-
1
-
-
4444322203
-
A study on how to best align protein sequences
-
Elofsson A: A study on how to best align protein sequences. Proteins 2002, 15(3):330-339.
-
(2002)
Proteins
, vol.15
, Issue.3
, pp. 330-339
-
-
Elofsson, A.1
-
2
-
-
0345827718
-
Using evolutionary information for the query and target improves fold recognition
-
Wallner B, Fang H, Ohlson T, Frey-Skött J, Elofsson A: Using evolutionary information for the query and target improves fold recognition. Proteins 2004, 54(2):342-350.
-
(2004)
Proteins
, vol.54
, Issue.2
, pp. 342-350
-
-
Wallner, B.1
Fang, H.2
Ohlson, T.3
Frey-Skött, J.4
Elofsson, A.5
-
3
-
-
0027291015
-
Prediction of protein secondary structure structure at better than 70% accuracy
-
Rost B, Sander C: Prediction of protein secondary structure structure at better than 70% accuracy. J. Mol. Biol. 1993, 232:584-599.
-
(1993)
J. Mol. Biol.
, vol.232
, pp. 584-599
-
-
Rost, B.1
Sander, C.2
-
4
-
-
0031297386
-
Critical assesment of methods of proteins structure predictions (CASP): Round II
-
Moult J, Hubbard T, Bryant SH, Fidelis K, Pedersen JT: Critical assesment of methods of proteins structure predictions (CASP): Round II. Proteins (Suppl) 1997, 1:2-6.
-
(1997)
Proteins
, vol.1
, Issue.SUPPL.
, pp. 2-6
-
-
Moult, J.1
Hubbard, T.2
Bryant, S.H.3
Fidelis, K.4
Pedersen, J.T.5
-
5
-
-
0033670439
-
MaxSub: An automated measure to assess the quality of protein structure predictions
-
Siew N, Elofsson A, Rychlewski L, Fischer D: MaxSub: An automated measure to assess the quality of protein structure predictions. Bioinformatics 2000, 16(9):776-785.
-
(2000)
Bioinformatics
, vol.16
, Issue.9
, pp. 776-785
-
-
Siew, N.1
Elofsson, A.2
Rychlewski, L.3
Fischer, D.4
-
6
-
-
4444298729
-
Profile-profile methods provide improved fold-recognition: A study of different profile-profile alignment methods
-
Ohlson T, Wallner B, Elofsson A: Profile-profile methods provide improved fold-recognition: A study of different profile-profile alignment methods. Proteins 2004, 57:188-197.
-
(2004)
Proteins
, vol.57
, pp. 188-197
-
-
Ohlson, T.1
Wallner, B.2
Elofsson, A.3
-
7
-
-
1842559320
-
Alignment of protein sequences by their profiles
-
Marti-Renom M, Madhusudhan M, Sali A: Alignment of protein sequences by their profiles. Protein Sci 2004, 13:1071-1087.
-
(2004)
Protein Sci.
, vol.13
, pp. 1071-1087
-
-
Marti-Renom, M.1
Madhusudhan, M.2
Sali, A.3
-
8
-
-
2442663920
-
Scoring profile-to-profile sequence alignments
-
Wang G, Dunbrack RL: Scoring profile-to-profile sequence alignments. Protein Sci 2004, 13(6):1612-1626.
-
(2004)
Protein Sci.
, vol.13
, Issue.6
, pp. 1612-1626
-
-
Wang, G.1
Dunbrack, R.L.2
-
9
-
-
3042550791
-
A comparison of scoring functions for protein sequence profile alignment
-
Edgar R, Sjolander K: A comparison of scoring functions for protein sequence profile alignment. Bioinformatics 2004, 20(8):1301-1308.
-
(2004)
Bioinformatics
, vol.20
, Issue.8
, pp. 1301-1308
-
-
Edgar, R.1
Sjolander, K.2
-
10
-
-
0001561422
-
Hybrid Fold Recognition: Combining sequence derived properties with evolutionary information
-
Edited by Altman R, Dunker A, Hunter L, Klien T, World Scientific
-
Fischer D: Hybrid Fold Recognition: Combining sequence derived properties with evolutionary information. In Pacific Symposium on Biocomputing, Volume 5. Edited by Altman R, Dunker A, Hunter L, Klien T, World Scientific 2000:116-127.
-
(2000)
Pacific Symposium on Biocomputing
, vol.5
, pp. 116-127
-
-
Fischer, D.1
-
11
-
-
0033997036
-
Comparison of sequence profiles. Strategies for structural predictions using sequence information
-
Rychlewski L, Jaroszewski L, Li W, Godzik A: Comparison of sequence profiles. Strategies for structural predictions using sequence information. Protein Sci. 2000, 9(2):232-241.
-
(2000)
Protein Sci.
, vol.9
, Issue.2
, pp. 232-241
-
-
Rychlewski, L.1
Jaroszewski, L.2
Li, W.3
Godzik, A.4
-
12
-
-
0043130635
-
Profile-profile alignments: A powerful tool for protein structure prediction
-
Edited. by Altman RB, Dunker AK, L Hunter Jung TA, Klein TE
-
von Öhsen N, Sommer I, Zimmer R: Profile-profile alignments: a powerful tool for protein structure prediction. In Pacific Symposium on Biocomputing. Edited by Altman RB, Dunker AK, L Hunter Jung TA, Klein TE 2003:252-263.
-
(2003)
Pacific Symposium on Biocomputing
, pp. 252-263
-
-
von Öhsen, N.1
Sommer, I.2
Zimmer, R.3
-
13
-
-
0036307493
-
Within the twilight zone: A sensitive profile-profile comparison tool based on information theory
-
Yona G, Levitt M: Within the twilight zone: A sensitive profile-profile comparison tool based on information theory. J. Mol. Biol. 2002, 315:1257-1275.
-
(2002)
J. Mol. Biol.
, vol.315
, pp. 1257-1275
-
-
Yona, G.1
Levitt, M.2
-
14
-
-
0037423702
-
COMPASS: A Tool for comparison of multiple protein alignments with assessment of statistical significance
-
Sadreyev R, Grishin N: COMPASS: A Tool for comparison of multiple protein alignments with assessment of statistical significance. J. Mol. Biol. 2003, 326:317-336.
-
(2003)
J. Mol. Biol.
, vol.326
, pp. 317-336
-
-
Sadreyev, R.1
Grishin, N.2
-
15
-
-
0042594474
-
SATCHMO: Sequence alignment and tree construction using hidden Markov models
-
Edgar R, Sjolander K: SATCHMO: sequence alignment and tree construction using hidden Markov models. Bioinformatics 2003, 19(22):1404-1411.
-
(2003)
Bioinformatics
, vol.19
, Issue.22
, pp. 1404-1411
-
-
Edgar, R.1
Sjolander, K.2
-
16
-
-
0037433034
-
PCMA: Fast and accurate multiple sequence alignment based on profile consistency
-
Pei J, Sadreyev R, Grishin NV: PCMA: fast and accurate multiple sequence alignment based on profile consistency. Bioinformatics 2003, 19:427-428.
-
(2003)
Bioinformatics
, vol.19
, pp. 427-428
-
-
Pei, J.1
Sadreyev, R.2
Grishin, N.V.3
-
17
-
-
0041886960
-
Probabilistic scoring measures for profile-profile comparison yield more accurate short seed alignments
-
Mittelman D, Sadreyev R, Grishin N: Probabilistic scoring measures for profile-profile comparison yield more accurate short seed alignments. Bioinformatics 2003, 19:1531-1539.
-
(2003)
Bioinformatics
, vol.19
, pp. 1531-1539
-
-
Mittelman, D.1
Sadreyev, R.2
Grishin, N.3
-
18
-
-
0642373240
-
A study of quality measures for protein threading models
-
Cristobal S, Zemla A, Fischer D, Rychlewski L, Elofsson A: A study of quality measures for protein threading models. BMC Bioinformatics 2001, 2(5).
-
(2001)
BMC Bioinformatics
, vol.2
, Issue.5
-
-
Cristobal, S.1
Zemla, A.2
Fischer, D.3
Rychlewski, L.4
Elofsson, A.5
-
19
-
-
13244255415
-
MUSCLE: A multiple sequence alignment method with reduced time and space complexity
-
Edgar R: MUSCLE: a multiple sequence alignment method with reduced time and space complexity. BMC Bioinformatics 2004, 5(32).
-
(2004)
BMC Bioinformatics
, vol.5
, Issue.32
-
-
Edgar, R.1
-
20
-
-
0041743084
-
Predicting reliable regions in protein alignments from sequence profiles
-
Tress M, Jones D, Valencia A: Predicting reliable regions in protein alignments from sequence profiles. J. Mol. Biol. 2003, 330(4):705-718.
-
(2003)
J. Mol. Biol.
, vol.330
, Issue.4
, pp. 705-718
-
-
Tress, M.1
Jones, D.2
Valencia, A.3
-
21
-
-
0026458378
-
Amino acid substitution matrices from protein blocks
-
Henikoff S, Henikoff JG: Amino acid substitution matrices from protein blocks. Proc. Natl. Acad.Sci. 1992, :10915-10919.
-
(1992)
Proc. Natl. Acad. Sci.
, pp. 10915-10919
-
-
Henikoff, S.1
Henikoff, J.G.2
-
22
-
-
27644523588
-
Exhaustive matching of the entire protein sequence database
-
Gonnet G, Cohen M, Benner S: Exhaustive matching of the entire protein sequence database. Science 1992, 257(5077):1609-1610.
-
(1992)
Science
, vol.257
, Issue.5077
, pp. 1609-1610
-
-
Gonnet, G.1
Cohen, M.2
Benner, S.3
-
23
-
-
0026691182
-
The rapid generation of mutation data matrices from protein sequences
-
Jones D, Taylor W, Thornton J: The rapid generation of mutation data matrices from protein sequences. Comput Appl Biosci. 1992, 8(3):275-282.
-
(1992)
Comput. Appl. Biosci.
, vol.8
, Issue.3
, pp. 275-282
-
-
Jones, D.1
Taylor, W.2
Thornton, J.3
-
24
-
-
0033835533
-
Structure derived substitution matrices for alignment of distantly related sequences
-
Prlic A, Domingues F, Sippl M: Structure derived substitution matrices for alignment of distantly related sequences. Protein Engineering 2000, 13(8).
-
(2000)
Protein Engineering
, vol.13
, Issue.8
-
-
Prlic, A.1
Domingues, F.2
Sippl, M.3
-
25
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
Altschul S, Madden T, Schaffer A, Zhang J, Zhang Z, Miller W, Lipman D: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 1997, 25:3389-3402.
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 3389-3402
-
-
Altschul, S.1
Madden, T.2
Schaffer, A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.7
-
26
-
-
0031829372
-
Removing near-neighbour redundancy from large protein sequence collections
-
Holm L, Sander C: Removing near-neighbour redundancy from large protein sequence collections. Bioinformatics 1998, 14:423-429.
-
(1998)
Bioinformatics
, vol.14
, pp. 423-429
-
-
Holm, L.1
Sander, C.2
-
27
-
-
0033578684
-
Protein secondary structure prediction based on position-specific scoring matrices
-
Jones D: Protein secondary structure prediction based on position-specific scoring matrices. J. Mol. Biol. 1999, 292(2):195-202.
-
(1999)
J. Mol. Biol.
, vol.292
, Issue.2
, pp. 195-202
-
-
Jones, D.1
-
28
-
-
0028961335
-
SCOP: A structural classification of proteins database for the investigation of sequences and structures
-
Murzin A, Brenner S, Hubbard T, Chothia C: SCOP: a structural classification of proteins database for the investigation of sequences and structures. J. Mol. Biol. 1995, 247:536-540.
-
(1995)
J. Mol. Biol.
, vol.247
, pp. 536-540
-
-
Murzin, A.1
Brenner, S.2
Hubbard, T.3
Chothia, C.4
-
29
-
-
0031938039
-
Comprehensive assessment of automatic structural alignment against a manual standard, the scop classification of proteins
-
Gerstein M, Levitt M: Comprehensive assessment of automatic structural alignment against a manual standard, the scop classification of proteins. Protein Sci 1998, 7:445-456.
-
(1998)
Protein Sci.
, vol.7
, pp. 445-456
-
-
Gerstein, M.1
Levitt, M.2
-
30
-
-
0016772212
-
Comparison of predicted and observed secondary structure, of T4 phage lysozyme
-
Matthews B: Comparison of predicted and observed secondary structure, of T4 phage lysozyme. Biochim. Biophys. Acta 1996, 405:442-451.
-
(1996)
Biochim. Biophys. Acta
, vol.405
, pp. 442-451
-
-
Matthews, B.1
-
32
-
-
0011327518
-
NetLab: Netlab neural network software
-
Nabney I, Bishop C: NetLab: Netlab neural network software. http://www.ncrg.aston.ac.uk/netlab/ 1995.
-
(1995)
-
-
Nabney, I.1
Bishop, C.2
|