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Call for an enzyme genomics initiative
Peter D Karp
Genome Biol. 2004; 5(8): 401. Published online 2004 July 30. doi: 10.1186/gb-2004-5-8-401
PMCID:
PMC507876
Abstract Full Text PDF–65K Supplementary Material

Is Cited by the Following 20 Articles in this Archive:

The human metabolic reconstruction Recon 1 directs hypotheses of novel human metabolic functions
Ottar Rolfsson, Bernhard Ø Palsson, Ines Thiele
BMC Syst Biol. 2011; 5: 155. Published online 2011 October 1. doi: 10.1186/1752-0509-5-155
PMCID:
PMC3224382
Abstract Full Text PDF–4.8M Supplementary Material
Systematizing the Generation of Missing Metabolic Knowledge
Jeffrey D. Orth, Bernhard Ø. Palsson
Biotechnol Bioeng. Author manuscript; available in PMC 2011 October 15.
Published in final edited form as: Biotechnol Bioeng. 2010 October 15; 107(3): 403–412. doi: 10.1002/bit.22844
PMCID:
PMC3119652
Abstract Full Text PDF–137K
Non-homologous isofunctional enzymes: A systematic analysis of alternative solutions in enzyme evolution
Marina V Omelchenko, Michael Y Galperin, Yuri I Wolf, Eugene V Koonin
Biol Direct. 2010; 5: 31. Published online 2010 April 30. doi: 10.1186/1745-6150-5-31
PMCID:
PMC2876114
Abstract Full Text PDF–1.1M Supplementary Material
Molecular Identification of NAT8 as the Enzyme That Acetylates Cysteine S-Conjugates to Mercapturic Acids
Maria Veiga-da-Cunha, Donatienne Tyteca, Vincent Stroobant, Pierre J. Courtoy, Fred R. Opperdoes, Emile Van Schaftingen
J Biol Chem. 2010 June 11; 285(24): 18888–18898. Published online 2010 April 13. doi: 10.1074/jbc.M110.110924
PMCID:
PMC2881811
Abstract Full Text Supplementary Material
Metabolic pathway reconstruction of eugenol to vanillin bioconversion in Aspergillus niger
Suchita Srivastava, Suaib Luqman, Feroz Khan, Chandan S Chanotiya, Mahendra P Darokar
Bioinformation. 2010; 4(7): 320–325. Published online 2010 January 23.
PMCID:
PMC2957766
Abstract Full Text PDF–295K Supplementary Material
‘Unknown’ proteins and ‘orphan’ enzymes: the missing half of the engineering parts list – and how to find it
Andrew D. Hanson, Anne Pribat, Jeffrey C. Waller, Valérie de Crécy-lagard
Biochem J. Author manuscript; available in PMC 2011 January 18.
Published in final edited form as: Biochem J. 2009 December 14; 425(1): 1–11. doi: 10.1042/BJ20091328
PMCID:
PMC3022307
Abstract Full Text PDF–1.0M
AnEnPi: identification and annotation of analogous enzymes
Thomas D Otto, Ana Carolina R Guimarães, Wim M Degrave, Antonio B de Miranda
BMC Bioinformatics. 2008; 9: 544. Published online 2008 December 17. doi: 10.1186/1471-2105-9-544
PMCID:
PMC2628392
Abstract Full Text PDF–424K
Computational Prediction and Experimental Verification of the Gene Encoding the NAD+/NADP+-Dependent Succinate Semialdehyde Dehydrogenase in Escherichia coli
Tobias Fuhrer, Lifeng Chen, Uwe Sauer, Dennis Vitkup
J Bacteriol. 2007 November; 189(22): 8073–8078. Published online 2007 September 14. doi: 10.1128/JB.01027-07
PMCID:
PMC2168661
Abstract Full Text PDF–360K Supplementary Material
Comparative genomics of bacterial and plant folate synthesis and salvage: predictions and validations
Valérie de Crécy-Lagard, Basma El Yacoubi, Rocío Díaz de la Garza, Alexandre Noiriel, Andrew D Hanson
BMC Genomics. 2007; 8: 245. Published online 2007 July 23. doi: 10.1186/1471-2164-8-245
PMCID:
PMC1971073
Abstract Full Text PDF–664K Supplementary Material
A survey of orphan enzyme activities
Yannick Pouliot, Peter D Karp
BMC Bioinformatics. 2007; 8: 244. Published online 2007 July 10. doi: 10.1186/1471-2105-8-244
PMCID:
PMC1940265
Abstract Full Text PDF–409K
In silico pathway reconstruction: Iron-sulfur cluster biogenesis in Saccharomyces cerevisiae
Rui Alves, Albert Sorribas
BMC Syst Biol. 2007; 1: 10. Published online 2007 January 31. doi: 10.1186/1752-0509-1-10
PMCID:
PMC1839888
Abstract Full Text PDF–1.2M Supplementary Material
High precision multi-genome scale reannotation of enzyme function by EFICAz
Adrian K Arakaki, Weidong Tian, Jeffrey Skolnick
BMC Genomics. 2006; 7: 315. Published online 2006 December 13. doi: 10.1186/1471-2164-7-315
PMCID:
PMC1764738
Abstract Full Text PDF–464K Supplementary Material
CellCircuits: a database of protein network models
H. Craig Mak, Mike Daly, Bianca Gruebel, Trey Ideker
Nucleic Acids Res. 2007 January; 35(Database issue): D538–D545. Published online 2006 November 29. doi: 10.1093/nar/gkl937
PMCID:
PMC1751555
Abstract Full Text PDF–606K
ORENZA: a web resource for studying ORphan ENZyme activities
Olivier Lespinet, Bernard Labedan
BMC Bioinformatics. 2006; 7: 436. Published online 2006 October 6. doi: 10.1186/1471-2105-7-436
PMCID:
PMC1609188
Abstract Full Text PDF–316K
New metrics for comparative genomics
Michael Y Galperin, Eugene Kolker
Curr Opin Biotechnol. Author manuscript; available in PMC 2007 October 1.
Published in final edited form as: Curr Opin Biotechnol. 2006 October; 17(5): 440–447. Published online 2006 September 15. doi: 10.1016/j.copbio.2006.08.007
PMCID:
PMC1764326
Abstract Full Text PDF–395K
The outcomes of pathway database computations depend on pathway ontology
M. L. Green, P. D. Karp
Nucleic Acids Res. 2006; 34(13): 3687–3697. Published online 2006 August 7. doi: 10.1093/nar/gkl438
PMCID:
PMC1540720
Abstract Full Text PDF–430K Supplementary Material
VIRGO: computational prediction of gene functions
Naveed Massjouni, Corban G. Rivera, T. M. Murali
Nucleic Acids Res. 2006 July 1; 34(Web Server issue): W340–W344. Published online 2006 July 14. doi: 10.1093/nar/gkl225
PMCID:
PMC1538839
Abstract Full Text PDF–906K
BioWarehouse: a bioinformatics database warehouse toolkit
Thomas J Lee, Yannick Pouliot, Valerie Wagner, Priyanka Gupta, David WJ Stringer-Calvert, Jessica D Tenenbaum, Peter D Karp
BMC Bioinformatics. 2006; 7: 170. Published online 2006 March 23. doi: 10.1186/1471-2105-7-170
PMCID:
PMC1444936
Abstract Full Text PDF–324K Supplementary Material
Predicting genes for orphan metabolic activities using phylogenetic profiles
Lifeng Chen, Dennis Vitkup
Genome Biol. 2006; 7(2): R17. Published online 2006 February 15. doi: 10.1186/gb-2006-7-2-r17
PMCID:
PMC1431735
Abstract Full Text PDF–633K Supplementary Material
‘Conserved hypothetical’ proteins: prioritization of targets for experimental study
Michael Y. Galperin, Eugene V. Koonin
Nucleic Acids Res. 2004; 32(18): 5452–5463. Published online 2004 October 12. doi: 10.1093/nar/gkh885
PMCID:
PMC524295
Abstract Full Text PDF–174K Supplementary Material
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