 2008 Nov; 24(21):2445-52. PubMed ID: 18776193
[TBL] [Abstract][Full Text] [Related]
2. INTREPID: a web server for prediction of functionally important residues by evolutionary analysis.
Sankararaman S; Kolaczkowski B; Sjölander K
Nucleic Acids Res; 2009 Jul; 37(Web Server issue):W390-5. PubMed ID: 19443452
[TBL] [Abstract][Full Text] [Related]
3. Active site prediction using evolutionary and structural information.
Sankararaman S; Sha F; Kirsch JF; Jordan MI; Sjölander K
Bioinformatics; 2010 Mar; 26(5):617-24. PubMed ID: 20080507
[TBL] [Abstract][Full Text] [Related]
4. The ConSurf-HSSP database: the mapping of evolutionary conservation among homologs onto PDB structures.
Glaser F; Rosenberg Y; Kessel A; Pupko T; Ben-Tal N
Proteins; 2005 Feb; 58(3):610-7. PubMed ID: 15614759
[TBL] [Abstract][Full Text] [Related]
5. Berkeley Phylogenomics Group web servers: resources for structural phylogenomic analysis.
Glanville JG; Kirshner D; Krishnamurthy N; Sjölander K
Nucleic Acids Res; 2007 Jul; 35(Web Server issue):W27-32. PubMed ID: 17488835
[TBL] [Abstract][Full Text] [Related]
6. Prediction of functional specificity determinants from protein sequences using log-likelihood ratios.
Pei J; Cai W; Kinch LN; Grishin NV
Bioinformatics; 2006 Jan; 22(2):164-71. PubMed ID: 16278237
[TBL] [Abstract][Full Text] [Related]
7. The choice of sequence homologs included in multiple sequence alignments has a dramatic impact on evolutionary conservation analysis.
Gil N; Fiser A
Bioinformatics; 2019 Jan; 35(1):12-19. PubMed ID: 29947739
[TBL] [Abstract][Full Text] [Related]
8. Predicting functionally important residues from sequence conservation.
Capra JA; Singh M
Bioinformatics; 2007 Aug; 23(15):1875-82. PubMed ID: 17519246
[TBL] [Abstract][Full Text] [Related]
9. Quantum coupled mutation finder: predicting functionally or structurally important sites in proteins using quantum Jensen-Shannon divergence and CUDA programming.
Gültas M; Düzgün G; Herzog S; Jäger SJ; Meckbach C; Wingender E; Waack S
BMC Bioinformatics; 2014 Apr; 15():96. PubMed ID: 24694117
[TBL] [Abstract][Full Text] [Related]
10. Structural descriptor database: a new tool for sequence-based functional site prediction.
Bernardes JS; Fernandez JH; Vasconcelos AT
BMC Bioinformatics; 2008 Nov; 9():492. PubMed ID: 19032768
[TBL] [Abstract][Full Text] [Related]
11. AL2CO: calculation of positional conservation in a protein sequence alignment.
Pei J; Grishin NV
Bioinformatics; 2001 Aug; 17(8):700-12. PubMed ID: 11524371
[TBL] [Abstract][Full Text] [Related]
12. Disentangling evolutionary signals: conservation, specificity determining positions and coevolution. Implication for catalytic residue prediction.
Teppa E; Wilkins AD; Nielsen M; Buslje CM
BMC Bioinformatics; 2012 Sep; 13():235. PubMed ID: 22978315
[TBL] [Abstract][Full Text] [Related]
13. Joint evolutionary trees: a large-scale method to predict protein interfaces based on sequence sampling.
Engelen S; Trojan LA; Sacquin-Mora S; Lavery R; Carbone A
PLoS Comput Biol; 2009 Jan; 5(1):e1000267. PubMed ID: 19165315
[TBL] [Abstract][Full Text] [Related]
14. The contrasting properties of conservation and correlated phylogeny in protein functional residue prediction.
Manning JR; Jefferson ER; Barton GJ
BMC Bioinformatics; 2008 Jan; 9():51. PubMed ID: 18221517
[TBL] [Abstract][Full Text] [Related]
15. Identifying functionally informative evolutionary sequence profiles.
Gil N; Fiser A
Bioinformatics; 2018 Apr; 34(8):1278-1286. PubMed ID: 29211823
[TBL] [Abstract][Full Text] [Related]
16. PhyloFacts: an online structural phylogenomic encyclopedia for protein functional and structural classification.
Krishnamurthy N; Brown DP; Kirshner D; Sjölander K
Genome Biol; 2006; 7(9):R83. PubMed ID: 16973001
[TBL] [Abstract][Full Text] [Related]
17. 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]
18. Predicting ligand binding residues and functional sites using multipositional correlations with graph theoretic clustering and kernel CCA.
González AJ; Liao L; Wu CH
IEEE/ACM Trans Comput Biol Bioinform; 2012; 9(4):992-1001. PubMed ID: 22025754
[TBL] [Abstract][Full Text] [Related]
19. Optimizing multiple sequence alignments using a genetic algorithm based on three objectives: structural information, non-gaps percentage and totally conserved columns.
Ortuño FM; Valenzuela O; Rojas F; Pomares H; Florido JP; Urquiza JM; Rojas I
Bioinformatics; 2013 Sep; 29(17):2112-21. PubMed ID: 23793754
[TBL] [Abstract][Full Text] [Related]
20. Evolutionary trace annotation of protein function in the structural proteome.
Erdin S; Ward RM; Venner E; Lichtarge O
J Mol Biol; 2010 Mar; 396(5):1451-73. PubMed ID: 20036248
[TBL] [Abstract][Full Text] [Related]
[Next] [New Search]