-
1
-
-
40649094951
-
Structure-based analysis of protein-RNA interactions using the program entangle
-
Allers, J. and Shamoo, Y. (2001). Structure-based analysis of protein-RNA interactions using the program entangle. J Mol Biol. 75-86:311(1).
-
(2001)
J Mol Biol
, vol.75-86
, Issue.1
, pp. 311
-
-
Allers, J.1
Shamoo, Y.2
-
3
-
-
85142166051
-
-
Glaser, F., Pupko, T., Paz, I.. Bell. R., Bechor-Shental, D., Martz, E., and Ben-Tal, N. (2003). Consurf: identification of functional regions in proteins by surface-mapping of phylogenetic information. Bioinformatics, 19(1): 163-4.
-
Glaser, F., Pupko, T., Paz, I.. Bell. R., Bechor-Shental, D., Martz, E., and Ben-Tal, N. (2003). Consurf: identification of functional regions in proteins by surface-mapping of phylogenetic information. Bioinformatics, 19(1): 163-4.
-
-
-
-
4
-
-
1542346418
-
A novel method for protein secondary structure prediction using dual-layer svm and profiles
-
Guo, J., Chen, H., Sun, Z., and Lin, Y. (2004). A novel method for protein secondary structure prediction using dual-layer svm and profiles. Proteins, 54(4):738-43.
-
(2004)
Proteins
, vol.54
, Issue.4
, pp. 738-743
-
-
Guo, J.1
Chen, H.2
Sun, Z.3
Lin, Y.4
-
5
-
-
0026458378
-
Amino acid substitution matrices from protein blocks
-
Henikoff, S. and Henikoff, J. (1992). Amino acid substitution matrices from protein blocks. Proc Natl Acad Sci USA, 89(22):10915-9.
-
(1992)
Proc Natl Acad Sci USA
, vol.89
, Issue.22
, pp. 10915-10919
-
-
Henikoff, S.1
Henikoff, J.2
-
6
-
-
0035957531
-
A novel method of protein secondary structure prediction with high segment overlap measure: Support vector machine approach
-
Hua, S. and Sun, Z. (2001). A novel method of protein secondary structure prediction with high segment overlap measure: support vector machine approach. J Moi Biol, 308(2):397-407.
-
(2001)
J Moi Biol
, vol.308
, Issue.2
, pp. 397-407
-
-
Hua, S.1
Sun, Z.2
-
7
-
-
40649108028
-
-
Hubbard, S. (1993). Naccess. department of biochemistry and molecular biology, university college, london.
-
Hubbard, S. (1993). Naccess. department of biochemistry and molecular biology, university college, london.
-
-
-
-
8
-
-
0034048878
-
A discriminative framework for detecting remote protein homologies
-
Jaakkola, T., Diekhans, M., and Haussler, D. (2000). A discriminative framework for detecting remote protein homologies. J Comput Biol. 7(1-2):95-114.
-
(2000)
J Comput Biol
, vol.7
, Issue.1-2
, pp. 95-114
-
-
Jaakkola, T.1
Diekhans, M.2
Haussler, D.3
-
9
-
-
0346258292
-
Using electrostatic potentials to predict DNA-binding sites on DNA-binding proteins
-
Jones. S., Shanahan, H., Berman, H., and Thornton, J. (2003). Using electrostatic potentials to predict DNA-binding sites on DNA-binding proteins. Nucleic Acids Res, 31(24):7189-98.
-
(2003)
Nucleic Acids Res
, vol.31
, Issue.24
, pp. 7189-7198
-
-
Jones, S.1
Shanahan, H.2
Berman, H.3
Thornton, J.4
-
10
-
-
0030028728
-
Principles of protein-protein interactions
-
Jones, S. and Thornton, J. (1996). Principles of protein-protein interactions. Proc Natl Acad Sci USA, 93(1): 13-20.
-
(1996)
Proc Natl Acad Sci USA
, vol.93
, Issue.1
, pp. 13-20
-
-
Jones, S.1
Thornton, J.2
-
11
-
-
0343621535
-
Aaindex: Amino acid index database
-
Kawashima, S. and Kanehisa, M. (2000). Aaindex: amino acid index database. Nucleic Acids Res, 28(1):374.
-
(2000)
Nucleic Acids Res
, vol.28
, Issue.1
, pp. 374
-
-
Kawashima, S.1
Kanehisa, M.2
-
12
-
-
2442674422
-
Kernel-based data fusion and its application to protein function prediction in yeast
-
Lanckriet, G., Deng, M., Cristianini, N., Jordan, M., and Noble, W. (2004). Kernel-based data fusion and its application to protein function prediction in yeast. Pac Symp Biocomput, pages 300-11.
-
(2004)
Pac Symp Biocomput
, pp. 300-311
-
-
Lanckriet, G.1
Deng, M.2
Cristianini, N.3
Jordan, M.4
Noble, W.5
-
13
-
-
1942515510
-
Learning the kernel matrix with semi-definite programming
-
Lanckriet, G. R. G., Cristianini, N., Bartlett, P. L., Ghaoui, L. E., and Jordan, M. I. (2002). Learning the kernel matrix with semi-definite programming. In ICML, pages 323-330.
-
(2002)
ICML
, pp. 323-330
-
-
Lanckriet, G.R.G.1
Cristianini, N.2
Bartlett, P.L.3
Ghaoui, L.E.4
Jordan, M.I.5
-
14
-
-
1542714925
-
Mismatch string kernels for discriminative protein classification
-
Leslie, C. Eskin, E., Cohen, A., Weston, J., and Noble, W. (2004). Mismatch string kernels for discriminative protein classification. Bioinformatics, 20(4):467-76.
-
(2004)
Bioinformatics
, vol.20
, Issue.4
, pp. 467-476
-
-
Leslie, C.1
Eskin, E.2
Cohen, A.3
Weston, J.4
Noble, W.5
-
15
-
-
0036358995
-
The spectrum kernel: A string kernel for svm protein classification
-
Leslie, C., Eskin, E., and Noble, W. S. (2002). The spectrum kernel: A string kernel for svm protein classification. In Pacific Symposium on Biocomputing, pages 564-575.
-
(2002)
Pacific Symposium on Biocomputing
, pp. 564-575
-
-
Leslie, C.1
Eskin, E.2
Noble, W.S.3
-
16
-
-
0345864015
-
Merops: The peptidase database
-
Rawlings, N., Tolle, D., and Barrett, A. (2004). Merops: the peptidase database. Nucleic Acids Res, 32:D160-4.
-
(2004)
Nucleic Acids Res
, vol.32
-
-
Rawlings, N.1
Tolle, D.2
Barrett, A.3
-
17
-
-
0028109886
-
Conservation and prediction of solvent accessibility in protein families
-
Rost, B. and Sander, C. (1994). Conservation and prediction of solvent accessibility in protein families. Proteins, 216-26:20(3).
-
(1994)
Proteins
, vol.216 -26
, Issue.3
, pp. 20
-
-
Rost, B.1
Sander, C.2
-
18
-
-
4444273377
-
Protein homology detection using string alignment kernels
-
Saigo, H., Vert, J., Ueda, N., and Akutsu, T. (2004). Protein homology detection using string alignment kernels. Bioinformatics, 20(11): 1682-9.
-
(2004)
Bioinformatics
, vol.20
, Issue.11
, pp. 1682-1689
-
-
Saigo, H.1
Vert, J.2
Ueda, N.3
Akutsu, T.4
-
20
-
-
19944430515
-
Predicting binding sites of hydrolase-inhibitor complexes by combining several methods
-
Sen, T. Z., Kloczkowski, A., Jernigan, R. L., Yan, C., Honavar, V., Ho, K.-M., Wang, C.-Z., Ihm, Y., Cao, H., Gu, X., and Dobbs, D. (2004). Predicting binding sites of hydrolase-inhibitor complexes by combining several methods. BMC Bioinformatics, 5(1):205.
-
(2004)
BMC Bioinformatics
, vol.5
, Issue.1
, pp. 205
-
-
Sen, T.Z.1
Kloczkowski, A.2
Jernigan, R.L.3
Yan, C.4
Honavar, V.5
Ho, K.-M.6
Wang, C.-Z.7
Ihm, Y.8
Cao, H.9
Gu, X.10
Dobbs, D.11
-
21
-
-
33746487738
-
Identifying interaction sites in "recalcitrant" proteins: Predicted protein and RNA binding sites in Rev proteins of HIV-1 and EIAV agree with experimental data
-
Terribilini, M., Lee, J.-H., Yan, C., Jernigan, R. L., Carpenter. S., Honavar, V., and Dobbs, D. (2006). Identifying interaction sites in "recalcitrant" proteins: predicted protein and RNA binding sites in Rev proteins of HIV-1 and EIAV agree with experimental data. Pacific Symposium on Biocomputing, 11:415-426.
-
(2006)
Pacific Symposium on Biocomputing
, vol.11
, pp. 415-426
-
-
Terribilini, M.1
Lee, J.-H.2
Yan, C.3
Jernigan, R.L.4
Carpenter, S.5
Honavar, V.6
Dobbs, D.7
-
23
-
-
40649110685
-
Kernel methods in genomics and computational biology
-
Technical Report HAL:ccsd-00012124, October
-
Vert, J.-P. (2005). Kernel methods in genomics and computational biology. Technical Report HAL:ccsd-00012124, October 2005.
-
(2005)
-
-
Vert, J.-P.1
-
25
-
-
3142717479
-
Identification of interface residues in protease-inhibitor and antigen-antibody complexes: A support vector machine approach
-
Yan, C., Dobbs, D., and Honavar. V. (2004a). Identification of interface residues in protease-inhibitor and antigen-antibody complexes: a support vector machine approach. Neural Comput. Applic., 13:123-129.
-
(2004)
Neural Comput. Applic
, vol.13
, pp. 123-129
-
-
Yan, C.1
Dobbs, D.2
Honavar, V.3
-
26
-
-
13244292990
-
A two-stage classifier for identification of protein-protein interface residues
-
Yan, C., Dobbs, D., and Honavar, V. (2004b). A two-stage classifier for identification of protein-protein interface residues. Bioinformatics, Suppl 1:1371-1378.
-
(2004)
Bioinformatics
, Issue.SUPPL. 1
, pp. 1371-1378
-
-
Yan, C.1
Dobbs, D.2
Honavar, V.3
-
27
-
-
33746495377
-
Predicting DNA-binding sites of proteins from amino acid sequence
-
in press
-
Yan, C., Terribilini, M., Wu, F., Jernigan, R. L., Dobbs, D., and Honavar, V. (2006). Predicting DNA-binding sites of proteins from amino acid sequence. BMC Bioinformatics, in press.
-
(2006)
BMC Bioinformatics
-
-
Yan, C.1
Terribilini, M.2
Wu, F.3
Jernigan, R.L.4
Dobbs, D.5
Honavar, V.6
|