-
1
-
-
3142781225
-
Small-molecule inhibitors of protein-protein interactions: Progressing towards the dream
-
ArkinMR, andWells Ja (2004) Small-molecule inhibitors of protein-protein interactions: progressing towards the dream., Nature reviews. Drug discovery 3, 301-317. (Pubitemid 38499758)
-
(2004)
Nature Reviews Drug Discovery
, vol.3
, Issue.4
, pp. 301-317
-
-
Arkin, M.R.1
Wells, J.A.2
-
2
-
-
33845594315
-
Protein-protein interactions as targets for small molecule drug discovery
-
DOI 10.1002/bip.20608
-
Fry DC (2006) Protein -Protein Interactions as Targets for Small Molecule Drug Discovery, Biopolymers 84, 535-552. (Pubitemid 44935254)
-
(2006)
Biopolymers - Peptide Science Section
, vol.84
, Issue.6
, pp. 535-552
-
-
Fry, D.C.1
-
3
-
-
84855966157
-
Dissecting protein -protein recognition sites
-
Chakrabarti P (2002) Dissecting Protein -Protein Recognition Sites, Biochimie 343, 334-343.
-
(2002)
Biochimie
, vol.343
, pp. 334-343
-
-
Chakrabarti, P.1
-
4
-
-
0028916599
-
A hot spot of binding energy in a hormone-receptor interface
-
Clackson T, and Wells JA (1995) A hot spot of binding energy in a hormone-receptor interface, Science 267, 383-386.
-
(1995)
Science
, vol.267
, pp. 383-386
-
-
Clackson, T.1
Wells, J.A.2
-
5
-
-
0032479179
-
Anatomy of hot spots in protein interfaces
-
DOI 10.1006/jmbi.1998.1843
-
Bogan aa, and Thorn KS (1998) Anatomy of hot spots in protein interfaces., Journal of Molecular Biology 280, 1-9. (Pubitemid 28312802)
-
(1998)
Journal of Molecular Biology
, vol.280
, Issue.1
, pp. 1-9
-
-
Bogan, A.A.1
Thorn, K.S.2
-
6
-
-
0042594456
-
The binding inteference database (BID): A compilation of amino acid hot spots in protein interfaces
-
DOI 10.1093/bioinformatics/btg163
-
Fischer TB (2003) The binding interface database (BID): a compilation of amino acid hot spots in protein interfaces, Bioinformatics 19, 1453-1454. (Pubitemid 36939831)
-
(2003)
Bioinformatics
, vol.19
, Issue.11
, pp. 1453-1454
-
-
Fischer, T.B.1
Arunachalam, K.V.2
Bailey, D.3
Mangual, V.4
Barkhru, S.5
Russo, R.6
Huang, D.7
Paczkowski, M.8
Lalchandani, V.9
Ramachandra, C.10
Ellison, B.11
Galer, S.12
Shapley, J.13
Fuentes, E.14
Tsai, J.15
-
7
-
-
0035066602
-
ASEdb: A database of alanine mutations and their effects on the free energy of binding in protein interactions
-
Thorn KS BA (2001) ASEdb: a database of alanine mutations and their effects on the free energy of binding in protein interactions., Bioinformatics 3, 284-285.
-
(2001)
Bioinformatics
, vol.3
, pp. 284-285
-
-
Thorn, K.S.B.A.1
-
8
-
-
65549107009
-
Progress and challenges in predicting protein-protein interaction sites
-
Ezkurdia I, Bartoli L, Fariselli P, Casadio R, Valencia A, and Tress ML (2009) Progress and challenges in predicting protein-protein interaction sites., Briefings in bioinformatics 10, 233-246.
-
(2009)
Briefings in Bioinformatics
, vol.10
, pp. 233-246
-
-
Ezkurdia, I.1
Bartoli, L.2
Fariselli, P.3
Casadio, R.4
Valencia, A.5
Tress, M.L.6
-
9
-
-
49249109524
-
How proteins get in touch: Interface prediction in the study of biomolecular complexes
-
de Vries SJ, and Bonvin AMJJ (2008) How Proteins Get in Touch: Interface Prediction in the Study of Biomolecular Complexes, Current Protein and Peptide Science 9, 394-406.
-
(2008)
Current Protein and Peptide Science
, vol.9
, pp. 394-406
-
-
De Vries, S.J.1
Amjj, B.2
-
10
-
-
65549157572
-
A survey of available tools and web servers for analysis of protein-protein interactions and interfaces
-
Tuncbag N, Kar G, Keskin O, Gursoy A, and Nussinov R (2009) A survey of available tools and web servers for analysis of protein-protein interactions and interfaces., Briefings in bioinformatics 10, 217-232.
-
(2009)
Briefings in Bioinformatics
, vol.10
, pp. 217-232
-
-
Tuncbag, N.1
Kar, G.2
Keskin, O.3
Gursoy, A.4
Nussinov, R.5
-
11
-
-
0036616218
-
The protein data bank
-
DOI 10.1107/S0907444902003451
-
Berman HM, Battistuz T, Bhat TN, Bluhm WF, Bourne PE, Burkhardt K, Feng Z, Gilliland GL, Iype L, Jain S, Fagan P, Marvin J, Padilla D, Ravichandran V, Schneider B, Thanki N, Weissig H, Westbrook JD, and Zardecki C (2002) The Protein Data Bank, Acta Crystallogr D Biol Crystallogr 58, 899-907. (Pubitemid 34653017)
-
(2002)
Acta Crystallographica Section D: Biological Crystallography
, vol.58
, Issue.6
, pp. 899-907
-
-
Berman, H.M.1
Battistuz, T.2
Bhat, T.N.3
Bluhm, W.F.4
Bourne, P.E.5
Burkhardt, K.6
Feng, Z.7
Gilliland, G.L.8
Iype, L.9
Jain, S.10
Fagan, P.11
Marvin, J.12
Padilla, D.13
Ravichandran, V.14
Schneider, B.15
Thanki, N.16
Weissig, H.17
Westbrook, J.D.18
Zardecki, C.19
-
12
-
-
33751357065
-
ProtBuD: A database of biological unit structures of protein families and superfamilies
-
DOI 10.1093/bioinformatics/btl490
-
Xu Q, Canutescu A, Obradovic Z, and Dunbrack RL (2006) ProtBuD: a database of biological unit structures of protein families and superfamilies., Bioinformatics (Oxford, England) 22, 2876-2882. (Pubitemid 44811558)
-
(2006)
Bioinformatics
, vol.22
, Issue.23
, pp. 2876-2882
-
-
Xu, Q.1
Canutescu, A.2
Obradovic, Z.3
Dunbrack Jr., R.L.4
-
13
-
-
0032169688
-
PQS: A protein quaternary structure file server
-
DOI 10.1016/S0968-0004(98)01253-5, PII S0968000498012535
-
Henrick K, and Thornton JM (1998) PQS: a protein quaternary structure file server, Trends Biochem Sci 23, 358-361. (Pubitemid 28461869)
-
(1998)
Trends in Biochemical Sciences
, vol.23
, Issue.9
, pp. 358-361
-
-
Henrick, K.1
Thornton, J.M.2
-
14
-
-
33751415854
-
3D complex: A structural classification of protein complexes
-
Levy ED, Pereira-Leal JB, Chothia C, and Teichmann Sa (2006) 3D complex: a structural classification of protein complexes., PLoS computational biology 2, e155.
-
(2006)
PLoS Computational Biology
, vol.2
-
-
Levy, E.D.1
Pereira-Leal, J.B.2
Chothia, C.3
Sa, T.4
-
15
-
-
33751088850
-
Biological Units and their Effect upon the Properties and Prediction of Protein-Protein Interactions
-
DOI 10.1016/j.jmb.2006.09.042, PII S0022283606012484
-
Jefferson ER, Walsh TP, and Barton GJ (2006) Biological units and their effect upon the properties and prediction of proteinprotein interactions., Journal of Molecular Biology 364, 1118-1129. (Pubitemid 44765039)
-
(2006)
Journal of Molecular Biology
, vol.364
, Issue.5
, pp. 1118-1129
-
-
Jefferson, E.R.1
Walsh, T.P.2
Barton, G.J.3
-
16
-
-
35748959334
-
PiQSi: Protein quaternary structure investigation
-
DOI 10.1016/j.str.2007.09.019, PII S0969212607003760
-
Levy ED (2007) PiQSi: protein quaternary structure investigation., Structure (London, England : 1993) 15, 1364-1367. (Pubitemid 350051933)
-
(2007)
Structure
, vol.15
, Issue.11
, pp. 1364-1367
-
-
Levy, E.D.1
-
17
-
-
0037250308
-
PDB-REPRDB: A database of representative protein chains from the Protein Data Bank (PDB) in 2003
-
DOI 10.1093/nar/gkg022
-
Noguchi T (2003) PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB) in 2003, Nucleic acids research 31, 492-493. (Pubitemid 36150438)
-
(2003)
Nucleic Acids Research
, vol.31
, Issue.1
, pp. 492-493
-
-
Noguchi, T.1
Akiyama, Y.2
-
18
-
-
0043180474
-
PISCES: A protein sequence culling server
-
DOI 10.1093/bioinformatics/btg224
-
Wang G (2003) PISCES: a protein sequence culling server, Bioinformatics 19, 1589-1591. (Pubitemid 37038881)
-
(2003)
Bioinformatics
, vol.19
, Issue.12
, pp. 1589-1591
-
-
Wang, G.1
Dunbrack Jr., R.L.2
-
19
-
-
23144438711
-
PISCES: Recent improvements to a PDB sequence culling server
-
DOI 10.1093/nar/gki402
-
Wang G, and Dunbrack RL (2005) PISCES: recent improvements to a PDB sequence culling server., Nucleic acids research 33, W94-98. (Pubitemid 44529887)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.WEB. SERV. ISS.
-
-
Wang, G.1
Dunbrack Jr., R.L.2
-
20
-
-
84855916508
-
A series of PDB related databases for everyday needs
-
Joosten RP, Te Beek TaH, Krieger E, Hekkelman ML, Hooft RWW, Schneider R, Sander C, and Vriend G (2010) A series of PDB related databases for everyday needs., Nucleic acids research, 1-9.
-
(2010)
Nucleic Acids Research
, pp. 1-9
-
-
Joosten, R.P.1
Beek Tah, T.2
Krieger, E.3
Hekkelman, M.L.4
Rww, H.5
Schneider, R.6
Sander, C.7
Vriend, G.8
-
21
-
-
43249104982
-
PSAIA -protein structure and interaction analyzer
-
Mihel J, Šikić M, Tomić S, Jeren B, and Vlahoviček K (2008) PSAIA -protein structure and interaction analyzer., BMC structural biology 8, 21.
-
(2008)
BMC Structural Biology
, vol.8
, pp. 21
-
-
Mihel, J.1
Šikić, M.2
Tomić, S.3
Jeren, B.4
Vlahoviček, K.5
-
22
-
-
0035782925
-
Review: Protein secondary structure prediction continues to rise
-
Rost B (2001) Review: protein secondary structure prediction continues to rise, J Struct Biol 134, 204-218.
-
(2001)
J Struct Biol
, vol.134
, pp. 204-218
-
-
Rost, B.1
-
23
-
-
33845421969
-
The Star STING server: A multiplatform environment for protein structure analysis
-
Neshich G, Mazoni I, Oliveira SRM, Yamagishi MEB, Kuser-Fallao PR, Borro LC, Morita DU, Souza KRR, Almeida GV, Rodrigues DN, Jardine JG, Togawa RC, Mancini aL, Higa RH, Cruz SaB, Vieira FD, Santos EH, Melo RC, and Santoro MM (2006) The Star STING server: a multiplatform environment for protein structure analysis., Genetics and molecular research : GMR 5, 717-722. (Pubitemid 44904629)
-
(2006)
Genetics and Molecular Research
, vol.5
, Issue.4
, pp. 717-722
-
-
Neshich, G.1
Mazoni, I.2
Oliveira, S.R.M.3
Yamagishi, M.E.B.4
Kuser-Falcao, P.R.5
Borro, L.C.6
Morita, D.U.7
Souza, K.R.R.8
Almeida, G.V.9
Rodrigues, D.N.10
Jardine, J.G.11
Togawa, R.C.12
Mancini, A.L.13
Higa, R.H.14
Cruz, S.A.B.15
Vieira, F.D.16
Santos, E.H.17
Melo, R.C.18
Santoro, M.M.19
-
24
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
DOI 10.1093/nar/25.17.3389
-
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, and Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs, Nucleic Acids Res 25, 3389-3402. (Pubitemid 27359211)
-
(1997)
Nucleic Acids Research
, vol.25
, Issue.17
, pp. 3389-3402
-
-
Altschul, S.F.1
Madden, T.L.2
Schaffer, A.A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.J.7
-
25
-
-
38549155006
-
AAindex: Amino acid index database, progress report 2008
-
DOI 10.1093/nar/gkm998
-
Kawashima S, Pokarowski P, Pokarowska M, Kolinski A, Katayama T, and Kanehisa M (2008) AAindex: amino acid index database, progress report 2008., Nucleic acids research 36, D202-205. (Pubitemid 351149722)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.SUPPL. 1
-
-
Kawashima, S.1
Pokarowski, P.2
Pokarowska, M.3
Kolinski, A.4
Katayama, T.5
Kanehisa, M.6
-
26
-
-
0035478854
-
Random forests
-
DOI 10.1023/A:1010933404324
-
Breiman L (2001) Random forests, Mach Learn 45, 5-32. (Pubitemid 32933532)
-
(2001)
Machine Learning
, vol.45
, Issue.1
, pp. 5-32
-
-
Breiman, L.1
-
27
-
-
59149087824
-
Prediction of protein-protein interaction sites in sequences and 3D structures by random forests
-
Šikić M, Tomić S, and Vlahoviček K (2009) Prediction of protein-protein interaction sites in sequences and 3D structures by random forests., PLoS computational biology 5, e1000278.
-
(2009)
PLoS Computational Biology
, vol.5
-
-
Šikić, M.1
Tomić, S.2
Vlahoviček, K.3
-
28
-
-
77956394469
-
-
ACM SIGKDD Explorations Newsletter
-
Hall M, Frank, E., Holmes, G., Pfahringer, B., Reutemann, P., Witten, I. H. (2009) The WEKA data mining software: an update, ACM SIGKDD Explorations Newsletter.
-
(2009)
The WEKA Data Mining Software: An Update
-
-
Hall, M.1
Frank, E.2
Holmes, G.3
Pfahringer, B.4
Reutemann, P.5
Witten, I.H.6
-
29
-
-
0345040873
-
Classification and Regression by randomForest
-
Liaw A, and Wiener M (2002) Classification and Regression by randomForest, Glass 2, 18-22.
-
(2002)
Glass
, vol.2
, pp. 18-22
-
-
Liaw, A.1
Wiener, M.2
-
31
-
-
33749558210
-
YALE: Rapid prototyping for complex data mining tasks
-
KDD 2006: Proceedings of the Twelfth ACM SIGKDD International Conference on Knowledge Discovery and Data Mining
-
Mierswa I, Wurst, M., Klinkenberg, R., Scholz, M., Euler, T (2006) YALE: Rapid Prototyping for Complex Data Mining Tasks, KDD 06 Proceedings of the 12th ACM SIGKDD international conference on Knowledge discovery and data mining, 935-940. (Pubitemid 44535615)
-
(2006)
Proceedings of the ACM SIGKDD International Conference on Knowledge Discovery and Data Mining
, vol.2006
, pp. 935-940
-
-
Mierswa, I.1
Wurst, M.2
Klinkenberg, R.3
Scholz, M.4
Euler, T.5
|