-
1
-
-
0037061646
-
Inhibition of protein-protein association by small molecules: approaches and progress
-
10.1021/jm010468s, 11931608
-
Toogood PL. Inhibition of protein-protein association by small molecules: approaches and progress. J Med Chem 2002, 45(8):1543-1558. 10.1021/jm010468s, 11931608.
-
(2002)
J Med Chem
, vol.45
, Issue.8
, pp. 1543-1558
-
-
Toogood, P.L.1
-
2
-
-
27944493925
-
Scale-free networks in cell biology
-
10.1242/jcs.02714, 16254242
-
Albert R. Scale-free networks in cell biology. J Cell Sci 2005, 118(Pt 21):4947-4957. 10.1242/jcs.02714, 16254242.
-
(2005)
J Cell Sci
, vol.118
, Issue.PART 21
, pp. 4947-4957
-
-
Albert, R.1
-
3
-
-
37249004920
-
Reaching for high-hanging fruit in drug discovery at protein-protein interfaces
-
10.1038/nature06526, 18075579
-
Wells J, McClendon CL. Reaching for high-hanging fruit in drug discovery at protein-protein interfaces. Nature 2007, 450(7172):1001-1009. 10.1038/nature06526, 18075579.
-
(2007)
Nature
, vol.450
, Issue.7172
, pp. 1001-1009
-
-
Wells, J.1
McClendon, C.L.2
-
4
-
-
44949154279
-
Small molecular weight protein-protein interaction antagonists-an insurmountable challenge?
-
10.1016/j.cbpa.2008.04.603, 18501203
-
Dömling A. Small molecular weight protein-protein interaction antagonists-an insurmountable challenge?. Curr Opin Chem Biol 2008, 12(3):281-291. 10.1016/j.cbpa.2008.04.603, 18501203.
-
(2008)
Curr Opin Chem Biol
, vol.12
, Issue.3
, pp. 281-291
-
-
Dömling, A.1
-
5
-
-
33644872086
-
Privileged structures as leads in medicinal chemistry
-
Costantino L, Barlocco D. Privileged structures as leads in medicinal chemistry. Curr Med Chem 2006, 65-85. [http://www.ingentaconnect.com/content/ben/cmc/2006/00000013/00000001/art00007].
-
(2006)
Curr Med Chem
, pp. 65-85
-
-
Costantino, L.1
Barlocco, D.2
-
6
-
-
33846060813
-
Modulation of protein-protein interactions by stabilizing/mimicking protein secondary structure elements
-
10.2174/156802607779318325, 17266595
-
Perez-De-Vega JM, Martin-Martinez M, Gonzalez-Muniz R. Modulation of protein-protein interactions by stabilizing/mimicking protein secondary structure elements. Curr Top Med Chem 2007, 7:33-62. [http://www.ingentaconnect.com/content/ben/ctmc/2007/00000007/00000001/art00006], 10.2174/156802607779318325, 17266595.
-
(2007)
Curr Top Med Chem
, vol.7
, pp. 33-62
-
-
Perez-De-Vega, J.M.1
Martin-Martinez, M.2
Gonzalez-Muniz, R.3
-
7
-
-
52749098733
-
Virtual screening of GPCRs: an in silico chemogenomics approach
-
10.1186/1471-2105-9-363, 2553090, 18775075
-
Jacob L, Hoffmann B, Stoven V, Vert JP. Virtual screening of GPCRs: an in silico chemogenomics approach. BMC Bioinformatics 2008, 9:363. 10.1186/1471-2105-9-363, 2553090, 18775075.
-
(2008)
BMC Bioinformatics
, vol.9
, pp. 363
-
-
Jacob, L.1
Hoffmann, B.2
Stoven, V.3
Vert, J.P.4
-
8
-
-
38849139819
-
Efficient peptide-MHC-I binding prediction for alleles with few known binders
-
10.1093/bioinformatics/btm611, 18083718
-
Jacob L, Vert JP. Efficient peptide-MHC-I binding prediction for alleles with few known binders. Bioinformatics 2008, 24(3):358-366. 10.1093/bioinformatics/btm611, 18083718.
-
(2008)
Bioinformatics
, vol.24
, Issue.3
, pp. 358-366
-
-
Jacob, L.1
Vert, J.P.2
-
9
-
-
84866446560
-
Drug target prediction using adverse event report systems: a pharmacogenomic approach
-
10.1093/bioinformatics/bts413, 3436840, 22962489
-
Takarabe M, Kotera M, Nishimura Y, Goto S, Yamanishi Y. Drug target prediction using adverse event report systems: a pharmacogenomic approach. Bioinformatics 2012, 28(18):i611-i618. 10.1093/bioinformatics/bts413, 3436840, 22962489.
-
(2012)
Bioinformatics
, vol.28
, Issue.18
-
-
Takarabe, M.1
Kotera, M.2
Nishimura, Y.3
Goto, S.4
Yamanishi, Y.5
-
10
-
-
20944447214
-
The immune epitope database and analysis resource: from vision to blueprint
-
10.1371%2Fjournal.pbio.0030091, 1065705, 15760272
-
Peters B, Sidney J, Bourne P, Bui HH, Buus S, Doh G, Fleri W, Kronenberg M, Kubo R, Lund O, Nemazee D, Ponomarenko JV, Sathiamurthy M, Schoenberger S, Stewart S, Surko P, Way S, Wilson S, Sette A. The immune epitope database and analysis resource: from vision to blueprint. PLoS Biol 2005, 3(3):e91. 10.1371%2Fjournal.pbio.0030091, 1065705, 15760272.
-
(2005)
PLoS Biol
, vol.3
, Issue.3
-
-
Peters, B.1
Sidney, J.2
Bourne, P.3
Bui, H.H.4
Buus, S.5
Doh, G.6
Fleri, W.7
Kronenberg, M.8
Kubo, R.9
Lund, O.10
Nemazee, D.11
Ponomarenko, J.V.12
Sathiamurthy, M.13
Schoenberger, S.14
Stewart, S.15
Surko, P.16
Way, S.17
Wilson, S.18
Sette, A.19
-
11
-
-
84877669631
-
Toward more accurate pan-specific MHC-peptide binding prediction: a review of current methods and tools
-
Zhang L, Udaka K, Mamitsuka H, Zhu S. Toward more accurate pan-specific MHC-peptide binding prediction: a review of current methods and tools. Brief Bioinform 2011,
-
(2011)
Brief Bioinform
-
-
Zhang, L.1
Udaka, K.2
Mamitsuka, H.3
Zhu, S.4
-
12
-
-
77956922389
-
MultiRTA: A simple yet reliable method for predicting peptide binding affinities for multiple class II MHC allotypes
-
10.1186/1471-2105-11-482, 2957400, 20868497
-
Bordner AJ, Mittelmann HD. MultiRTA: A simple yet reliable method for predicting peptide binding affinities for multiple class II MHC allotypes. BMC Bioinformatics 2010, 11:482. [http://dblp.uni-trier.de/db/journals/bmcbi/bmcbi11.html#BordnerM10a], 10.1186/1471-2105-11-482, 2957400, 20868497.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 482
-
-
Bordner, A.J.1
Mittelmann, H.D.2
-
13
-
-
78149354807
-
NetMHCIIpan-2.0 - Improved pan-specific HLA-DR predictions using a novel concurrent alignment and weight optimization training procedure
-
10.1186/1745-7580-6-9, 2994798, 21073747
-
Nielsen M, Justesen S, Lund O, Lundegaard C, Buus S. NetMHCIIpan-2.0 - Improved pan-specific HLA-DR predictions using a novel concurrent alignment and weight optimization training procedure. Immunome Res 2010, 6:9. [http://www.immunome-research.com/content/6/1/9], 10.1186/1745-7580-6-9, 2994798, 21073747.
-
(2010)
Immunome Res
, vol.6
, pp. 9
-
-
Nielsen, M.1
Justesen, S.2
Lund, O.3
Lundegaard, C.4
Buus, S.5
-
15
-
-
13244260800
-
Oligo kernels for datamining on biological sequences: a case study on prokaryotic translation initiation sites
-
10.1186/1471-2105-14-82, 535353, 15511290
-
Meinicke P, Tech M, Morgenstern B, Merkl R. Oligo kernels for datamining on biological sequences: a case study on prokaryotic translation initiation sites. BMC Bioinformatics 2004, 5:169+. 10.1186/1471-2105-14-82, 535353, 15511290.
-
(2004)
BMC Bioinformatics
, vol.5
-
-
Meinicke, P.1
Tech, M.2
Morgenstern, B.3
Merkl, R.4
-
16
-
-
29144515642
-
Accurate splice site detection for caenorhabditis elegans
-
: MIT Press, B , Vert JP
-
Rätsch G, Sonnenburg S. Accurate splice site detection for caenorhabditis elegans. Kernel Methods Comput Biol 2004, 277-298. : MIT Press, B , Vert JP, [http://www.fml.tuebingen.mpg.de/raetsch/projects/MITBookSplice/files/RaeSon04.pdf].
-
(2004)
Kernel Methods Comput Biol
, pp. 277-298
-
-
Rätsch, G.1
Sonnenburg, S.2
-
17
-
-
4043137356
-
A tutorial on support vector regression
-
Smola AJ, Schölkopf B. A tutorial on support vector regression. Stat Comput 2004, 14:199-222..
-
(2004)
Stat Comput
, vol.14
-
-
Smola, A.J.1
Schölkopf, B.2
-
18
-
-
76449103795
-
Gaussian process: an alternative approach for QSAM modeling of peptides
-
10.1007/s00726-008-0228-1, 19123053
-
Zhou P, Chen X, Wu Y, Shang Z. Gaussian process: an alternative approach for QSAM modeling of peptides. Amino Acids 2010, 38:199-212. 10.1007/s00726-008-0228-1, 19123053.
-
(2010)
Amino Acids
, vol.38
, pp. 199-212
-
-
Zhou, P.1
Chen, X.2
Wu, Y.3
Shang, Z.4
-
20
-
-
34548128437
-
Statistical prediction of protein-chemical interactions based on chemical structure and mass spectrometry data
-
10.1093/bioinformatics/btm266, 17510168
-
Nagamine N, Sakakibara Y. Statistical prediction of protein-chemical interactions based on chemical structure and mass spectrometry data. Bioinformatics 2007, 23(15):2004-2012. 10.1093/bioinformatics/btm266, 17510168.
-
(2007)
Bioinformatics
, vol.23
, Issue.15
, pp. 2004-2012
-
-
Nagamine, N.1
Sakakibara, Y.2
-
21
-
-
38349114038
-
Genome scale enzyme-metabolite and drug-target interaction predictions using the signature molecular descriptor
-
10.1093/bioinformatics/btm580, 18037612
-
Faulon JL, Misra M, Martin S, Sale K, Sapra R. Genome scale enzyme-metabolite and drug-target interaction predictions using the signature molecular descriptor. Bioinformatics 2008, 24(2):225-233. 10.1093/bioinformatics/btm580, 18037612.
-
(2008)
Bioinformatics
, vol.24
, Issue.2
, pp. 225-233
-
-
Faulon, J.L.1
Misra, M.2
Martin, S.3
Sale, K.4
Sapra, R.5
-
22
-
-
4444273377
-
Protein homology detection using string alignment kernels
-
10.1093/bioinformatics/bth141, 14988126
-
Saigo H, Vert JP, Ueda N, Akutsu T. Protein homology detection using string alignment kernels. Bioinformatics 2004, 20(11):1682-1689. [http://bioinformatics.oxfordjournals.org/content/20/11/1682.abstract], 10.1093/bioinformatics/bth141, 14988126.
-
(2004)
Bioinformatics
, vol.20
, Issue.11
, pp. 1682-1689
-
-
Saigo, H.1
Vert, J.P.2
Ueda, N.3
Akutsu, T.4
-
23
-
-
78049461176
-
Exploiting physico-chemical properties in string kernels
-
10.1186/1471-2105-11-S8-S7, 3040533, 21210986
-
Toussaint N, Widmer C, Kohlbacher O, Rätsch G. Exploiting physico-chemical properties in string kernels. BMC Bioinformatics 2010, 11(Suppl 8):S7. 10.1186/1471-2105-11-S8-S7, 3040533, 21210986.
-
(2010)
BMC Bioinformatics
, vol.11
, Issue.SUPPL. 8
-
-
Toussaint, N.1
Widmer, C.2
Kohlbacher, O.3
Rätsch, G.4
-
24
-
-
1542714925
-
Mismatch string kernels for discriminative protein classification
-
10.1093/bioinformatics/btg431, 14990442
-
Leslie CS, Eskin E, Cohen A, Weston J, Noble WS. Mismatch string kernels for discriminative protein classification. Bioinformatics 2004, 20(4):467-476. 10.1093/bioinformatics/btg431, 14990442.
-
(2004)
Bioinformatics
, vol.20
, Issue.4
, pp. 467-476
-
-
Leslie, C.S.1
Eskin, E.2
Cohen, A.3
Weston, J.4
Noble, W.S.5
-
26
-
-
77950423796
-
A new protein binding pocket similarity measure based on comparison of clouds of atoms in 3D: application to ligand prediction
-
10.1186/1471-2105-11-99, 2838872, 20175916
-
Hoffmann B, Zaslavskiy M, Vert JP, Stoven V. A new protein binding pocket similarity measure based on comparison of clouds of atoms in 3D: application to ligand prediction. BMC Bioinformatics 2010, 11:99+. 10.1186/1471-2105-11-99, 2838872, 20175916.
-
(2010)
BMC Bioinformatics
, vol.11
-
-
Hoffmann, B.1
Zaslavskiy, M.2
Vert, J.P.3
Stoven, V.4
-
27
-
-
38349064624
-
A structural alignment kernel for protein structures A structural alignment kernel for protein structures
-
Qiu J, Hue M, Ben-Hur A, Vert JPP, Noble WSS. A structural alignment kernel for protein structures A structural alignment kernel for protein structures. Bioinformatics 2007,
-
(2007)
Bioinformatics
-
-
Qiu, J.1
Hue, M.2
Ben-Hur, A.3
Vert, J.P.P.4
Noble, W.S.S.5
-
28
-
-
0036839162
-
MAMMOTH (Matching molecular models obtained from theory): An automated method for model comparison
-
10.1110/ps.0215902, 2373724, 12381844
-
Ortiz AR, Strauss CE, Olmea O. MAMMOTH (Matching molecular models obtained from theory): An automated method for model comparison. Protein Sci 2002, 11(11):2606-2621. 10.1110/ps.0215902, 2373724, 12381844.
-
(2002)
Protein Sci
, vol.11
, Issue.11
, pp. 2606-2621
-
-
Ortiz, A.R.1
Strauss, C.E.2
Olmea, O.3
-
29
-
-
77952305592
-
Large-scale prediction of protein-protein interactions from structures
-
10.1186/1471-2105-11-144, 2845582, 20298601
-
Hue M, Riffle M, Vert JP, Noble W. Large-scale prediction of protein-protein interactions from structures. BMC Bioinformatics 2010, 11:144+. 10.1186/1471-2105-11-144, 2845582, 20298601.
-
(2010)
BMC Bioinformatics
, vol.11
-
-
Hue, M.1
Riffle, M.2
Vert, J.P.3
Noble, W.4
-
30
-
-
0023890867
-
Measuring the accuracy of diagnostic systems
-
10.1126/science.3287615, 3287615
-
Swets J. Measuring the accuracy of diagnostic systems. Science 1988, 240(4857):1285-1293. [http://www.sciencemag.org/content/240/4857/1285.abstract], 10.1126/science.3287615, 3287615.
-
(1988)
Science
, vol.240
, Issue.4857
, pp. 1285-1293
-
-
Swets, J.1
-
31
-
-
75549088586
-
PepX: a structural database of non-redundant protein-peptide complexes
-
Database issue, 10.1093/nar/gkp893, 2808939, 19880386
-
Vanhee P, Reumers J, Stricher F, Baeten L, Serrano L, Schymkowitz J, Rousseau F. PepX: a structural database of non-redundant protein-peptide complexes. Nucleic Acids Res 2010, 38(Database issue):D545-D551. 10.1093/nar/gkp893, 2808939, 19880386.
-
(2010)
Nucleic Acids Res
, vol.38
-
-
Vanhee, P.1
Reumers, J.2
Stricher, F.3
Baeten, L.4
Serrano, L.5
Schymkowitz, J.6
Rousseau, F.7
-
32
-
-
79954780449
-
Computational design of peptide ligands
-
10.1016/j.tibtech.2011.01.004, 21316780
-
Vanhee P, van der Sloot AM, Verschueren E, Serrano L, Rousseau F, Schymkowitz J. Computational design of peptide ligands. Trends Biotechnol 2011, 29(5):231-239. 10.1016/j.tibtech.2011.01.004, 21316780.
-
(2011)
Trends Biotechnol
, vol.29
, Issue.5
, pp. 231-239
-
-
Vanhee, P.1
van der Sloot, A.M.2
Verschueren, E.3
Serrano, L.4
Rousseau, F.5
Schymkowitz, J.6
-
33
-
-
77649176463
-
Prediction of the binding affinities of peptides to class II MHC using a regularized thermodynamic model
-
10.1186/1471-2105-11-41, 2828437, 20089173
-
Bordner AJ, Mittelmann HD. Prediction of the binding affinities of peptides to class II MHC using a regularized thermodynamic model. BMC Bioinformatics 2010, 11:41. [http://www.biomedcentral.com/1471-2105/11/41], 10.1186/1471-2105-11-41, 2828437, 20089173.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 41
-
-
Bordner, A.J.1
Mittelmann, H.D.2
-
34
-
-
48249083459
-
Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan
-
10.1371/journal.pcbi.1000107, 2430535, 18604266
-
Nielsen M, Lundegaard C, Blicher T, Peters B, Sette A, Justesen S, Buus S, Lund O. Quantitative predictions of peptide binding to any HLA-DR molecule of known sequence: NetMHCIIpan. PLoS Comput Biol 2008, 4(7):e1000107. [http://dx.plos.org/10.1371%2Fjournal.pcbi.1000107], 10.1371/journal.pcbi.1000107, 2430535, 18604266.
-
(2008)
PLoS Comput Biol
, vol.4
, Issue.7
-
-
Nielsen, M.1
Lundegaard, C.2
Blicher, T.3
Peters, B.4
Sette, A.5
Justesen, S.6
Buus, S.7
Lund, O.8
-
35
-
-
0034096818
-
IMGT/HLA Database - a sequence database for the human major histocompatibility complex
-
10.1034/j.1399-0039.2000.550314.x, 10777106
-
Robinson J, Malik A, Parham P, Bodmer J, Marsh S. IMGT/HLA Database - a sequence database for the human major histocompatibility complex. Tissue Antigens 2000, 55(3):280-287. 10.1034/j.1399-0039.2000.550314.x, 10777106.
-
(2000)
Tissue Antigens
, vol.55
, Issue.3
, pp. 280-287
-
-
Robinson, J.1
Malik, A.2
Parham, P.3
Bodmer, J.4
Marsh, S.5
-
36
-
-
84877652255
-
2nd machine learning competition in immunology
-
Dana-Farber Cancer Institute
-
Dana-Farber Cancer Institute 2nd machine learning competition in immunology. 2012, [http://bio.dfci.harvard.edu/DFRMLI/HTML/natural.php], Dana-Farber Cancer Institute.
-
(2012)
-
-
|