-
1
-
-
70449719388
-
Bioinformatics: From the Pre-genomic to the Post-genomic Era
-
Lengauer T. Bioinformatics: From the Pre-genomic to the Post-genomic Era. ERCIM News 2000, 43:6-7.
-
(2000)
ERCIM News
, vol.43
, pp. 6-7
-
-
Lengauer, T.1
-
2
-
-
0027297096
-
Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: An information theoretic analysis
-
10.1073/pnas.90.15.7176, 47099, 8346232
-
Korber BTM, Farber RM, Wolpert DH, Lapedes AS. Covariation of mutations in the V3 loop of human immunodeficiency virus type 1 envelope protein: An information theoretic analysis. PNAS 1993, 90:7176-7180. 10.1073/pnas.90.15.7176, 47099, 8346232.
-
(1993)
PNAS
, vol.90
, pp. 7176-7180
-
-
Korber, B.T.M.1
Farber, R.M.2
Wolpert, D.H.3
Lapedes, A.S.4
-
3
-
-
0033582946
-
Coevolving protein residues: maximum likelihood identification and relationship to structure
-
10.1006/jmbi.1998.2601, 10074416
-
Pollock DD, Taylor WR, Goldman N. Coevolving protein residues: maximum likelihood identification and relationship to structure. J Mol Biol 1999, 287:187-198. 10.1006/jmbi.1998.2601, 10074416.
-
(1999)
J Mol Biol
, vol.287
, pp. 187-198
-
-
Pollock, D.D.1
Taylor, W.R.2
Goldman, N.3
-
4
-
-
0035369829
-
Blind source separation using Renyi's mutual information
-
Hild KE, Erdogmus D, Principe J. Blind source separation using Renyi's mutual information. Signal Process Lett 2001, 8:174-176.
-
(2001)
Signal Process Lett
, vol.8
, pp. 174-176
-
-
Hild, K.E.1
Erdogmus, D.2
Principe, J.3
-
5
-
-
0035311743
-
Blind separation of instantaneous mixture of sources via the Gaussian mutual information criterion
-
Pham DT. Blind separation of instantaneous mixture of sources via the Gaussian mutual information criterion. Signal Process 2001, 81:855-870.
-
(2001)
Signal Process
, vol.81
, pp. 855-870
-
-
Pham, D.T.1
-
7
-
-
0037436412
-
Exploiting the Co-evolution of Interacting Proteins to Discover Interaction Specifity
-
10.1016/S0022-2836(03)00114-1, 12614624
-
Ramani AK, Marcotte EM. Exploiting the Co-evolution of Interacting Proteins to Discover Interaction Specifity. J Mol Biol 2003, 327:273-284. 10.1016/S0022-2836(03)00114-1, 12614624.
-
(2003)
J Mol Biol
, vol.327
, pp. 273-284
-
-
Ramani, A.K.1
Marcotte, E.M.2
-
8
-
-
0346724356
-
Linear and nonlinear ICA based on mutual information
-
Almeida LB. Linear and nonlinear ICA based on mutual information. Method Signal Process 2004, 84:231-245.
-
(2004)
Method Signal Process
, vol.84
, pp. 231-245
-
-
Almeida, L.B.1
-
9
-
-
18544362952
-
Mutual Information in Protein Multiple Sequence Alignments Reveals Two Classes of Coevolving Positions
-
10.1021/bi050293e, 15882054
-
Gloor GB, Martin LC, Wahl LM, Dunn SD. Mutual Information in Protein Multiple Sequence Alignments Reveals Two Classes of Coevolving Positions. Biochemistry 2005, 44:7156-7165. 10.1021/bi050293e, 15882054.
-
(2005)
Biochemistry
, vol.44
, pp. 7156-7165
-
-
Gloor, G.B.1
Martin, L.C.2
Wahl, L.M.3
Dunn, S.D.4
-
10
-
-
0035132230
-
Anisotropy of fluctuation dynamics of proteins with an elastic network model
-
10.1016/S0006-3495(01)76033-X, 1301252, 11159421
-
Atilgan A, Durrell S, Jernigan R, Demirel M, Keskin O, Bahar I. Anisotropy of fluctuation dynamics of proteins with an elastic network model. Biophys J 2001, 80:505-515. 10.1016/S0006-3495(01)76033-X, 1301252, 11159421.
-
(2001)
Biophys J
, vol.80
, pp. 505-515
-
-
Atilgan, A.1
Durrell, S.2
Jernigan, R.3
Demirel, M.4
Keskin, O.5
Bahar, I.6
-
11
-
-
33846247964
-
Computing the Amino Acid Specificity of Fluctuations in Biomolecular Systems
-
Hamacher K, McCammon JA. Computing the Amino Acid Specificity of Fluctuations in Biomolecular Systems. J Chem Theory Comput 2006, 2(3):873-878.
-
(2006)
J Chem Theory Comput
, vol.2
, Issue.3
, pp. 873-878
-
-
Hamacher, K.1
McCammon, J.A.2
-
12
-
-
33645779767
-
Dependency Map of Proteins in the Small Ribosomal Subunit
-
10.1371/journal.pcbi.0020010, 1364506,1364506, 16485038
-
Hamacher K, Trylska J, McCammon JA. Dependency Map of Proteins in the Small Ribosomal Subunit. PLoS Computational Biology 2006, 2:e10. 10.1371/journal.pcbi.0020010, 1364506,1364506, 16485038.
-
(2006)
PLoS Computational Biology
, vol.2
-
-
Hamacher, K.1
Trylska, J.2
McCammon, J.A.3
-
13
-
-
49049087284
-
Relating Sequence Evolution of HIV1-Protease to Its Underlying Molecular Mechanics
-
10.1016/j.gene.2008.06.007, 18590806
-
Hamacher K. Relating Sequence Evolution of HIV1-Protease to Its Underlying Molecular Mechanics. Gene 2008, 422:30-36. 10.1016/j.gene.2008.06.007, 18590806.
-
(2008)
Gene
, vol.422
, pp. 30-36
-
-
Hamacher, K.1
-
14
-
-
84888275132
-
Temperature dependence of fluctuations in HIV1-protease
-
Hamacher K. Temperature dependence of fluctuations in HIV1-protease. Eur Biophys J 2009,
-
(2009)
Eur Biophys J
-
-
Hamacher, K.1
-
15
-
-
5344244656
-
-
R Foundation for Statistical Computing, Vienna, Austria, ISBN 3-900051-07-0, R Development Core Team
-
R Development Core Team R: A Language and Environment for Statistical Computing 2008, R Foundation for Statistical Computing, Vienna, Austria, ISBN 3-900051-07-0, R Development Core Team., http://www.R-project.org
-
(2008)
R: A Language and Environment for Statistical Computing
-
-
-
16
-
-
33750398103
-
Bio3d: an R package for the comparative analysis of protein structures
-
[PMID: 16940322], 10.1093/bioinformatics/btl461, 16940322
-
Grant BJ, Rodrigues APC, ElSawy KM, McCammon JA, Caves LSD. Bio3d: an R package for the comparative analysis of protein structures. Bioinformatics (Oxford, England) 2006, 22(21):2695-2696. [PMID: 16940322], 10.1093/bioinformatics/btl461, 16940322., http://www.ncbi.nlm.nih.gov/pubmed/16940322
-
(2006)
Bioinformatics (Oxford, England)
, vol.22
, Issue.21
, pp. 2695-2696
-
-
Grant, B.J.1
Rodrigues, A.P.C.2
ElSawy, K.M.3
McCammon, J.A.4
Caves, L.S.D.5
-
19
-
-
70449726432
-
Estimating Sufficient Statistics in Co-Evolutionary Analysis by Mutual Information
-
Weil P, Hoffgaard F, Hamacher K. Estimating Sufficient Statistics in Co-Evolutionary Analysis by Mutual Information. Comp Biol Chem 2009, 33:440-444.
-
(2009)
Comp Biol Chem
, vol.33
, pp. 440-444
-
-
Weil, P.1
Hoffgaard, F.2
Hamacher, K.3
-
20
-
-
0035920986
-
Conformations of Proteins in Equilibrium
-
10.1103/PhysRevLett.87.088102, 11497984
-
Micheletti C, Banavar JR, Maritan A. Conformations of Proteins in Equilibrium. Physical Review Letters 2001, 87(8):088102-1. 10.1103/PhysRevLett.87.088102, 11497984.
-
(2001)
Physical Review Letters
, vol.87
, Issue.8
, pp. 88102-88111
-
-
Micheletti, C.1
Banavar, J.R.2
Maritan, A.3
-
22
-
-
0029919190
-
Residue-Residue Potentials with a Favorable Contact Pair Term and an Unfavorable High Packing Density Term, for Simulation and Threading
-
10.1006/jmbi.1996.0114, 8604144
-
Miyazawa S, Jernigan RL. Residue-Residue Potentials with a Favorable Contact Pair Term and an Unfavorable High Packing Density Term, for Simulation and Threading. J Mol Biol 1996, 256:623-644. 10.1006/jmbi.1996.0114, 8604144.
-
(1996)
J Mol Biol
, vol.256
, pp. 623-644
-
-
Miyazawa, S.1
Jernigan, R.L.2
-
23
-
-
0031678069
-
Empirical solvent-mediated potentials hold for both intra-molecular and inter-molecular inter-residue interactions
-
Keskin O, Bahar I, Badretdinov A, Ptitsyn O, Jernigan R. Empirical solvent-mediated potentials hold for both intra-molecular and inter-molecular inter-residue interactions. Prot Sci 1998, 7:2578-2586.
-
(1998)
Prot Sci
, vol.7
, pp. 2578-2586
-
-
Keskin, O.1
Bahar, I.2
Badretdinov, A.3
Ptitsyn, O.4
Jernigan, R.5
-
25
-
-
84947145047
-
A generalized inverse for matrices
-
Penrose R. A generalized inverse for matrices. Proc Cambr Philos Soc 1955, 51:406-413.
-
(1955)
Proc Cambr Philos Soc
, vol.51
, pp. 406-413
-
-
Penrose, R.1
-
26
-
-
1842509978
-
Positive Selection Detection in 40,000 Human Immunodeficiency Virus (HIV) Type 1 Sequences Automatically Identifies Drug Resistance and Positive Fitness Mutations in HIV Protease and Reverse Transcriptase
-
10.1128/JVI.78.7.3722-3732.2004, 371046, 15016892
-
Chen L, Perlina A, Lee CJ. Positive Selection Detection in 40,000 Human Immunodeficiency Virus (HIV) Type 1 Sequences Automatically Identifies Drug Resistance and Positive Fitness Mutations in HIV Protease and Reverse Transcriptase. J Virol 2004, 78(7):3722-3732. 10.1128/JVI.78.7.3722-3732.2004, 371046, 15016892.
-
(2004)
J Virol
, vol.78
, Issue.7
, pp. 3722-3732
-
-
Chen, L.1
Perlina, A.2
Lee, C.J.3
-
27
-
-
85060036181
-
Validity of the Single Processor Approach to Achieving Large-Scale Computing Capabilities
-
Amdahl G. Validity of the Single Processor Approach to Achieving Large-Scale Computing Capabilities. AFIPS Conference Proceedings 1967, 30:483-485.
-
(1967)
AFIPS Conference Proceedings
, vol.30
, pp. 483-485
-
-
Amdahl, G.1
-
28
-
-
28744458859
-
Bioconductor: Open software development for computational biology and bioinformatics
-
10.1186/gb-2004-5-10-r80, 545600, 15461798
-
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J. Bioconductor: Open software development for computational biology and bioinformatics. Genome Biology 2004, 5:R80. 10.1186/gb-2004-5-10-r80, 545600, 15461798., http://genomebiology.com/2004/5/10/R80
-
(2004)
Genome Biology
, vol.5
-
-
Gentleman, R.C.1
Carey, V.J.2
Bates, D.M.3
Bolstad, B.4
Dettling, M.5
Dudoit, S.6
Ellis, B.7
Gautier, L.8
Ge, Y.9
Gentry, J.10
Hornik, K.11
Hothorn, T.12
Huber, W.13
Iacus, S.14
Irizarry, R.15
Leisch, F.16
Li, C.17
Maechler, M.18
Rossini, A.J.19
Sawitzki, G.20
Smith, C.21
Smyth, G.22
Tierney, L.23
Yang, J.Y.H.24
Zhang, J.25
more..
-
29
-
-
35948976625
-
Information Theoretical Measures to Analyze Trajectories in Rational Molecular Design
-
Hamacher K. Information Theoretical Measures to Analyze Trajectories in Rational Molecular Design. J Comp Chem 2007, 28(16):2576-2580.
-
(2007)
J Comp Chem
, vol.28
, Issue.16
, pp. 2576-2580
-
-
Hamacher, K.1
-
30
-
-
36148999067
-
Adaptive Extremal Optimization by Detrended Fluctuation Analysis
-
Hamacher K. Adaptive Extremal Optimization by Detrended Fluctuation Analysis. J Comp Phys 2007, 227(2):1500-1509.
-
(2007)
J Comp Phys
, vol.227
, Issue.2
, pp. 1500-1509
-
-
Hamacher, K.1
-
32
-
-
0029878720
-
VMD - Visual Molecular Dynamics
-
10.1016/0263-7855(96)00018-5, 8744570
-
Humphrey W, Dalke A, Schulten K. VMD - Visual Molecular Dynamics. Journal of Molecular Graphics 1996, 14:33-38. 10.1016/0263-7855(96)00018-5, 8744570.
-
(1996)
Journal of Molecular Graphics
, vol.14
, pp. 33-38
-
-
Humphrey, W.1
Dalke, A.2
Schulten, K.3
|