-
1
-
-
0000995715
-
Genomic engineering: Moving beyond DNA sequence to function
-
Dec
-
J. P. Fitch and B. Sokhansanj, "Genomic engineering: Moving beyond DNA sequence to function," Proc. IEEE, vol. 88, no. 12, pp. 1949-1971, Dec. 2000.
-
(2000)
Proc. IEEE
, vol.88
, Issue.12
, pp. 1949-1971
-
-
Fitch, J.P.1
Sokhansanj, B.2
-
2
-
-
0032616683
-
Identification of gene networks from a small number of gene expression patterns under the Boolean network model
-
T. Akutsu, S. Miyano, and S. Kuhara, "Identification of gene networks from a small number of gene expression patterns under the Boolean network model," Pac. Symp. Biocomput., vol. 4, pp. 17-28, 1999.
-
(1999)
Pac. Symp. Biocomput
, vol.4
, pp. 17-28
-
-
Akutsu, T.1
Miyano, S.2
Kuhara, S.3
-
3
-
-
0015609281
-
The logical analysis of continuous nonlinear biochemical control networks
-
L. Glass and S. A. Kauffman, "The logical analysis of continuous nonlinear biochemical control networks," J. Theor. Biol., vol. 39, no. 1, pp. 103-129, 1973.
-
(1973)
J. Theor. Biol
, vol.39
, Issue.1
, pp. 103-129
-
-
Glass, L.1
Kauffman, S.A.2
-
4
-
-
0037687416
-
Reverse engineering gene networks: Integrating genetic perturbations with dynamical modeling
-
J. Tegnér, M. K. S. Yeung, J. Hasty, and J. J. Collins, "Reverse engineering gene networks: Integrating genetic perturbations with dynamical modeling," Proc. Natl. Acad. Sci. USA, vol. 100, no. 10, pp. 5944-5949, 2003.
-
(2003)
Proc. Natl. Acad. Sci. USA
, vol.100
, Issue.10
, pp. 5944-5949
-
-
Tegnér, J.1
Yeung, M.K.S.2
Hasty, J.3
Collins, J.J.4
-
5
-
-
3042588848
-
Growing genetic regulatory networks from seed genes
-
R. F. Hashimoto, S. Kim, I. Shmulevich, W. Zhang, M. L. Bittner, and E. R. Dougherty, "Growing genetic regulatory networks from seed genes," Bioinformatics, vol. 20, pp. 1241-1247, 2004.
-
(2004)
Bioinformatics
, vol.20
, pp. 1241-1247
-
-
Hashimoto, R.F.1
Kim, S.2
Shmulevich, I.3
Zhang, W.4
Bittner, M.L.5
Dougherty, E.R.6
-
6
-
-
0036355686
-
Integration of genomic datasets to predict protein complexes in yeast
-
R. Jansen, N. Lan, J. Qian, and M. Gerstein, "Integration of genomic datasets to predict protein complexes in yeast," J. Struct. Funct. Genomics, vol. 2, pp. 71-81, 2002.
-
(2002)
J. Struct. Funct. Genomics
, vol.2
, pp. 71-81
-
-
Jansen, R.1
Lan, N.2
Qian, J.3
Gerstein, M.4
-
7
-
-
2942552459
-
An automated method for finding molecular complexes in large protein interaction networks
-
G. D. Bader and C.W. Hogue, "An automated method for finding molecular complexes in large protein interaction networks," BMC Bioinf., vol. 4, no. 2, 2003, pp. 20-29.
-
(2003)
BMC Bioinf
, vol.4
, Issue.2
, pp. 20-29
-
-
Bader, G.D.1
Hogue, C.W.2
-
8
-
-
0038074373
-
Topological structure analysis of the protein-protein interaction network in budding yeast
-
D. Bu, Y. Zhao, L. Cai, H. Xue, X. Zhu, H. Lu, J. Zhang, S. Sun, L. Ling, N. Zhang, G. Li, and R. Chen, "Topological structure analysis of the protein-protein interaction network in budding yeast," Nucl. Acids Res., vol. 31, pp. 2443-2450, 2003.
-
(2003)
Nucl. Acids Res
, vol.31
, pp. 2443-2450
-
-
Bu, D.1
Zhao, Y.2
Cai, L.3
Xue, H.4
Zhu, X.5
Lu, H.6
Zhang, J.7
Sun, S.8
Ling, L.9
Zhang, N.10
Li, G.11
Chen, R.12
-
9
-
-
33746639801
-
Mining and analyzing scale-free protein-protein interaction network
-
X. Hu, "Mining and analyzing scale-free protein-protein interaction network," Int. J. Bioinf. Res. Appl., vol. 1, pp. 81-101, 2005.
-
(2005)
Int. J. Bioinf. Res. Appl
, vol.1
, pp. 81-101
-
-
Hu, X.1
-
10
-
-
0033518234
-
From molecular to modular cell biology
-
L. H. Hartwell, J. J. Hopfield, S. Leibler, and A. W. Murray, "From molecular to modular cell biology," Nature, vol. 402, pp. C47-C52, 1999.
-
(1999)
Nature
, vol.402
-
-
Hartwell, L.H.1
Hopfield, J.J.2
Leibler, S.3
Murray, A.W.4
-
11
-
-
2342651465
-
Calcium regulation of single ryanodine receptor channel gating analyzed using HMM/MCMC statistical methods
-
R. A. Rosales, M. Fill, and A. L. Escobar, "Calcium regulation of single ryanodine receptor channel gating analyzed using HMM/MCMC statistical methods," J. Gen. Physiol., vol. 121, pp. 533-553, 2004.
-
(2004)
J. Gen. Physiol
, vol.121
, pp. 533-553
-
-
Rosales, R.A.1
Fill, M.2
Escobar, A.L.3
-
12
-
-
4944252468
-
-
A. Schliep,A. Schonhuth, andC. Steinhoff, Using hidden Markov models to analyze gene expression time course data, Bioinformatics, 19, pp. i255-i263, 2003.
-
A. Schliep,A. Schonhuth, andC. Steinhoff, "Using hidden Markov models to analyze gene expression time course data," Bioinformatics, vol. 19, pp. i255-i263, 2003.
-
-
-
-
13
-
-
3142744689
-
Modeling T-cell activation using gene expression profiling and state-space models
-
C. Rangel, J. Angus, Z. Ghahramani, M. Lioumi, E. Sotheran, A. Gaiba, D. L.Wild, and F. Falciani, "Modeling T-cell activation using gene expression profiling and state-space models," Bioinformatics, vol. 20, pp. 1361-1372, 2004.
-
(2004)
Bioinformatics
, vol.20
, pp. 1361-1372
-
-
Rangel, C.1
Angus, J.2
Ghahramani, Z.3
Lioumi, M.4
Sotheran, E.5
Gaiba, A.6
Wild, D.L.7
Falciani, F.8
-
14
-
-
0032612220
-
Linear modeling of mRNA expression levels during CNS development and injury
-
P. D'Haeseleer, X. Wen, S. Fuhrman, and R. Somogyi, "Linear modeling of mRNA expression levels during CNS development and injury," in Proc. Pac. Symp. Biocomput., 1999, vol. 4, pp. 41-52.
-
(1999)
Proc. Pac. Symp. Biocomput
, vol.4
, pp. 41-52
-
-
D'Haeseleer, P.1
Wen, X.2
Fuhrman, S.3
Somogyi, R.4
-
15
-
-
3042799574
-
A computational algebra approach to the reverse engineering of gene regulatory networks
-
R. Laubenbacher and B. Stigler, "A computational algebra approach to the reverse engineering of gene regulatory networks," J. Theor. Biol., vol. 229, pp. 523-537, 2004.
-
(2004)
J. Theor. Biol
, vol.229
, pp. 523-537
-
-
Laubenbacher, R.1
Stigler, B.2
-
16
-
-
0036207347
-
Modeling and simulation of genetic regulatory systems: A literature review
-
H. D. Jong, "Modeling and simulation of genetic regulatory systems: A literature review," J. Comput. Biol., vol. 9, pp. 67-103, 2002.
-
(2002)
J. Comput. Biol
, vol.9
, pp. 67-103
-
-
Jong, H.D.1
-
17
-
-
0002054202
-
Modeling the complexity of genetic networks: Understanding multigenic and pleiotropic regulation
-
R. Somogyi and C. A. Sniegoski, "Modeling the complexity of genetic networks: Understanding multigenic and pleiotropic regulation," Complexity, vol. 1, pp. 45-63, 1996.
-
(1996)
Complexity
, vol.1
, pp. 45-63
-
-
Somogyi, R.1
Sniegoski, C.A.2
-
18
-
-
0032611513
-
Modeling gene expression with differential equations
-
T. Chen, H. L. He, and G. M. Church, "Modeling gene expression with differential equations," in Proc. Pac. Symp. Biocomput., 1999, vol. 4, pp. 29-40.
-
(1999)
Proc. Pac. Symp. Biocomput
, vol.4
, pp. 29-40
-
-
Chen, T.1
He, H.L.2
Church, G.M.3
-
20
-
-
1542357701
-
Defining and identifying communities in networks
-
F. Radicchi, C. Castellano, F. Cecconi, V. Loreto, and D. Parisi, "Defining and identifying communities in networks," Proc. Natl. Acad. Sci. USA, vol. 101, pp. 2658-2663, 2004.
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 2658-2663
-
-
Radicchi, F.1
Castellano, C.2
Cecconi, F.3
Loreto, V.4
Parisi, D.5
-
21
-
-
3042523388
-
Predicting protein complex membership using probabilistic network reliability
-
S. Asthana, O. D. King, F. D. Gibbons, and F. P. Roth, "Predicting protein complex membership using probabilistic network reliability," Genome Res., vol. 14, pp. 1170-1175, 2004.
-
(2004)
Genome Res
, vol.14
, pp. 1170-1175
-
-
Asthana, S.1
King, O.D.2
Gibbons, F.D.3
Roth, F.P.4
-
22
-
-
0033040628
-
The Arp2/3 complex:A multifunctional actin organizer
-
L. M. Machesky and K.L.Gould, "The Arp2/3 complex:A multifunctional actin organizer," Curr. Opin. Cell Biol., vol. 11, pp. 117-121, 1999.
-
(1999)
Curr. Opin. Cell Biol
, vol.11
, pp. 117-121
-
-
Machesky, L.M.1
Gould, K.L.2
-
23
-
-
0038718854
-
The structure and function of complex networks
-
M. E. J. Newman, "The structure and function of complex networks," SIAM Rev., vol. 45, pp. 167-256, 2003.
-
(2003)
SIAM Rev
, vol.45
, pp. 167-256
-
-
Newman, M.E.J.1
-
24
-
-
0035985177
-
Identification of genes periodically expressed in the human cell cycle and their expression in tumors
-
M. L. Whitfield, G. Sherlock, A. J. Saldanha, J. I. Murray, C. A. Ball, K. E. Alexander, J. C. Matese, C. M. Perou, M. M. Hurt, P. O. Brown, and D. Botstein, "Identification of genes periodically expressed in the human cell cycle and their expression in tumors," Mol. Biol. Cell. vol. 13, pp. 1977-2000, 2002.
-
(2002)
Mol. Biol. Cell
, vol.13
, pp. 1977-2000
-
-
Whitfield, M.L.1
Sherlock, G.2
Saldanha, A.J.3
Murray, J.I.4
Ball, C.A.5
Alexander, K.E.6
Matese, J.C.7
Perou, C.M.8
Hurt, M.M.9
Brown, P.O.10
Botstein, D.11
-
25
-
-
0038959172
-
Probabilistic principal component analysis
-
M. E. Tipping and C. M. Bishop, "Probabilistic principal component analysis," J. R. Stat. Soc. B, vol. 61, pp. 611-622, 1999.
-
(1999)
J. R. Stat. Soc. B
, vol.61
, pp. 611-622
-
-
Tipping, M.E.1
Bishop, C.M.2
-
27
-
-
0004096392
-
-
New York: Garland
-
B. Alberts, A. Johnson, J. Lewis, M. Raff, D. Bray, K. Hopkin, K. Roberts, and P. Walter, Essential Cell Biology. New York: Garland, 1998.
-
(1998)
Essential Cell Biology
-
-
Alberts, B.1
Johnson, A.2
Lewis, J.3
Raff, M.4
Bray, D.5
Hopkin, K.6
Roberts, K.7
Walter, P.8
-
28
-
-
12144277948
-
State-space model with time delays for gene regulatory networks
-
F. X. Wu, W. J. Zhang, and A. J. Kusalik, "State-space model with time delays for gene regulatory networks," J. Biol. Syst., vol. 12, pp. 483-499, 2004.
-
(2004)
J. Biol. Syst
, vol.12
, pp. 483-499
-
-
Wu, F.X.1
Zhang, W.J.2
Kusalik, A.J.3
-
29
-
-
0032441150
-
Cluster analysis and display of genome-wide expression patterns
-
M. B. Eisen, P. T. Spellman, P. O. Brown, and D. Botstein, "Cluster analysis and display of genome-wide expression patterns," Proc. Natl. Acad. Sci. USA, vol. 95, pp. 14863-14868, 1998.
-
(1998)
Proc. Natl. Acad. Sci. USA
, vol.95
, pp. 14863-14868
-
-
Eisen, M.B.1
Spellman, P.T.2
Brown, P.O.3
Botstein, D.4
-
31
-
-
0034302007
-
Coefficient of determination in nonlinear signal processing
-
E. R. Dougherty, S. Kim, and Y. Chen, "Coefficient of determination in nonlinear signal processing," Signal Process., vol. 80, pp. 2219-2235, 2000.
-
(2000)
Signal Process
, vol.80
, pp. 2219-2235
-
-
Dougherty, E.R.1
Kim, S.2
Chen, Y.3
-
32
-
-
0034661192
-
Multivariate measurement of gene expression relationships
-
S. Kim, E. R. Dougherty, Y. Chen, K. Sivakumar, P. Meltzer, J. M. Trent, and M. Bittner, "Multivariate measurement of gene expression relationships," Genomics, vol. 67, pp. 201-209, 2000.
-
(2000)
Genomics
, vol.67
, pp. 201-209
-
-
Kim, S.1
Dougherty, E.R.2
Chen, Y.3
Sivakumar, K.4
Meltzer, P.5
Trent, J.M.6
Bittner, M.7
-
33
-
-
33644618250
-
On construction of stochastic genetic networks based on gene expression sequences
-
W. Ching, E. Fung, M. Ng, and T. Akutsu, "On construction of stochastic genetic networks based on gene expression sequences," Int. J. Neural Syst., vol. 15, pp. 297-310, 2005.
-
(2005)
Int. J. Neural Syst
, vol.15
, pp. 297-310
-
-
Ching, W.1
Fung, E.2
Ng, M.3
Akutsu, T.4
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