-
1
-
-
0034660322
-
Protein function in the post-genomic era
-
Eisenberg D., et al. Protein function in the post-genomic era. Nature 405 (2000) 823-826
-
(2000)
Nature
, vol.405
, pp. 823-826
-
-
Eisenberg, D.1
-
2
-
-
0037464588
-
A vision for the future of genomics research
-
Collins F.S., et al. A vision for the future of genomics research. Nature 422 (2003) 835-847
-
(2003)
Nature
, vol.422
, pp. 835-847
-
-
Collins, F.S.1
-
3
-
-
0038730860
-
On the complete determination of biological systems
-
Selinger D.W., et al. On the complete determination of biological systems. Trends Biotechnol. 21 (2003) 251-254
-
(2003)
Trends Biotechnol.
, vol.21
, pp. 251-254
-
-
Selinger, D.W.1
-
4
-
-
24644519490
-
The transcriptional landscape of the mammalian genome
-
Carninci P., et al. The transcriptional landscape of the mammalian genome. Science 309 (2005) 1559-1563
-
(2005)
Science
, vol.309
, pp. 1559-1563
-
-
Carninci, P.1
-
5
-
-
0035895502
-
The human transcriptome map: clustering of highly expressed genes in chromosomal domains
-
Caron H., et al. The human transcriptome map: clustering of highly expressed genes in chromosomal domains. Science 291 (2001) 1289-1292
-
(2001)
Science
, vol.291
, pp. 1289-1292
-
-
Caron, H.1
-
6
-
-
0343963178
-
The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12
-
Perez-Rueda E., and Collado-Vides J. The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12. Nucleic Acids Res. 28 (2000) 1838-1847
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 1838-1847
-
-
Perez-Rueda, E.1
Collado-Vides, J.2
-
7
-
-
4544352942
-
Transcriptional regulatory code of a eukaryotic genome
-
Harbison C.T., et al. Transcriptional regulatory code of a eukaryotic genome. Nature 431 (2004) 99-104
-
(2004)
Nature
, vol.431
, pp. 99-104
-
-
Harbison, C.T.1
-
8
-
-
0037050004
-
Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry
-
Ho Y., et al. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415 (2002) 180-183
-
(2002)
Nature
, vol.415
, pp. 180-183
-
-
Ho, Y.1
-
9
-
-
0037435030
-
Mass spectrometry-based proteomics
-
Aebersold R., and Mann M. Mass spectrometry-based proteomics. Nature 422 (2003) 198-207
-
(2003)
Nature
, vol.422
, pp. 198-207
-
-
Aebersold, R.1
Mann, M.2
-
10
-
-
26944471174
-
The next wave in metabolome analysis
-
Nielsen J., and Oliver S. The next wave in metabolome analysis. Trends Biotechnol. 23 (2005) 544-546
-
(2005)
Trends Biotechnol.
, vol.23
, pp. 544-546
-
-
Nielsen, J.1
Oliver, S.2
-
11
-
-
2342648924
-
Integrating high-throughput and computational data elucidates bacterial networks
-
Covert M.W., et al. Integrating high-throughput and computational data elucidates bacterial networks. Nature 429 (2004) 92-96
-
(2004)
Nature
, vol.429
, pp. 92-96
-
-
Covert, M.W.1
-
12
-
-
2642566695
-
A probabilistic view of gene function
-
Fraser A.G., and Marcotte E.M. A probabilistic view of gene function. Nat. Genet. 36 (2004) 559-564
-
(2004)
Nat. Genet.
, vol.36
, pp. 559-564
-
-
Fraser, A.G.1
Marcotte, E.M.2
-
13
-
-
33644527950
-
The model organism as a system: integrating 'omics' data sets
-
Joyce A.R., and Palsson B.O. The model organism as a system: integrating 'omics' data sets. Nat. Rev. Mol. Cell Biol. 7 (2006) 198-210
-
(2006)
Nat. Rev. Mol. Cell Biol.
, vol.7
, pp. 198-210
-
-
Joyce, A.R.1
Palsson, B.O.2
-
14
-
-
19244366327
-
Call for an enzyme genomics initiative
-
10.1186/gb-2004-5-8-401
-
Karp P.D. Call for an enzyme genomics initiative. Genome Biol. 5 (2004) 401. http://genomebiology.com 10.1186/gb-2004-5-8-401
-
(2004)
Genome Biol.
, vol.5
, pp. 401
-
-
Karp, P.D.1
-
16
-
-
33745035630
-
Predicting genes for orphan metabolic activities using phylogenetic profiles
-
10.1186/gb-2006-7-2-r17
-
Chen L., and Vitkup D. Predicting genes for orphan metabolic activities using phylogenetic profiles. Genome Biol. 7 (2006) R17. http://genomebiology.com/2006/7/2/R17 10.1186/gb-2006-7-2-r17
-
(2006)
Genome Biol.
, vol.7
-
-
Chen, L.1
Vitkup, D.2
-
17
-
-
33750267965
-
ORENZA: a web resource for studying ORphan ENZyme activities
-
10.1186/1471-2105-7-436
-
Lespinet O., and Labedan B. ORENZA: a web resource for studying ORphan ENZyme activities. BMC Bioinformatics 7 (2006) 436. http://www.biomedcentral.com 10.1186/1471-2105-7-436
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 436
-
-
Lespinet, O.1
Labedan, B.2
-
19
-
-
33645958298
-
BioWarehouse: a bioinformatics database warehouse toolkit
-
10.1186/1471-2105-7-170
-
Lee T.J., et al. BioWarehouse: a bioinformatics database warehouse toolkit. BMC Bioinformatics 7 (2006) 170. http://www.biomedcentral.com 10.1186/1471-2105-7-170
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 170
-
-
Lee, T.J.1
-
20
-
-
0033963089
-
The ENZYME database in 2000
-
Bairoch A. The ENZYME database in 2000. Nucleic Acids Res. 28 (2000) 304-305
-
(2000)
Nucleic Acids Res.
, vol.28
, pp. 304-305
-
-
Bairoch, A.1
-
21
-
-
13444273448
-
The Universal Protein Resource (UniProt)
-
Bairoch A., et al. The Universal Protein Resource (UniProt). Nucleic Acids Res. 33 (2005) D154-D159
-
(2005)
Nucleic Acids Res.
, vol.33
-
-
Bairoch, A.1
-
22
-
-
0037246063
-
The Protein Information Resource
-
Wu C.H., et al. The Protein Information Resource. Nucleic Acids Res. 31 (2003) 345-347
-
(2003)
Nucleic Acids Res.
, vol.31
, pp. 345-347
-
-
Wu, C.H.1
-
23
-
-
27244436714
-
Expansion of the BioCyc collection of pathway/genome databases to 160 genomes
-
Karp P.D., et al. Expansion of the BioCyc collection of pathway/genome databases to 160 genomes. Nucleic Acids Res. 33 (2005) 6083-6089
-
(2005)
Nucleic Acids Res.
, vol.33
, pp. 6083-6089
-
-
Karp, P.D.1
-
24
-
-
0345133803
-
Malease, a hydrase from corn kernels
-
Sacks W., and Jensen C.O. Malease, a hydrase from corn kernels. J. Biol. Chem. 192 (1951) 231-236
-
(1951)
J. Biol. Chem.
, vol.192
, pp. 231-236
-
-
Sacks, W.1
Jensen, C.O.2
-
25
-
-
0021808017
-
Isolation and biochemical characterization of maleic-acid hydratase, an iron-requiring hydrolyase
-
Dreyer J.L. Isolation and biochemical characterization of maleic-acid hydratase, an iron-requiring hydrolyase. Eur. J. Biochem. 150 (1985) 145-154
-
(1985)
Eur. J. Biochem.
, vol.150
, pp. 145-154
-
-
Dreyer, J.L.1
-
26
-
-
0027217189
-
Purification and characterization of maleate hydratase from Pseudomonas pseudoalcaligenes
-
van der Werf M.J., et al. Purification and characterization of maleate hydratase from Pseudomonas pseudoalcaligenes. Appl. Environ. Microbiol. 59 (1993) 2823-2829
-
(1993)
Appl. Environ. Microbiol.
, vol.59
, pp. 2823-2829
-
-
van der Werf, M.J.1
-
27
-
-
0026674191
-
Screening for microorganisms producing D-malate from maleate
-
van der Werf M.J., et al. Screening for microorganisms producing D-malate from maleate. Appl. Environ. Microbiol. 58 (1992) 2854-2860
-
(1992)
Appl. Environ. Microbiol.
, vol.58
, pp. 2854-2860
-
-
van der Werf, M.J.1
-
28
-
-
0015537670
-
Purification and properties of nicotinamide mononucleotide amidohydrolase from Azotobacter vinelandii
-
Imai T. Purification and properties of nicotinamide mononucleotide amidohydrolase from Azotobacter vinelandii. J. Biochem. (Tokyo) 73 (1973) 139-153
-
(1973)
J. Biochem. (Tokyo)
, vol.73
, pp. 139-153
-
-
Imai, T.1
-
29
-
-
0018429146
-
Pyridine nucleotide cycle of Salmonella typhimurium: isolation and characterization of pncA, pncB, and pncC mutants and utilization of exogenous nicotinamide adenine dinucleotide
-
Foster J.W., et al. Pyridine nucleotide cycle of Salmonella typhimurium: isolation and characterization of pncA, pncB, and pncC mutants and utilization of exogenous nicotinamide adenine dinucleotide. J. Bacteriol. 137 (1979) 1165-1175
-
(1979)
J. Bacteriol.
, vol.137
, pp. 1165-1175
-
-
Foster, J.W.1
-
30
-
-
0019851775
-
The pyridine nucleotide cycle. Studies in Escherichia coli and the human cell line D98/AH2
-
Hillyard D., et al. The pyridine nucleotide cycle. Studies in Escherichia coli and the human cell line D98/AH2. J. Biol. Chem. 256 (1981) 8491-8497
-
(1981)
J. Biol. Chem.
, vol.256
, pp. 8491-8497
-
-
Hillyard, D.1
-
31
-
-
24744467372
-
Filling gaps in a metabolic network using expression information
-
Kharchenko P., et al. Filling gaps in a metabolic network using expression information. Bioinformatics 20 (2004) I178-I185
-
(2004)
Bioinformatics
, vol.20
-
-
Kharchenko, P.1
-
32
-
-
33646200155
-
Expression dynamics of a cellular metabolic network
-
Kharchenko P., et al. Expression dynamics of a cellular metabolic network. Mol. Syst. Biol. 1 (2005) E1-E6
-
(2005)
Mol. Syst. Biol.
, vol.1
-
-
Kharchenko, P.1
-
33
-
-
0345863907
-
BRENDA, the enzyme database and major new developments
-
Schomburg I., et al. BRENDA, the enzyme database and major new developments. Nucleic Acids Res. 32 (2004) D431-D432
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Schomburg, I.1
-
34
-
-
0036081062
-
The KEGG database at GenomeNet
-
Kanehisa M., et al. The KEGG database at GenomeNet. Nucleic Acids Res. 30 (2002) 42-46
-
(2002)
Nucleic Acids Res.
, vol.30
, pp. 42-46
-
-
Kanehisa, M.1
-
35
-
-
33644877904
-
MetaCyc: a multiorganism database of metabolic pathways and enzymes
-
Caspi R., et al. MetaCyc: a multiorganism database of metabolic pathways and enzymes. Nucleic Acids Res. 34 (2006) D511-D516
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Caspi, R.1
-
37
-
-
0036308741
-
Enzyme function less conserved than anticipated
-
Rost B. Enzyme function less conserved than anticipated. J. Mol. Biol. 318 (2002) 595-608
-
(2002)
J. Mol. Biol.
, vol.318
, pp. 595-608
-
-
Rost, B.1
-
38
-
-
0142106373
-
How well is enzyme function conserved as a function of pairwise sequence identity?
-
Tian W., and Skolnick J. How well is enzyme function conserved as a function of pairwise sequence identity?. J. Mol. Biol. 333 (2003) 863-882
-
(2003)
J. Mol. Biol.
, vol.333
, pp. 863-882
-
-
Tian, W.1
Skolnick, J.2
-
39
-
-
0034677669
-
Assessing annotation transfer for genomics: quantifying the relations between protein sequence, structure and function through traditional and probabilistic scores
-
Wilson C.A., et al. Assessing annotation transfer for genomics: quantifying the relations between protein sequence, structure and function through traditional and probabilistic scores. J. Mol. Biol. 297 (2000) 233-249
-
(2000)
J. Mol. Biol.
, vol.297
, pp. 233-249
-
-
Wilson, C.A.1
-
40
-
-
0030763957
-
Recent enhancements to the Blocks Database servers
-
Henikoff J.G., et al. Recent enhancements to the Blocks Database servers. Nucleic Acids Res. 25 (1997) 222-225
-
(1997)
Nucleic Acids Res.
, vol.25
, pp. 222-225
-
-
Henikoff, J.G.1
-
41
-
-
0033523989
-
Protein interaction maps for complete genomes based on gene fusion events
-
Enright A.J., et al. Protein interaction maps for complete genomes based on gene fusion events. Nature 402 (1999) 86-90
-
(1999)
Nature
, vol.402
, pp. 86-90
-
-
Enright, A.J.1
-
42
-
-
0033055062
-
The use of gene clusters to infer functional coupling
-
Overbeek R., et al. The use of gene clusters to infer functional coupling. Proc. Natl. Acad. Sci. U. S. A. 96 (1999) 2896-2901
-
(1999)
Proc. Natl. Acad. Sci. U. S. A.
, vol.96
, pp. 2896-2901
-
-
Overbeek, R.1
-
43
-
-
0033551248
-
Assigning protein functions by comparative genome analysis: protein phylogenetic profiles
-
Pellegrini M., et al. Assigning protein functions by comparative genome analysis: protein phylogenetic profiles. Proc. Natl. Acad. Sci. U. S. A. 96 (1999) 4285-4288
-
(1999)
Proc. Natl. Acad. Sci. U. S. A.
, vol.96
, pp. 4285-4288
-
-
Pellegrini, M.1
-
44
-
-
0030669030
-
Exploring the metabolic and genetic control of gene expression on a genomic scale
-
DeRisi J.L., et al. Exploring the metabolic and genetic control of gene expression on a genomic scale. Science 278 (1997) 680-686
-
(1997)
Science
, vol.278
, pp. 680-686
-
-
DeRisi, J.L.1
-
45
-
-
4644231028
-
Prolinks: a database of protein functional linkages derived from coevolution
-
Bowers P.M., et al. Prolinks: a database of protein functional linkages derived from coevolution. Genome Biol. 5 (2004) R35. http://genomebiology.com/2004/5/5/R35
-
(2004)
Genome Biol.
, vol.5
-
-
Bowers, P.M.1
-
46
-
-
0347364646
-
Genome evolution reveals biochemical networks and functional modules
-
von Mering C., et al. Genome evolution reveals biochemical networks and functional modules. Proc. Natl. Acad. Sci. U. S. A. 100 (2003) 15428-15433
-
(2003)
Proc. Natl. Acad. Sci. U. S. A.
, vol.100
, pp. 15428-15433
-
-
von Mering, C.1
-
47
-
-
33646171940
-
Identifying metabolic enzymes with multiple types of association evidence
-
10.1186/1471-2105-7-177
-
Kharchenko P., et al. Identifying metabolic enzymes with multiple types of association evidence. BMC Bioinformatics 7 (2006) 177. http://www.biomedcentral.com 10.1186/1471-2105-7-177
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 177
-
-
Kharchenko, P.1
-
48
-
-
11244328060
-
The Pathway Tools software
-
Karp P.D., et al. The Pathway Tools software. Bioinformatics 18 (2002) S225-S232
-
(2002)
Bioinformatics
, vol.18
-
-
Karp, P.D.1
-
49
-
-
13244268322
-
A Bayesian method for identifying missing enzymes in predicted metabolic pathway databases
-
10.1186/1471-2105-5-76
-
Green M.L., and Karp P.D. A Bayesian method for identifying missing enzymes in predicted metabolic pathway databases. BMC Bioinformatics 5 (2004) 76. http://www.biomedcentral.com 10.1186/1471-2105-5-76
-
(2004)
BMC Bioinformatics
, vol.5
, pp. 76
-
-
Green, M.L.1
Karp, P.D.2
-
50
-
-
33644883005
-
-
Dudley, A.M. et al. A global view of pleiotropy and phenotypically derived gene function in yeast. Mol. Syst. Biol. (in press) DOI:10.1038/msb4100004 (www.nature.com)
-
-
-
-
51
-
-
0032753923
-
Metabolic flux ratio analysis of genetic and environmental modulations of Escherichia coli central carbon metabolism
-
Sauer U., et al. Metabolic flux ratio analysis of genetic and environmental modulations of Escherichia coli central carbon metabolism. J. Bacteriol. 181 (1999) 6679-6688
-
(1999)
J. Bacteriol.
, vol.181
, pp. 6679-6688
-
-
Sauer, U.1
|