-
1
-
-
0035775725
-
A new approach to decoding life: Systems biology
-
Ideker, T., Galitski, T. & Hood, L. A new approach to decoding life: systems biology. Annu. Rev. Genomics Hum. Genet. 2, 343-372 (2001).
-
(2001)
Annu. Rev. Genomics Hum. Genet.
, vol.2
, pp. 343-372
-
-
Ideker, T.1
Galitski, T.2
Hood, L.3
-
2
-
-
0033764285
-
The challenges of in silico biology
-
Palsson, B. O. The challenges of in silico biology. Nature Biotechnol. 18, 1147-1150 (2000).
-
(2000)
Nature Biotechnol.
, vol.18
, pp. 1147-1150
-
-
Palsson, B.O.1
-
3
-
-
0036500993
-
Systems biology: A brief overview
-
Kitano, H. Systems biology: a brief overview. Science 295, 1662-1664 (2002).
-
(2002)
Science
, vol.295
, pp. 1662-1664
-
-
Kitano, H.1
-
4
-
-
0344328817
-
An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR)
-
Reed, J. L., Vo, T. D., Schilling, C. H. & Palsson, B. O. An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR). Genome Biol. 4, R54.1-R54.12 (2003).
-
(2003)
Genome Biol.
, vol.4
-
-
Reed, J.L.1
Vo, T.D.2
Schilling, C.H.3
Palsson, B.O.4
-
5
-
-
0037379691
-
New technologies to assess genotype-phenotype relationships
-
Bochner, B. R. New technologies to assess genotype-phenotype relationships. Nature Rev. Genet. 4, 309-314 (2003).
-
(2003)
Nature Rev. Genet.
, vol.4
, pp. 309-314
-
-
Bochner, B.R.1
-
6
-
-
0037246060
-
ASAP, a systematic annotation package for community analysis of genomes
-
Glasner, J. D. et al. ASAP, a systematic annotation package for community analysis of genomes. Nucleic Acids Res. 31, 147-151 (2003).
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 147-151
-
-
Glasner, J.D.1
-
7
-
-
0042816453
-
Large-scale evaluation of in silico gene knockouts in Saccharomyces cerevisiae
-
Forster, J., Famili, I., Palsson, B. O. & Nielsen, J. Large-scale evaluation of in silico gene knockouts in Saccharomyces cerevisiae. Omics 7, 193-202 (2003).
-
(2003)
Omics
, vol.7
, pp. 193-202
-
-
Forster, J.1
Famili, I.2
Palsson, B.O.3
Nielsen, J.4
-
8
-
-
0034625143
-
The Escherichia coli MG1655 in silico metabolic genotype: Its definition, characteristics, and capabilities
-
Edwards, J. S. & Palsson, B. O. The Escherichia coli MG1655 in silico metabolic genotype: its definition, characteristics, and capabilities. Proc. Natl Acad. Sci. USA 97, 5528-5533 (2000).
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 5528-5533
-
-
Edwards, J.S.1
Palsson, B.O.2
-
9
-
-
0037008673
-
Transcriptional regulation in constraints-based metabolic models of Escherichia coli
-
Covert, M. W. & Palsson, B. O. Transcriptional regulation in constraints-based metabolic models of Escherichia coli. J. Biol. Chem. 277, 28058-28064 (2002).
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 28058-28064
-
-
Covert, M.W.1
Palsson, B.O.2
-
10
-
-
0242574985
-
Reconciling gene expression data with known genome-scale regulatory network structures
-
Herrgard, M. J., Covert, M. W. & Palsson, B. O. Reconciling gene expression data with known genome-scale regulatory network structures. Genome Res. 13, 2423-2434 (2003).
-
(2003)
Genome Res.
, vol.13
, pp. 2423-2434
-
-
Herrgard, M.J.1
Covert, M.W.2
Palsson, B.O.3
-
11
-
-
0043032584
-
Global gene expression profiling in Escherichia coli K12. The effects of oxygen availability and FNR
-
Salmon, K. et al. Global gene expression profiling in Escherichia coli K12. The effects of oxygen availability and FNR. J. Biol. Chem. 278, 29837-29855 (2003).
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 29837-29855
-
-
Salmon, K.1
-
12
-
-
0035805255
-
Integrated genomic and proteomic analyses of a systematically perturbed metabolic network
-
Ideker, T. et al. Integrated genomic and proteomic analyses of a systematically perturbed metabolic network. Science 292, 929-934 (2001).
-
(2001)
Science
, vol.292
, pp. 929-934
-
-
Ideker, T.1
-
13
-
-
0028341746
-
Anaerobic activation of arcA transcription in Escherichia coli: Roles of Fnr and ArcA
-
Compan, I. & Touati, D. Anaerobic activation of arcA transcription in Escherichia coli: roles of Fnr and ArcA. Mol. Microbiol. 11, 955-964 (1994).
-
(1994)
Mol. Microbiol.
, vol.11
, pp. 955-964
-
-
Compan, I.1
Touati, D.2
-
14
-
-
0030764901
-
Aerobic regulation of cytochrome d oxidase (cydAB) operon expression in Escherichia coli: Roles of Fnr and ArcA in repression and activation
-
Cotter, P. A., Melville, S. B., Albrecht, J. A. & Gunsalus, R. P. Aerobic regulation of cytochrome d oxidase (cydAB) operon expression in Escherichia coli: roles of Fnr and ArcA in repression and activation. Mol. Microbiol. 25, 605-615 (1997).
-
(1997)
Mol. Microbiol.
, vol.25
, pp. 605-615
-
-
Cotter, P.A.1
Melville, S.B.2
Albrecht, J.A.3
Gunsalus, R.P.4
-
15
-
-
0036545614
-
Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae
-
Griffin, T. J. et al. Complementary profiling of gene expression at the transcriptome and proteome levels in Saccharomyces cerevisiae. Mol. Cell Proteomics 1, 323-333 (2002).
-
(2002)
Mol. Cell Proteomics
, vol.1
, pp. 323-333
-
-
Griffin, T.J.1
-
16
-
-
0037406843
-
Thirteen years of building constraint-based in silico models of Escherichia coli
-
Reed, J. L. & Palsson, B. O. Thirteen years of building constraint-based in silico models of Escherichia coli. J. Bacteriol. 185, 2692-2699 (2003).
-
(2003)
J. Bacteriol.
, vol.185
, pp. 2692-2699
-
-
Reed, J.L.1
Palsson, B.O.2
-
17
-
-
0035125986
-
In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data
-
Edwards, J. S., Ibarra, R. U. & Palsson, B. O. In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data. Nature Biotechnol. 19, 125-130 (2001).
-
(2001)
Nature Biotechnol.
, vol.19
, pp. 125-130
-
-
Edwards, J.S.1
Ibarra, R.U.2
Palsson, B.O.3
-
18
-
-
0037385718
-
Genome-scale microbial in silico models: The constraints-based approach
-
Price, N. D., Papin, J. A., Schilling, C. H. & Palsson, B. O. Genome-scale microbial in silico models: the constraints-based approach. Trends. Biotechnol. 21, 162-169 (2003).
-
(2003)
Trends. Biotechnol.
, vol.21
, pp. 162-169
-
-
Price, N.D.1
Papin, J.A.2
Schilling, C.H.3
Palsson, B.O.4
-
19
-
-
0037069467
-
Analysis of optimality in natural and perturbed metabolic networks
-
Segre, D., Vitkup, D. & Church, G. M. Analysis of optimality in natural and perturbed metabolic networks. Proc. Natl Acad. Sci. USA 99, 15112-15117 (2002).
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 15112-15117
-
-
Segre, D.1
Vitkup, D.2
Church, G.M.3
-
20
-
-
0035812464
-
Probing the performance limits of the Escherichia coli metabolic network subject to gene additions or deletions
-
Burgard, A. P. & Maranas, C. D. Probing the performance limits of the Escherichia coli metabolic network subject to gene additions or deletions. Biotechnol. Bioeng. 74, 364-375 (2001).
-
(2001)
Biotechnol. Bioeng.
, vol.74
, pp. 364-375
-
-
Burgard, A.P.1
Maranas, C.D.2
-
21
-
-
0034798879
-
Minimal reaction sets for Escherichia coli metabolism under different growth requirements and uptake environments
-
Burgard, A. P., Vaidyaraman, S. & Maranas, C. D. Minimal reaction sets for Escherichia coli metabolism under different growth requirements and uptake environments. Biotechnol. Prog. 17, 791-797 (2001).
-
(2001)
Biotechnol. Prog.
, vol.17
, pp. 791-797
-
-
Burgard, A.P.1
Vaidyaraman, S.2
Maranas, C.D.3
-
22
-
-
0034609791
-
The large-scale organization of metabolic networks
-
Jeong, H., Tombor, B., Albert, R., Oltvai, Z. N. & Barabasi, A. L. The large-scale organization of metabolic networks. Nature 407, 651-654 (2000).
-
(2000)
Nature
, vol.407
, pp. 651-654
-
-
Jeong, H.1
Tombor, B.2
Albert, R.3
Oltvai, Z.N.4
Barabasi, A.L.5
-
23
-
-
0036578795
-
Network motifs in the transcriptional regulation network of Escherichia coli
-
Shen-Orr, S. S., Milo, R., Mangan, S. & Alon, U. Network motifs in the transcriptional regulation network of Escherichia coli. Nature Genet. 31, 64-68 (2002).
-
(2002)
Nature Genet.
, vol.31
, pp. 64-68
-
-
Shen-Orr, S.S.1
Milo, R.2
Mangan, S.3
Alon, U.4
-
24
-
-
0242407438
-
Regulatory network of Escherichia coli: Consistency between literature knowledge and microarray profiles
-
Gutierrez-Rios, R. M. et al. Regulatory network of Escherichia coli: consistency between literature knowledge and microarray profiles. Genome Res. 13, 2435-2443 (2003).
-
(2003)
Genome Res.
, vol.13
, pp. 2435-2443
-
-
Gutierrez-Rios, R.M.1
-
25
-
-
10744226222
-
Computational discovery of gene modules and regulatory networks
-
Bar-Joseph, Z. et al. Computational discovery of gene modules and regulatory networks. Nature Biotechnol. 21, 1337-1342 (2003).
-
(2003)
Nature Biotechnol.
, vol.21
, pp. 1337-1342
-
-
Bar-Joseph, Z.1
-
26
-
-
0035824029
-
Regulation of gene expression in flux balance models of metabolism
-
Covert, M. W., Schilling, C. H. & Palsson, B. Regulation of gene expression in flux balance models of metabolism. J. Theor. Biol. 213, 73-88 (2001).
-
(2001)
J. Theor. Biol.
, vol.213
, pp. 73-88
-
-
Covert, M.W.1
Schilling, C.H.2
Palsson, B.3
-
27
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner, F. R. et al. The complete genome sequence of Escherichia coli K-12. Science 277, 1433-1474 (1997).
-
(1997)
Science
, vol.277
, pp. 1433-1474
-
-
Blattner, F.R.1
-
28
-
-
0034612342
-
One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products
-
Datsenko, K. A. & Wanner, B. L. One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc. Natl Acad. Sci. USA 97, 6640-6645 (2000).
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 6640-6645
-
-
Datsenko, K.A.1
Wanner, B.L.2
-
29
-
-
0035793042
-
Model-based analysis of oligonucleotide arrays: Expression index computation and outlier detection
-
Li, C. & Wong, W. H. Model-based analysis of oligonucleotide arrays: expression index computation and outlier detection. Proc. Natl Acad. Sci. USA 98, 31-36 (2001).
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 31-36
-
-
Li, C.1
Wong, W.H.2
-
30
-
-
0001677717
-
Controlling the false discovery rate: A practical and powerful approach to multiple testing
-
Benjamini, Y. & Hochberg, Y. Controlling the false discovery rate: a practical and powerful approach to multiple testing. J. R. Stat. Soc. B 57, 289-300 (1995).
-
(1995)
J. R. Stat. Soc. B
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
|