-
1
-
-
0019887799
-
Identification of common molecular subsequences
-
T.F. Smith and M.S. Waterman, "Identification of Common Molecular Subsequences," J Mol Biol, vol. 147, no. 1, 1981, pp. 195-197.
-
(1981)
J Mol Biol
, vol.147
, Issue.1
, pp. 195-197
-
-
Smith, T.F.1
Waterman, M.S.2
-
2
-
-
0025183708
-
Basic local alignment search tool
-
S.F. Altschul, et al., "Basic Local Alignment Search Tool," J Mol Biol, vol. 215, no. 3, 1990, pp. 403-410.
-
(1990)
J Mol Biol
, vol.215
, Issue.3
, pp. 403-410
-
-
Altschul, S.F.1
-
3
-
-
0025272240
-
Rapid and sensitive sequence comparison with fastp and fasta
-
W.R. Pearson, "Rapid and Sensitive Sequence Comparison with Fastp and Fasta," Methods Enzymol, vol. 183, 1990, pp. 63-98.
-
(1990)
Methods Enzymol
, vol.183
, pp. 63-98
-
-
Pearson, W.R.1
-
4
-
-
0032962457
-
Twilight zone of protein sequence alignments
-
B. Rost, "Twilight zone of protein sequence alignments," Protein Eng, vol. 12, no. 2, 1999, pp. 85-94.
-
(1999)
Protein Eng
, vol.12
, Issue.2
, pp. 85-94
-
-
Rost, B.1
-
5
-
-
33748682730
-
Remote homology detection based on oligomer distances
-
T. Lingner and P. Meinicke, "Remote homology detection based on oligomer distances," Bioinformatics, vol. 22, no. 18, 2006, pp. 2224-2231.
-
(2006)
Bioinformatics
, vol.22
, Issue.18
, pp. 2224-2231
-
-
Lingner, T.1
Meinicke, P.2
-
6
-
-
0032438987
-
Hidden markov models for detecting remote protein homologies
-
K. Karplus, et al., "Hidden Markov Models for Detecting Remote Protein Homologies," Bioinformatics, vol. 14, no. 10, 1998, pp. 846-856.
-
(1998)
Bioinformatics
, vol.14
, Issue.10
, pp. 846-856
-
-
Karplus, K.1
-
7
-
-
5044247759
-
Performance of an iterated T-Hmm for homology detection
-
B. Qian and R.A. Goldstein, "Performance of an Iterated T-Hmm for Homology Detection," Bioinformatics, vol. 20, no. 14, 2004, pp. 2175-2180.
-
(2004)
Bioinformatics
, vol.20
, Issue.14
, pp. 2175-2180
-
-
Qian, B.1
Goldstein, R.A.2
-
9
-
-
0034048878
-
A discriminative framework for detecting remote protein homologies
-
T. Jaakkola, et al., "A Discriminative Framework for Detecting Remote Protein Homologies," J. Comput Biol., vol. 7, no. 1-2, 2000, pp. 95-114.
-
(2000)
J. Comput Biol.
, vol.7
, Issue.1-2
, pp. 95-114
-
-
Jaakkola, T.1
-
10
-
-
0742287001
-
Combining pairwise sequence similarity and support vector machines for detecting remote protein evolutionary and structural relationships
-
L. Liao and W.S. Noble, "Combining Pairwise Sequence Similarity and Support Vector Machines for Detecting Remote Protein Evolutionary and Structural Relationships," J. Comput Biol., vol. 10, no. 6, 2003, pp. 857-868.
-
(2003)
J. Comput Biol.
, vol.10
, Issue.6
, pp. 857-868
-
-
Liao, L.1
Noble, W.S.2
-
11
-
-
0036358995
-
The spectrum Kernel: A string Kernel for svm protein classification
-
C. Leslie, et al., "The Spectrum Kernel: A String Kernel for svm Protein Classification," Proc Pacific Symposium on Biocomputing, 2002, pp. 566-575.
-
(2002)
Proc Pacific Symposium on Biocomputing
, pp. 566-575
-
-
Leslie, C.1
-
12
-
-
1542714925
-
Mismatch string Kernels for discriminative protein classification
-
C.S. Leslie, et al., "Mismatch String Kernels for Discriminative Protein Classification," Bioinformatics, vol. 20, no. 4, 2004, pp. 467-476.
-
(2004)
Bioinformatics
, vol.20
, Issue.4
, pp. 467-476
-
-
Leslie, C.S.1
-
13
-
-
0344033670
-
Efficient remote homology detection using local structure
-
Y. Hou, et al., "Efficient Remote Homology Detection Using Local Structure," Bioinformatics, vol. 19, no. 17, 2003, pp. 2294-2301.
-
(2003)
Bioinformatics
, vol.19
, Issue.17
, pp. 2294-2301
-
-
Hou, Y.1
-
14
-
-
33845467978
-
A discriminative method for remote homology detection based on n-peptide compositions with reduced amino acid alphabets
-
H. Ogul and E.U. Mumcuoglu, "A discriminative method for remote homology detection based on n-peptide compositions with reduced amino acid alphabets," BioSystems, vol. 87, no. 1, 2007, pp. 75-81.
-
(2007)
BioSystems
, vol.87
, Issue.1
, pp. 75-81
-
-
Ogul, H.1
Mumcuoglu, E.U.2
-
15
-
-
33846947543
-
Motif kernel generated by genetic programming improves remote homology and fold detection
-
T. Håndstad, et al., "Motif kernel generated by genetic programming improves remote homology and fold detection," BMC Bioinformatics, vol. 8, 2007, pp. 23.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 23
-
-
Håndstad, T.1
-
16
-
-
4444273377
-
Protein homology detection using string alignment Kernels
-
H. Saigo, et al., "Protein Homology Detection Using String Alignment Kernels," Bioinformatics, vol. 20, no. 11, 2004, pp. 1682-1689.
-
(2004)
Bioinformatics
, vol.20
, Issue.11
, pp. 1682-1689
-
-
Saigo, H.1
-
17
-
-
28444473707
-
Comparison of SVM-based methods for remote homology detection
-
H. Saigo, et al., "Comparison of SVM-Based Methods for Remote Homology Detection," Genome Informatics, vol. 13, 2002, pp. 396-397.
-
(2002)
Genome Informatics
, vol.13
, pp. 396-397
-
-
Saigo, H.1
-
18
-
-
0030801002
-
Gapped blast and Psi-blast: A new generation of protein database search programs
-
S.F. Altschul, et al., "Gapped Blast and Psi-Blast: A New Generation of Protein Database Search Programs," Nucleic Acids Res, vol. 25, no. 17, 1997, pp. 3389-3402.
-
(1997)
Nucleic Acids Res
, vol.25
, Issue.17
, pp. 3389-3402
-
-
Altschul, S.F.1
-
19
-
-
25444459890
-
Windows.Net network distributed basic local alignment search toolkit (W.Nd-Blast)
-
S.E. Dowd, et al., " Windows.Net Network Distributed Basic Local Alignment Search Toolkit (W.Nd-Blast)," BMC Bioinformatics, vol. 6, 2005, pp. 93.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 93
-
-
Dowd, S.E.1
-
21
-
-
58149345703
-
A discriminative method for protein remote homology detection and fold recognition combining Top-n-grams and latent semantic analysis
-
B. Liu, et al., "A discriminative method for protein remote homology detection and fold recognition combining Top-n-grams and latent semantic analysis," BMC Bioinformatics, vol. 9, 2008.
-
(2008)
BMC Bioinformatics
, vol.9
-
-
Liu, B.1
-
22
-
-
32144458563
-
Application of latent semantic analysis to protein remote homology detection
-
Q.W. Dong, et al., "Application of Latent Semantic Analysis to Protein Remote Homology Detection," Bioinformatics, vol. 22, no. 3, 2006, pp. 285-290.
-
(2006)
Bioinformatics
, vol.22
, Issue.3
, pp. 285-290
-
-
Dong, Q.W.1
-
23
-
-
0031829372
-
Removing near-neighbour redundancy from large protein sequence collections
-
L. Holm and C. Sander, "Removing near-neighbour redundancy from large protein sequence collections," Bioinformatics, vol. 14, no. 5, 1998, pp. 423-429.
-
(1998)
Bioinformatics
, vol.14
, Issue.5
, pp. 423-429
-
-
Holm, L.1
Sander, C.2
-
24
-
-
0028043552
-
Position-based sequence weights
-
S. Henikoff and J.G. Henikoff, "Position-Based Sequence Weights " J Mol Biol, vol. 243, no. 4, 1994, pp. 574-578.
-
(1994)
J Mol Biol
, vol.243
, Issue.4
, pp. 574-578
-
-
Henikoff, S.1
Henikoff, J.G.2
-
25
-
-
0346494941
-
Scop database in 2004: Refinements integrate structure and sequence family data
-
A. Andreeva, et al., "Scop Database in 2004: Refinements Integrate Structure and Sequence Family Data," Nucleic Acids Res, vol. 32, no. Database, 2004, pp. D226-D229.
-
(2004)
Nucleic Acids Res
, vol.32
, Issue.DATABASE
-
-
Andreeva, A.1
-
27
-
-
85032768372
-
Characterization of protein secondary structure, Application of latent semantic analysis using different vocabularies
-
M. Ganapathiraju, et al., "Characterization of protein secondary structure, Application of latent semantic analysis using different vocabularies," IEEE Signal Processing Magazine, vol. 21, 2004, pp. 78-87.
-
(2004)
IEEE Signal Processing Magazine
, vol.21
, pp. 78-87
-
-
Ganapathiraju, M.1
-
28
-
-
80053431219
-
Introduction to latent semantic analysis
-
T.K. Landauer, et al., "Introduction to Latent Semantic Analysis," Discourse Processes, vol. 25, 1998, pp. 259-284.
-
(1998)
Discourse Processes
, vol.25
, pp. 259-284
-
-
Landauer, T.K.1
-
30
-
-
4944225083
-
Remote homology detection: A motif based approach
-
A. Ben-Hur and D. Brutlag, "Remote homology detection: A motif based approach," Bioinformatics, vol. 19(Suppl 1), 2003, pp. i26-i33.
-
(2003)
Bioinformatics
, vol.19
, Issue.SUPPL. 1
-
-
Ben-Hur, A.1
Brutlag, D.2
-
31
-
-
0033977581
-
The ASTRAL compendium for sequence and structure analysis
-
S.E. Brenner, et al., "The ASTRAL compendium for sequence and structure analysis," Nucleic Acids Res, vol. 28, no. 1, 2000, pp. 254-256.
-
(2000)
Nucleic Acids Res
, vol.28
, Issue.1
, pp. 254-256
-
-
Brenner, S.E.1
-
32
-
-
0001969211
-
Use of receiver operating characteristic (Roc) analysis to evaluate sequence matching
-
M. Gribskov and N.L. Robinson, "Use of Receiver Operating Characteristic (Roc) Analysis to Evaluate Sequence Matching," Comput Chem, vol. 20, no. 1, 1996, pp. 25-33.
-
(1996)
Comput Chem
, vol.20
, Issue.1
, pp. 25-33
-
-
Gribskov, M.1
Robinson, N.L.2
-
33
-
-
34547871261
-
Fast model-based protein homology detection without alignment
-
S. Hochreiter, et al., "Fast Model-based Protein Homology Detection without Alignment," Bioinformatics, vol. 23, no. 14, 2007, pp. 1728-1736.
-
(2007)
Bioinformatics
, vol.23
, Issue.14
, pp. 1728-1736
-
-
Hochreiter, S.1
-
34
-
-
43349094032
-
Probabilistic multi-class multi-kernel learning: On protein fold recognition and remote homology detection
-
T. Damoulas and M.A. Girolami, "Probabilistic multi-class multi-kernel learning: On protein fold recognition and remote homology detection," Bioinformatics, vol. 24, no. 10, 2008, pp. 1264-1270.
-
(2008)
Bioinformatics
, vol.24
, Issue.10
, pp. 1264-1270
-
-
Damoulas, T.1
Girolami, M.A.2
|