-
1
-
-
31144435316
-
Towards multidimensional genome annotation
-
10.1038/nrg1769, 16418748
-
Reed JL, Famili I, Thiele I, Palsson BO. Towards multidimensional genome annotation. Nat Rev Genet 2006, 7:130-141. 10.1038/nrg1769, 16418748.
-
(2006)
Nat Rev Genet
, vol.7
, pp. 130-141
-
-
Reed, J.L.1
Famili, I.2
Thiele, I.3
Palsson, B.O.4
-
2
-
-
58549108388
-
Reconstruction of biochemical networks in microorganisms
-
3119670, 19116616
-
Feist AM, Herrgård MJ, Thiele I, Reed JL, Palsson B. Reconstruction of biochemical networks in microorganisms. Nat Rev Microbiol 2009, 7:129-143. 3119670, 19116616.
-
(2009)
Nat Rev Microbiol
, vol.7
, pp. 129-143
-
-
Feist, A.M.1
Herrgård, M.J.2
Thiele, I.3
Reed, J.L.4
Palsson, B.5
-
4
-
-
75149129569
-
A protocol for generating a high-quality genome-scale metabolic reconstruction
-
3125167, 20057383
-
Thiele I, Palsson B. A protocol for generating a high-quality genome-scale metabolic reconstruction. Nat Protoc 2010, 5:93-121. 3125167, 20057383.
-
(2010)
Nat Protoc
, vol.5
, pp. 93-121
-
-
Thiele, I.1
Palsson, B.2
-
5
-
-
80051537012
-
Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism
-
Chang RL, Ghamsari L, Manichaikul A, Hom EFY, Balaji S, Fu W, Shen Y, Hao T, Palsson B, Salehi-Ashtiani K, Papin JA. Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism. Mol Syst Biol 2011, 7:518.
-
(2011)
Mol Syst Biol
, vol.7
, pp. 518
-
-
Chang, R.L.1
Ghamsari, L.2
Manichaikul, A.3
Hom, E.F.Y.4
Balaji, S.5
Fu, W.6
Shen, Y.7
Hao, T.8
Palsson, B.9
Salehi-Ashtiani, K.10
Papin, J.A.11
-
6
-
-
68349108021
-
Metabolic network analysis integrated with transcript verification for sequenced genomes
-
10.1038/nmeth.1348, 3139173, 19597503
-
Manichaikul A, Ghamsari L, Hom EFY, Lin C, Murray RR, Chang RL, Balaji S, Hao T, Shen Y, Chavali AK, Thiele I, Yang X, Fan C, Mello E, Hill DE, Vidal M, Salehi-Ashtiani K, Papin JA. Metabolic network analysis integrated with transcript verification for sequenced genomes. Nat Methods 2009, 6:589-592. 10.1038/nmeth.1348, 3139173, 19597503.
-
(2009)
Nat Methods
, vol.6
, pp. 589-592
-
-
Manichaikul, A.1
Ghamsari, L.2
Hom, E.F.Y.3
Lin, C.4
Murray, R.R.5
Chang, R.L.6
Balaji, S.7
Hao, T.8
Shen, Y.9
Chavali, A.K.10
Thiele, I.11
Yang, X.12
Fan, C.13
Mello, E.14
Hill, D.E.15
Vidal, M.16
Salehi-Ashtiani, K.17
Papin, J.A.18
-
7
-
-
13544265458
-
Modeling hybridoma cell metabolism using a generic genome-scale metabolic model of Mus musculus
-
Sheikh K, Förster J, Nielsen LK. Modeling hybridoma cell metabolism using a generic genome-scale metabolic model of Mus musculus. Biotechnol Prog 2005, 21:112-121.
-
(2005)
Biotechnol Prog
, vol.21
, pp. 112-121
-
-
Sheikh, K.1
Förster, J.2
Nielsen, L.K.3
-
8
-
-
67651209209
-
On the reconstruction of the Mus musculus genome-scale metabolic network model
-
Quek L-E, Nielsen LK. On the reconstruction of the Mus musculus genome-scale metabolic network model. Genome Inform 2008, 21:89-100.
-
(2008)
Genome Inform
, vol.21
, pp. 89-100
-
-
Quek, L.-E.1
Nielsen, L.K.2
-
9
-
-
77957924740
-
A detailed genome-wide reconstruction of mouse metabolism based on human Recon 1
-
10.1186/1752-0509-4-140, 2978158, 20959003
-
Sigurdsson MI, Jamshidi N, Steingrimsson E, Thiele I, Palsson BO. A detailed genome-wide reconstruction of mouse metabolism based on human Recon 1. BMC Syst Biol 2010, 4:140. 10.1186/1752-0509-4-140, 2978158, 20959003.
-
(2010)
BMC Syst Biol
, vol.4
, pp. 140
-
-
Sigurdsson, M.I.1
Jamshidi, N.2
Steingrimsson, E.3
Thiele, I.4
Palsson, B.O.5
-
10
-
-
65349131424
-
Reconstruction of metabolic pathways for the cattle genome
-
10.1186/1752-0509-3-33, 2669051, 19284618
-
Seo S, Lewin HA. Reconstruction of metabolic pathways for the cattle genome. BMC Syst Biol 2009, 3:33. 10.1186/1752-0509-3-33, 2669051, 19284618.
-
(2009)
BMC Syst Biol
, vol.3
, pp. 33
-
-
Seo, S.1
Lewin, H.A.2
-
11
-
-
33846910173
-
Global reconstruction of the human metabolic network based on genomic and bibliomic data
-
10.1073/pnas.0610772104, 1794290, 17267599
-
Duarte NC, Becker SA, Jamshidi N, Thiele I, Mo ML, Vo TD, Srivas R, Palsson B. Global reconstruction of the human metabolic network based on genomic and bibliomic data. Proc Natl Acad Sci USA 2007, 104:1777-1782. 10.1073/pnas.0610772104, 1794290, 17267599.
-
(2007)
Proc Natl Acad Sci USA
, vol.104
, pp. 1777-1782
-
-
Duarte, N.C.1
Becker, S.A.2
Jamshidi, N.3
Thiele, I.4
Mo, M.L.5
Vo, T.D.6
Srivas, R.7
Palsson, B.8
-
12
-
-
34548860112
-
The Edinburgh human metabolic network reconstruction and its functional analysis
-
2013923, 17882155
-
Ma H, Sorokin A, Mazein A, Selkov A, Selkov E, Demin O, Goryanin I. The Edinburgh human metabolic network reconstruction and its functional analysis. Mol Syst Biol 2007, 3:135. 2013923, 17882155.
-
(2007)
Mol Syst Biol
, vol.3
, pp. 135
-
-
Ma, H.1
Sorokin, A.2
Mazein, A.3
Selkov, A.4
Selkov, E.5
Demin, O.6
Goryanin, I.7
-
13
-
-
77956407882
-
HepatoNet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology
-
Gille C, Bolling C, Hoppe A, Bulik S, Hoffmann S, Hubner K, Karlstadt A, Ganeshan R, Konig M, Rother K, Weidlich M, Behre J, Holzhutter H-G. HepatoNet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology. Mol Syst Biol 2010, 6.
-
(2010)
Mol Syst Biol
, vol.6
-
-
Gille, C.1
Bolling, C.2
Hoppe, A.3
Bulik, S.4
Hoffmann, S.5
Hubner, K.6
Karlstadt, A.7
Ganeshan, R.8
Konig, M.9
Rother, K.10
Weidlich, M.11
Behre, J.12
Holzhutter, H.-G.13
-
14
-
-
77952674482
-
Metabolic network topology reveals transcriptional regulatory signatures of type 2 diabetes
-
10.1371/journal.pcbi.1000729, 2848542, 20369014
-
Zelezniak A, Pers TH, Soares S, Patti ME, Patil KR. Metabolic network topology reveals transcriptional regulatory signatures of type 2 diabetes. PLoS Comput Biol 2010, 6:e1000729. 10.1371/journal.pcbi.1000729, 2848542, 20369014.
-
(2010)
PLoS Comput Biol
, vol.6
-
-
Zelezniak, A.1
Pers, T.H.2
Soares, S.3
Patti, M.E.4
Patil, K.R.5
-
15
-
-
51349092391
-
Network-based prediction of human tissue-specific metabolism
-
10.1038/nbt.1487, 18711341
-
Shlomi T, Cabili MN, Herrgård MJ, Palsson B, Ruppin E. Network-based prediction of human tissue-specific metabolism. Nat Biotechnol 2008, 26:1003-1010. 10.1038/nbt.1487, 18711341.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1003-1010
-
-
Shlomi, T.1
Cabili, M.N.2
Herrgård, M.J.3
Palsson, B.4
Ruppin, E.5
-
16
-
-
78049445175
-
Drug off-target effects predicted using structural analysis in the context of a metabolic network model
-
10.1371/journal.pcbi.1000938, 2950675, 20957118
-
Chang RL, Xie L, Xie L, Bourne PE, Palsson B. Drug off-target effects predicted using structural analysis in the context of a metabolic network model. PLoS Comput Biol 2010, 6:e1000938. 10.1371/journal.pcbi.1000938, 2950675, 20957118.
-
(2010)
PLoS Comput Biol
, vol.6
-
-
Chang, R.L.1
Xie, L.2
Xie, L.3
Bourne, P.E.4
Palsson, B.5
-
17
-
-
77958537509
-
Insight into human alveolar macrophage and M. tuberculosis interactions via metabolic reconstructions
-
Bordbar A, Lewis NE, Schellenberger J, Palsson BO, Jamshidi N. Insight into human alveolar macrophage and M. tuberculosis interactions via metabolic reconstructions. Mol Syst Biol 2010, 6.
-
(2010)
Mol Syst Biol
, vol.6
-
-
Bordbar, A.1
Lewis, N.E.2
Schellenberger, J.3
Palsson, B.O.4
Jamshidi, N.5
-
18
-
-
77951612556
-
BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions
-
10.1186/1471-2105-11-213, 2874806, 20426874
-
Schellenberger J, Park J, Conrad T, Palsson B. BiGG: a Biochemical Genetic and Genomic knowledgebase of large scale metabolic reconstructions. BMC Bioinformatics 2010, 11:213. 10.1186/1471-2105-11-213, 2874806, 20426874.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 213
-
-
Schellenberger, J.1
Park, J.2
Conrad, T.3
Palsson, B.4
-
19
-
-
77749320898
-
What is flux balance analysis?
-
10.1038/nbt.1614, 3108565, 20212490
-
Orth JD, Thiele I, Palsson B. What is flux balance analysis?. Nat Biotechnol 2010, 28:245-248. 10.1038/nbt.1614, 3108565, 20212490.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 245-248
-
-
Orth, J.D.1
Thiele, I.2
Palsson, B.3
-
20
-
-
34547676311
-
Optimization based automated curation of metabolic reconstructions
-
10.1186/1471-2105-8-212, 1933441, 17584497
-
Satish Kumar V, Dasika MS, Maranas CD. Optimization based automated curation of metabolic reconstructions. BMC Bioinformatics 2007, 8:212. 10.1186/1471-2105-8-212, 1933441, 17584497.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 212
-
-
Satish Kumar, V.1
Dasika, M.S.2
Maranas, C.D.3
-
21
-
-
70349306551
-
Systematic phenome analysis of Escherichia coli multiple-knockout mutants reveals hidden reactions in central carbon metabolism
-
2758719, 19756045
-
Nakahigashi K, Toya Y, Ishii N, Soga T, Hasegawa M, Watanabe H, Takai Y, Honma M, Mori H, Tomita M. Systematic phenome analysis of Escherichia coli multiple-knockout mutants reveals hidden reactions in central carbon metabolism. Mol Syst Biol 2009, 5:306. 2758719, 19756045.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 306
-
-
Nakahigashi, K.1
Toya, Y.2
Ishii, N.3
Soga, T.4
Hasegawa, M.5
Watanabe, H.6
Takai, Y.7
Honma, M.8
Mori, H.9
Tomita, M.10
-
22
-
-
19244366327
-
Call for an enzyme genomics initiative
-
10.1186/gb-2004-5-8-401, 507876, 15287973
-
Karp PD. Call for an enzyme genomics initiative. Genome Biol 2004, 5:401. 10.1186/gb-2004-5-8-401, 507876, 15287973.
-
(2004)
Genome Biol
, vol.5
, pp. 401
-
-
Karp, P.D.1
-
24
-
-
34447338048
-
Distribution of orphan metabolic activities
-
10.1016/j.tibtech.2007.06.001, 17580095
-
Chen L, Vitkup D. Distribution of orphan metabolic activities. Trends Biotechnol 2007, 25:343-348. 10.1016/j.tibtech.2007.06.001, 17580095.
-
(2007)
Trends Biotechnol
, vol.25
, pp. 343-348
-
-
Chen, L.1
Vitkup, D.2
-
25
-
-
72449145463
-
"Unknown" proteins and "orphan" enzymes: the missing half of the engineering parts list--and how to find it
-
Hanson AD, Pribat A, Waller JC, de Crécy-Lagard V. "Unknown" proteins and "orphan" enzymes: the missing half of the engineering parts list--and how to find it. Biochem J 2010, 425:1-11.
-
(2010)
Biochem J
, vol.425
, pp. 1-11
-
-
Hanson, A.D.1
Pribat, A.2
Waller, J.C.3
de Crécy-Lagard, V.4
-
26
-
-
78651335279
-
Systematizing the generation of missing metabolic knowledge
-
10.1002/bit.22844, 20589842
-
Orth JD, Palsson B. Systematizing the generation of missing metabolic knowledge. Biotechnol Bioeng 2010, 107:403-412. 10.1002/bit.22844, 20589842.
-
(2010)
Biotechnol Bioeng
, vol.107
, pp. 403-412
-
-
Orth, J.D.1
Palsson, B.2
-
27
-
-
1642457253
-
The effects of alternate optimal solutions in constraint-based genome-scale metabolic models
-
10.1016/j.ymben.2003.09.002, 14642354
-
Mahadevan R, Schilling CH. The effects of alternate optimal solutions in constraint-based genome-scale metabolic models. Metab Eng 2003, 5:264-276. 10.1016/j.ymben.2003.09.002, 14642354.
-
(2003)
Metab Eng
, vol.5
, pp. 264-276
-
-
Mahadevan, R.1
Schilling, C.H.2
-
28
-
-
33751226921
-
Systems approach to refining genome annotation
-
10.1073/pnas.0603364103, 1859954, 17088549
-
Reed JL, Patel TR, Chen KH, Joyce AR, Applebee MK, Herring CD, Bui OT, Knight EM, Fong SS, Palsson BO. Systems approach to refining genome annotation. Proc Natl Acad Sci USA 2006, 103:17480-17484. 10.1073/pnas.0603364103, 1859954, 17088549.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 17480-17484
-
-
Reed, J.L.1
Patel, T.R.2
Chen, K.H.3
Joyce, A.R.4
Applebee, M.K.5
Herring, C.D.6
Bui, O.T.7
Knight, E.M.8
Fong, S.S.9
Palsson, B.O.10
-
29
-
-
63549108441
-
GrowMatch: an automated method for reconciling in silico/in vivo growth predictions
-
10.1371/journal.pcbi.1000308, 2645679, 19282964
-
Kumar VS, Maranas CD. GrowMatch: an automated method for reconciling in silico/in vivo growth predictions. PLoS Comput Biol 2009, 5:e1000308. 10.1371/journal.pcbi.1000308, 2645679, 19282964.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Kumar, V.S.1
Maranas, C.D.2
-
30
-
-
33646362289
-
Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes
-
10.1074/jbc.M510016200, 16319065
-
Fong SS, Nanchen A, Palsson BO, Sauer U. Latent pathway activation and increased pathway capacity enable Escherichia coli adaptation to loss of key metabolic enzymes. J Biol Chem 2006, 281:8024-8033. 10.1074/jbc.M510016200, 16319065.
-
(2006)
J Biol Chem
, vol.281
, pp. 8024-8033
-
-
Fong, S.S.1
Nanchen, A.2
Palsson, B.O.3
Sauer, U.4
-
31
-
-
0032919364
-
KEGG: Kyoto Encyclopedia of Genes and Genomes
-
10.1093/nar/27.1.29, 148090, 9847135
-
Ogata H, Goto S, Sato K, Fujibuchi W, Bono H, Kanehisa M. KEGG: Kyoto Encyclopedia of Genes and Genomes. Nucleic Acids Res 1999, 27:29-34. 10.1093/nar/27.1.29, 148090, 9847135.
-
(1999)
Nucleic Acids Res
, vol.27
, pp. 29-34
-
-
Ogata, H.1
Goto, S.2
Sato, K.3
Fujibuchi, W.4
Bono, H.5
Kanehisa, M.6
-
32
-
-
3843128481
-
Reconstruction and validation of Saccharomyces cerevisiae iND750, a fully compartmentalized genome-scale metabolic model
-
10.1101/gr.2250904, 442145, 15197165
-
Duarte NC, Herrgård MJ, Palsson B. Reconstruction and validation of Saccharomyces cerevisiae iND750, a fully compartmentalized genome-scale metabolic model. Genome Res 2004, 14:1298-1309. 10.1101/gr.2250904, 442145, 15197165.
-
(2004)
Genome Res
, vol.14
, pp. 1298-1309
-
-
Duarte, N.C.1
Herrgård, M.J.2
Palsson, B.3
-
33
-
-
78650541419
-
Von Bertalanffy 1.0: a COBRA toolbox extension to thermodynamically constrain metabolic models
-
10.1093/bioinformatics/btq607, 21115436
-
Fleming RMT, Thiele I. von Bertalanffy 1.0: a COBRA toolbox extension to thermodynamically constrain metabolic models. Bioinformatics 2011, 27:142-143. 10.1093/bioinformatics/btq607, 21115436.
-
(2011)
Bioinformatics
, vol.27
, pp. 142-143
-
-
Fleming, R.M.T.1
Thiele, I.2
-
34
-
-
0036081012
-
BRENDA, enzyme data and metabolic information
-
10.1093/nar/30.1.47, 99121, 11752250
-
Schomburg I, Chang A, Schomburg D. BRENDA, enzyme data and metabolic information. Nucleic Acids Res 2002, 30:47-49. 10.1093/nar/30.1.47, 99121, 11752250.
-
(2002)
Nucleic Acids Res
, vol.30
, pp. 47-49
-
-
Schomburg, I.1
Chang, A.2
Schomburg, D.3
-
35
-
-
36248990302
-
Including metabolite concentrations into flux balance analysis: thermodynamic realizability as a constraint on flux distributions in metabolic networks
-
10.1186/1752-0509-1-23, 1903363, 17543097
-
Hoppe A, Hoffmann S, Holzhütter H-G. Including metabolite concentrations into flux balance analysis: thermodynamic realizability as a constraint on flux distributions in metabolic networks. BMC Syst Biol 2007, 1:23. 10.1186/1752-0509-1-23, 1903363, 17543097.
-
(2007)
BMC Syst Biol
, vol.1
, pp. 23
-
-
Hoppe, A.1
Hoffmann, S.2
Holzhütter, H.-G.3
-
36
-
-
0031866405
-
Purification and characterization of adenosine diphosphate ribose pyrophosphatase from human erythrocytes
-
10.1016/S1357-2725(97)00142-8, 9693963
-
Kim JS, Kim WY, Rho HW, Park JW, Park BH, Han MK, Kim UH, Kim HR. Purification and characterization of adenosine diphosphate ribose pyrophosphatase from human erythrocytes. Int J Biochem Cell Biol 1998, 30:629-638. 10.1016/S1357-2725(97)00142-8, 9693963.
-
(1998)
Int J Biochem Cell Biol
, vol.30
, pp. 629-638
-
-
Kim, J.S.1
Kim, W.Y.2
Rho, H.W.3
Park, J.W.4
Park, B.H.5
Han, M.K.6
Kim, U.H.7
Kim, H.R.8
-
37
-
-
0033452851
-
Cloning, expression and characterization of YSA1H, a human adenosine 5'-diphosphosugar pyrophosphatase possessing a MutT motif
-
1220648, 10567213
-
Gasmi L, Cartwright JL, McLennan AG. Cloning, expression and characterization of YSA1H, a human adenosine 5'-diphosphosugar pyrophosphatase possessing a MutT motif. Biochem J 1999, 344(Pt 2):331-337. 1220648, 10567213.
-
(1999)
Biochem J
, vol.344
, Issue.PART 2
, pp. 331-337
-
-
Gasmi, L.1
Cartwright, J.L.2
McLennan, A.G.3
-
38
-
-
0034708599
-
Cloning and characterization of a new member of the Nudix hydrolases from human and mouse
-
10.1074/jbc.275.12.8844, 10722730
-
Yang H, Slupska MM, Wei YF, Tai JH, Luther WM, Xia YR, Shih DM, Chiang JH, Baikalov C, Fitz-Gibbon S, Phan IT, Conrad A, Miller JH. Cloning and characterization of a new member of the Nudix hydrolases from human and mouse. J Biol Chem 2000, 275:8844-8853. 10.1074/jbc.275.12.8844, 10722730.
-
(2000)
J Biol Chem
, vol.275
, pp. 8844-8853
-
-
Yang, H.1
Slupska, M.M.2
Wei, Y.F.3
Tai, J.H.4
Luther, W.M.5
Xia, Y.R.6
Shih, D.M.7
Chiang, J.H.8
Baikalov, C.9
Fitz-Gibbon, S.10
Phan, I.T.11
Conrad, A.12
Miller, J.H.13
-
39
-
-
0015047023
-
Mannose metabolism. I
-
Herman RH. Mannose metabolism. I. Am J Clin Nutr 1971, 24:488-498.
-
(1971)
Am J Clin Nutr
, vol.24
, pp. 488-498
-
-
Herman, R.H.1
-
40
-
-
0033695039
-
Cloning, expression and characterization of the pig liver GDP-mannose pyrophosphorylase. Evidence that GDP-mannose and GDP-Glc pyrophosphorylases are different proteins
-
10.1046/j.1432-1033.2000.01781.x, 11082198
-
Ning B, Elbein AD. Cloning, expression and characterization of the pig liver GDP-mannose pyrophosphorylase. Evidence that GDP-mannose and GDP-Glc pyrophosphorylases are different proteins. Eur J Biochem 2000, 267:6866-6874. 10.1046/j.1432-1033.2000.01781.x, 11082198.
-
(2000)
Eur J Biochem
, vol.267
, pp. 6866-6874
-
-
Ning, B.1
Elbein, A.D.2
-
41
-
-
33846088138
-
HMDB: the Human Metabolome Database
-
10.1093/nar/gkl923, 1899095, 17202168
-
Wishart DS, et al. HMDB: the Human Metabolome Database. Nucleic Acids Res 2007, 35:D521-D526. 10.1093/nar/gkl923, 1899095, 17202168.
-
(2007)
Nucleic Acids Res
, vol.35
-
-
Wishart, D.S.1
-
42
-
-
0023875706
-
Degradation of endocytosed dermatan sulfate proteoglycan in human fibroblasts
-
Hoppe W, Rauch U, Kresse H. Degradation of endocytosed dermatan sulfate proteoglycan in human fibroblasts. J Biol Chem 1988, 263:5926-5932.
-
(1988)
J Biol Chem
, vol.263
, pp. 5926-5932
-
-
Hoppe, W.1
Rauch, U.2
Kresse, H.3
-
43
-
-
2942544965
-
Glycosaminoglycan degradation fragments in mucopolysaccharidosis I
-
10.1093/glycob/cwh049, 14718373
-
Fuller M, Meikle PJ, Hopwood JJ. Glycosaminoglycan degradation fragments in mucopolysaccharidosis I. Glycobiology 2004, 14:443-450. 10.1093/glycob/cwh049, 14718373.
-
(2004)
Glycobiology
, vol.14
, pp. 443-450
-
-
Fuller, M.1
Meikle, P.J.2
Hopwood, J.J.3
-
44
-
-
0025938673
-
Human alpha-L-iduronidase: cDNA isolation and expression
-
10.1073/pnas.88.21.9695, 52785, 1946389
-
Scott HS, Anson DS, Orsborn AM, Nelson PV, Clements PR, Morris CP, Hopwood JJ. Human alpha-L-iduronidase: cDNA isolation and expression. Proc Natl Acad Sci USA 1991, 88:9695-9699. 10.1073/pnas.88.21.9695, 52785, 1946389.
-
(1991)
Proc Natl Acad Sci USA
, vol.88
, pp. 9695-9699
-
-
Scott, H.S.1
Anson, D.S.2
Orsborn, A.M.3
Nelson, P.V.4
Clements, P.R.5
Morris, C.P.6
Hopwood, J.J.7
-
45
-
-
0032545509
-
Purification of the lysosomal sialic acid transporter. Functional characteristics of a monocarboxylate transporter
-
10.1074/jbc.273.51.34568, 9852127
-
Havelaar AC, Mancini GM, Beerens CE, Souren RM, Verheijen FW. Purification of the lysosomal sialic acid transporter. Functional characteristics of a monocarboxylate transporter. J Biol Chem 1998, 273:34568-34574. 10.1074/jbc.273.51.34568, 9852127.
-
(1998)
J Biol Chem
, vol.273
, pp. 34568-34574
-
-
Havelaar, A.C.1
Mancini, G.M.2
Beerens, C.E.3
Souren, R.M.4
Verheijen, F.W.5
-
46
-
-
0024444887
-
Characterization of a proton-driven carrier for sialic acid in the lysosomal membrane. Evidence for a group-specific transport system for acidic monosaccharides
-
Mancini GM, de Jonge HR, Galjaard H, Verheijen FW. Characterization of a proton-driven carrier for sialic acid in the lysosomal membrane. Evidence for a group-specific transport system for acidic monosaccharides. J Biol Chem 1989, 264:15247-15254.
-
(1989)
J Biol Chem
, vol.264
, pp. 15247-15254
-
-
Mancini, G.M.1
de Jonge, H.R.2
Galjaard, H.3
Verheijen, F.W.4
-
47
-
-
85007695543
-
Gas Chromatography-Mass Spectrometric Determinations of Iduronic and Glucuronic Acids in Glycosaminoglycans after Reduction of Carboxylic Group Using Sodium Borodeuteride
-
Toida T, Qiu G, Matsunaga T, Sagehashi Y, Imanari T. Gas Chromatography-Mass Spectrometric Determinations of Iduronic and Glucuronic Acids in Glycosaminoglycans after Reduction of Carboxylic Group Using Sodium Borodeuteride. Anal Sci 1992, 8:799-804.
-
(1992)
Anal Sci
, vol.8
, pp. 799-804
-
-
Toida, T.1
Qiu, G.2
Matsunaga, T.3
Sagehashi, Y.4
Imanari, T.5
-
48
-
-
84859858366
-
Glycosylation Precursors
-
Cold Spring Harbor: Cold Spring Harbor Laboratory Press, 2
-
Elbein AD, Freeze H. Glycosylation Precursors. Essentials of Glycobiology 2009, Cold Spring Harbor: Cold Spring Harbor Laboratory Press, 2.
-
(2009)
Essentials of Glycobiology
-
-
Elbein, A.D.1
Freeze, H.2
-
49
-
-
0025900705
-
Characterization of the gene encoding human peroxisomal 3-oxoacyl-CoA thiolase (ACAA). No large DNA rearrangement in a thiolase-deficient patient
-
Bout A, Franse MM, Collins J, Blonden L, Tager JM, Benne R. Characterization of the gene encoding human peroxisomal 3-oxoacyl-CoA thiolase (ACAA). No large DNA rearrangement in a thiolase-deficient patient. Biochim Biophys Acta 1991, 1090:43-51.
-
(1991)
Biochim Biophys Acta
, vol.1090
, pp. 43-51
-
-
Bout, A.1
Franse, M.M.2
Collins, J.3
Blonden, L.4
Tager, J.M.5
Benne, R.6
-
50
-
-
0034956080
-
Peroxisomal fatty acid alpha- and beta-oxidation in humans: enzymology, peroxisomal metabolite transporters and peroxisomal diseases
-
10.1042/BST0290250, 11356164
-
Wanders RJ, Vreken P, Ferdinandusse S, Jansen GA, Waterham HR, van Roermund CW, Van Grunsven EG. Peroxisomal fatty acid alpha- and beta-oxidation in humans: enzymology, peroxisomal metabolite transporters and peroxisomal diseases. Biochem Soc Trans 2001, 29:250-267. 10.1042/BST0290250, 11356164.
-
(2001)
Biochem Soc Trans
, vol.29
, pp. 250-267
-
-
Wanders, R.J.1
Vreken, P.2
Ferdinandusse, S.3
Jansen, G.A.4
Waterham, H.R.5
van Roermund, C.W.6
Van Grunsven, E.G.7
-
51
-
-
0022531132
-
Biosynthesis and metabolism of arginine in bacteria
-
373073, 3534538
-
Cunin R, Glansdorff N, Piérard A, Stalon V. Biosynthesis and metabolism of arginine in bacteria. Microbiol Rev 1986, 50:314-352. 373073, 3534538.
-
(1986)
Microbiol Rev
, vol.50
, pp. 314-352
-
-
Cunin, R.1
Glansdorff, N.2
Piérard, A.3
Stalon, V.4
-
52
-
-
0038000608
-
N-acetylglutamate and its changing role through evolution
-
10.1042/BJ20030002, 1223426, 12633501
-
Caldovic L, Tuchman M. N-acetylglutamate and its changing role through evolution. Biochem J 2003, 372:279-290. 10.1042/BJ20030002, 1223426, 12633501.
-
(2003)
Biochem J
, vol.372
, pp. 279-290
-
-
Caldovic, L.1
Tuchman, M.2
-
53
-
-
0020285367
-
Crystallization and properties of human liver ornithine aminotransferase
-
Ohura T, Kominami E, Tada K, Katunuma N. Crystallization and properties of human liver ornithine aminotransferase. J Biochem 1982, 92:1785-1792.
-
(1982)
J Biochem
, vol.92
, pp. 1785-1792
-
-
Ohura, T.1
Kominami, E.2
Tada, K.3
Katunuma, N.4
-
54
-
-
0034756152
-
Characterization of the ornithine aminotransferase from Plasmodium falciparum
-
10.1016/S0166-6851(01)00357-7, 11704268
-
Gafan C, Wilson J, Berger LC, Berger BJ. Characterization of the ornithine aminotransferase from Plasmodium falciparum. Mol Biochem Parasitol 2001, 118:1-10. 10.1016/S0166-6851(01)00357-7, 11704268.
-
(2001)
Mol Biochem Parasitol
, vol.118
, pp. 1-10
-
-
Gafan, C.1
Wilson, J.2
Berger, L.C.3
Berger, B.J.4
-
55
-
-
0025763669
-
Sialic acid storage diseases. A multiple lysosomal transport defect for acidic monosaccharides
-
10.1172/JCI115136, 295166, 2010546
-
Mancini GM, Beerens CE, Aula PP, Verheijen FW. Sialic acid storage diseases. A multiple lysosomal transport defect for acidic monosaccharides. J Clin Invest 1991, 87:1329-1335. 10.1172/JCI115136, 295166, 2010546.
-
(1991)
J Clin Invest
, vol.87
, pp. 1329-1335
-
-
Mancini, G.M.1
Beerens, C.E.2
Aula, P.P.3
Verheijen, F.W.4
-
56
-
-
24744467372
-
Filling gaps in a metabolic network using expression information
-
10.1093/bioinformatics/bth930, 15262797
-
Kharchenko P, Vitkup D, Church GM. Filling gaps in a metabolic network using expression information. Bioinformatics 2004, 20(Suppl 1):i178-185. 10.1093/bioinformatics/bth930, 15262797.
-
(2004)
Bioinformatics
, vol.20
, Issue.SUPPL. 1
-
-
Kharchenko, P.1
Vitkup, D.2
Church, G.M.3
-
57
-
-
33646171940
-
Identifying metabolic enzymes with multiple types of association evidence
-
10.1186/1471-2105-7-177, 1450304, 16571130
-
Kharchenko P, Chen L, Freund Y, Vitkup D, Church GM. Identifying metabolic enzymes with multiple types of association evidence. BMC Bioinformatics 2006, 7:177. 10.1186/1471-2105-7-177, 1450304, 16571130.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 177
-
-
Kharchenko, P.1
Chen, L.2
Freund, Y.3
Vitkup, D.4
Church, G.M.5
-
58
-
-
77950456925
-
Automatic policing of biochemical annotations using genomic correlations
-
2935526, 19935659
-
Hsiao T-L, Revelles O, Chen L, Sauer U, Vitkup D. Automatic policing of biochemical annotations using genomic correlations. Nat Chem Biol 2010, 6:34-40. 2935526, 19935659.
-
(2010)
Nat Chem Biol
, vol.6
, pp. 34-40
-
-
Hsiao, T.-L.1
Revelles, O.2
Chen, L.3
Sauer, U.4
Vitkup, D.5
-
59
-
-
76349125292
-
Rational association of genes with traits using a genome-scale gene network for Arabidopsis thaliana
-
10.1038/nbt.1603, 2857375, 20118918
-
Lee I, Ambaru B, Thakkar P, Marcotte EM, Rhee SY. Rational association of genes with traits using a genome-scale gene network for Arabidopsis thaliana. Nat Biotechnol 2010, 28:149-156. 10.1038/nbt.1603, 2857375, 20118918.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 149-156
-
-
Lee, I.1
Ambaru, B.2
Thakkar, P.3
Marcotte, E.M.4
Rhee, S.Y.5
-
60
-
-
77956696072
-
High-throughput generation, optimization and analysis of genome-scale metabolic models
-
10.1038/nbt.1672, 20802497
-
Henry CS, DeJongh M, Best AA, Frybarger PM, Linsay B, Stevens RL. High-throughput generation, optimization and analysis of genome-scale metabolic models. Nat Biotechnol 2010, 28:977-982. 10.1038/nbt.1672, 20802497.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 977-982
-
-
Henry, C.S.1
DeJongh, M.2
Best, A.A.3
Frybarger, P.M.4
Linsay, B.5
Stevens, R.L.6
-
61
-
-
25644458211
-
The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes
-
10.1093/nar/gki866, 1251668, 16214803
-
Overbeek R, et al. The subsystems approach to genome annotation and its use in the project to annotate 1000 genomes. Nucleic Acids Res 2005, 33:5691-5702. 10.1093/nar/gki866, 1251668, 16214803.
-
(2005)
Nucleic Acids Res
, vol.33
, pp. 5691-5702
-
-
Overbeek, R.1
-
62
-
-
38549174065
-
The Mouse Genome Database (MGD): mouse biology and model systems
-
2238849, 18158299
-
Bult CJ, Eppig JT, Kadin JA, Richardson JE, Blake JA. The Mouse Genome Database (MGD): mouse biology and model systems. Nucleic Acids Res 2008, 36:D724-728. 2238849, 18158299.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Bult, C.J.1
Eppig, J.T.2
Kadin, J.A.3
Richardson, J.E.4
Blake, J.A.5
-
63
-
-
27144509128
-
An expression-driven approach to the prediction of carbohydrate transport and utilization regulons in the hyperthermophilic bacterium Thermotoga maritima
-
10.1128/JB.187.21.7267-7282.2005, 1272978, 16237010
-
Conners SB, Montero CI, Comfort DA, Shockley KR, Johnson MR, Chhabra SR, Kelly RM. An expression-driven approach to the prediction of carbohydrate transport and utilization regulons in the hyperthermophilic bacterium Thermotoga maritima. J Bacteriol 2005, 187:7267-7282. 10.1128/JB.187.21.7267-7282.2005, 1272978, 16237010.
-
(2005)
J Bacteriol
, vol.187
, pp. 7267-7282
-
-
Conners, S.B.1
Montero, C.I.2
Comfort, D.A.3
Shockley, K.R.4
Johnson, M.R.5
Chhabra, S.R.6
Kelly, R.M.7
-
64
-
-
0037470149
-
Carbohydrate-induced differential gene expression patterns in the hyperthermophilic bacterium Thermotoga maritima
-
10.1074/jbc.M211748200, 12475972
-
Chhabra SR, Shockley KR, Conners SB, Scott KL, Wolfinger RD, Kelly RM. Carbohydrate-induced differential gene expression patterns in the hyperthermophilic bacterium Thermotoga maritima. J Biol Chem 2003, 278:7540-7552. 10.1074/jbc.M211748200, 12475972.
-
(2003)
J Biol Chem
, vol.278
, pp. 7540-7552
-
-
Chhabra, S.R.1
Shockley, K.R.2
Conners, S.B.3
Scott, K.L.4
Wolfinger, R.D.5
Kelly, R.M.6
-
65
-
-
33745035630
-
Predicting genes for orphan metabolic activities using phylogenetic profiles
-
10.1186/gb-2006-7-2-r17, 1431735, 16507154
-
Chen L, Vitkup D. Predicting genes for orphan metabolic activities using phylogenetic profiles. Genome Biol 2006, 7:R17. 10.1186/gb-2006-7-2-r17, 1431735, 16507154.
-
(2006)
Genome Biol
, vol.7
-
-
Chen, L.1
Vitkup, D.2
-
66
-
-
11144358198
-
A gene atlas of the mouse and human protein-encoding transcriptomes
-
10.1073/pnas.0400782101, 395923, 15075390
-
Su AI, Wiltshire T, Batalov S, Lapp H, Ching KA, Block D, Zhang J, Soden R, Hayakawa M, Kreiman G, Cooke MP, Walker JR, Hogenesch JB. A gene atlas of the mouse and human protein-encoding transcriptomes. Proc Natl Acad Sci USA 2004, 101:6062-6067. 10.1073/pnas.0400782101, 395923, 15075390.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 6062-6067
-
-
Su, A.I.1
Wiltshire, T.2
Batalov, S.3
Lapp, H.4
Ching, K.A.5
Block, D.6
Zhang, J.7
Soden, R.8
Hayakawa, M.9
Kreiman, G.10
Cooke, M.P.11
Walker, J.R.12
Hogenesch, J.B.13
-
67
-
-
20144387067
-
The MIPS mammalian protein-protein interaction database
-
10.1093/bioinformatics/bti115, 15531608
-
Pagel P, Kovac S, Oesterheld M, Brauner B, Dunger-Kaltenbach I, Frishman G, Montrone C, Mark P, Stümpflen V, Mewes H-W, Ruepp A, Frishman D. The MIPS mammalian protein-protein interaction database. Bioinformatics 2005, 21:832-834. 10.1093/bioinformatics/bti115, 15531608.
-
(2005)
Bioinformatics
, vol.21
, pp. 832-834
-
-
Pagel, P.1
Kovac, S.2
Oesterheld, M.3
Brauner, B.4
Dunger-Kaltenbach, I.5
Frishman, G.6
Montrone, C.7
Mark, P.8
Stümpflen, V.9
Mewes, H.-W.10
Ruepp, A.11
Frishman, D.12
-
68
-
-
77955688695
-
Curating the innate immunity interactome
-
10.1186/1752-0509-4-117, 2936296, 20727158
-
Lynn DJ, Chan C, Naseer M, Yau M, Lo R, Sribnaia A, Ring G, Que J, Wee K, Winsor GL, Laird MR, Breuer K, Foroushani AK, Brinkman FSL, Hancock REW. Curating the innate immunity interactome. BMC Syst Biol 2010, 4:117. 10.1186/1752-0509-4-117, 2936296, 20727158.
-
(2010)
BMC Syst Biol
, vol.4
, pp. 117
-
-
Lynn, D.J.1
Chan, C.2
Naseer, M.3
Yau, M.4
Lo, R.5
Sribnaia, A.6
Ring, G.7
Que, J.8
Wee, K.9
Winsor, G.L.10
Laird, M.R.11
Breuer, K.12
Foroushani, A.K.13
Brinkman, F.S.L.14
Hancock, R.E.W.15
-
69
-
-
64349094767
-
Tissue specificity and the human protein interaction network
-
2683721, 19357639
-
Bossi A, Lehner B. Tissue specificity and the human protein interaction network. Mol Syst Biol 2009, 5:260. 2683721, 19357639.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 260
-
-
Bossi, A.1
Lehner, B.2
-
70
-
-
51349092391
-
Network-based prediction of human tissue-specific metabolism
-
10.1038/nbt.1487, 18711341
-
Shlomi T, Cabili MN, Herrgård MJ, Palsson B, Ruppin E. Network-based prediction of human tissue-specific metabolism. Nat Biotechnol 2008, 26:1003-1010. 10.1038/nbt.1487, 18711341.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1003-1010
-
-
Shlomi, T.1
Cabili, M.N.2
Herrgård, M.J.3
Palsson, B.4
Ruppin, E.5
-
71
-
-
77955381014
-
Characterization and comparison of the tissue-related modules in human and mouse
-
10.1371/journal.pone.0011730, 2908688, 20661448
-
Yang R, Su B. Characterization and comparison of the tissue-related modules in human and mouse. PLoS ONE 2010, 5:e11730. 10.1371/journal.pone.0011730, 2908688, 20661448.
-
(2010)
PLoS ONE
, vol.5
-
-
Yang, R.1
Su, B.2
-
72
-
-
64349109427
-
The impact of cellular networks on disease comorbidity
-
2683720, 19357641
-
Park J, Lee D-S, Christakis NA, Barabási A-L. The impact of cellular networks on disease comorbidity. Mol Syst Biol 2009, 5:262. 2683720, 19357641.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 262
-
-
Park, J.1
Lee, D.-S.2
Christakis, N.A.3
Barabási, A.-L.4
-
73
-
-
1242274402
-
Flux coupling analysis of genome-scale metabolic network reconstructions
-
10.1101/gr.1926504, 327106, 14718379
-
Burgard AP, Nikolaev EV, Schilling CH, Maranas CD. Flux coupling analysis of genome-scale metabolic network reconstructions. Genome Res 2004, 14:301-312. 10.1101/gr.1926504, 327106, 14718379.
-
(2004)
Genome Res
, vol.14
, pp. 301-312
-
-
Burgard, A.P.1
Nikolaev, E.V.2
Schilling, C.H.3
Maranas, C.D.4
-
74
-
-
15844387127
-
Candidate metabolic network states in human mitochondria. Impact of diabetes, ischemia, and diet
-
10.1074/jbc.M409072200, 15572364
-
Thiele I, Price ND, Vo TD, Palsson B. Candidate metabolic network states in human mitochondria. Impact of diabetes, ischemia, and diet. J Biol Chem 2005, 280:11683-11695. 10.1074/jbc.M409072200, 15572364.
-
(2005)
J Biol Chem
, vol.280
, pp. 11683-11695
-
-
Thiele, I.1
Price, N.D.2
Vo, T.D.3
Palsson, B.4
-
75
-
-
33846086384
-
Systems biology of SNPs
-
1681509, 16820779
-
Jamshidi N, Palsson B. Systems biology of SNPs. Mol Syst Biol 2006, 2:38. 1681509, 16820779.
-
(2006)
Mol Syst Biol
, vol.2
, pp. 38
-
-
Jamshidi, N.1
Palsson, B.2
-
76
-
-
6044244615
-
"Conserved hypothetical" proteins: prioritization of targets for experimental study
-
10.1093/nar/gkh885, 524295, 15479782
-
Galperin MY, Koonin EV. "Conserved hypothetical" proteins: prioritization of targets for experimental study. Nucleic Acids Res 2004, 32:5452-5463. 10.1093/nar/gkh885, 524295, 15479782.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 5452-5463
-
-
Galperin, M.Y.1
Koonin, E.V.2
-
77
-
-
58149193234
-
STRING 8--a global view on proteins and their functional interactions in 630 organisms
-
10.1093/nar/gkn760, 2686466, 18940858
-
Jensen LJ, Kuhn M, Stark M, Chaffron S, Creevey C, Muller J, Doerks T, Julien P, Roth A, Simonovic M, Bork P, von Mering C. STRING 8--a global view on proteins and their functional interactions in 630 organisms. Nucleic Acids Res 2009, 37:D412-416. 10.1093/nar/gkn760, 2686466, 18940858.
-
(2009)
Nucleic Acids Res
, vol.37
-
-
Jensen, L.J.1
Kuhn, M.2
Stark, M.3
Chaffron, S.4
Creevey, C.5
Muller, J.6
Doerks, T.7
Julien, P.8
Roth, A.9
Simonovic, M.10
Bork, P.11
von Mering, C.12
-
78
-
-
34347258175
-
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox
-
10.1038/nprot.2007.99, 17406635
-
Becker SA, Feist AM, Mo ML, Hannum G, Palsson B, Herrgard MJ. Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox. Nat Protoc 2007, 2:727-738. 10.1038/nprot.2007.99, 17406635.
-
(2007)
Nat Protoc
, vol.2
, pp. 727-738
-
-
Becker, S.A.1
Feist, A.M.2
Mo, M.L.3
Hannum, G.4
Palsson, B.5
Herrgard, M.J.6
-
79
-
-
0030454066
-
Functions and organization of peroxisomal beta-oxidation
-
10.1111/j.1749-6632.1996.tb18611.x, 8993539
-
Mannaerts GP, van Veldhoven PP. Functions and organization of peroxisomal beta-oxidation. Ann NY Acad Sci 1996, 804:99-115. 10.1111/j.1749-6632.1996.tb18611.x, 8993539.
-
(1996)
Ann NY Acad Sci
, vol.804
, pp. 99-115
-
-
Mannaerts, G.P.1
van Veldhoven, P.P.2
|