-
1
-
-
75149129569
-
A protocol for generating a high-quality genome-scale metabolic reconstruction
-
Thiele I., Palsson B.O. A protocol for generating a high-quality genome-scale metabolic reconstruction. Nat Protoc 2010, 5:93-121.
-
(2010)
Nat Protoc
, vol.5
, pp. 93-121
-
-
Thiele, I.1
Palsson, B.O.2
-
2
-
-
79551662521
-
Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0
-
Schellenberger J., Que R., Fleming R.M., Thiele I., Orth J.D., Feist A.M., Zielinski D.C., Bordbar A., Lewis N.E., Rahmanian S., et al. Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0. Nat Protoc 2011, 6:1290-1307.
-
(2011)
Nat Protoc
, vol.6
, pp. 1290-1307
-
-
Schellenberger, J.1
Que, R.2
Fleming, R.M.3
Thiele, I.4
Orth, J.D.5
Feist, A.M.6
Zielinski, D.C.7
Bordbar, A.8
Lewis, N.E.9
Rahmanian, S.10
-
3
-
-
84891635463
-
Software platforms to facilitate reconstructing genome-scale metabolic networks
-
Hamilton J.J., Reed J.L. Software platforms to facilitate reconstructing genome-scale metabolic networks. Environ Microbiol 2013, 16:49-59.
-
(2013)
Environ Microbiol
, vol.16
, pp. 49-59
-
-
Hamilton, J.J.1
Reed, J.L.2
-
4
-
-
84858439602
-
Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods
-
Lewis N.E., Nagarajan H., Palsson B.O. Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods. Nat Rev Microbiol 2012, 10:291-305.
-
(2012)
Nat Rev Microbiol
, vol.10
, pp. 291-305
-
-
Lewis, N.E.1
Nagarajan, H.2
Palsson, B.O.3
-
5
-
-
77956696072
-
High-throughput generation, optimization and analysis of genome-scale metabolic models
-
Henry C.S., DeJongh M., Best A.A., Frybarger P.M., Linsay B., Stevens R.L. High-throughput generation, optimization and analysis of genome-scale metabolic models. Nat Biotechnol 2010, 28:977-982.
-
(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
-
6
-
-
84875973063
-
The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum
-
Agren R., Liu L., Shoaie S., Vongsangnak W., Nookaew I., Nielsen J. The RAVEN toolbox and its use for generating a genome-scale metabolic model for Penicillium chrysogenum. PLoS Comput Biol 2013, 9:e1002980.
-
(2013)
PLoS Comput Biol
, vol.9
-
-
Agren, R.1
Liu, L.2
Shoaie, S.3
Vongsangnak, W.4
Nookaew, I.5
Nielsen, J.6
-
7
-
-
25844463806
-
Metabolic functions of duplicate genes in Saccharomyces cerevisiae
-
Kuepfer L., Sauer U., Blank L.M. Metabolic functions of duplicate genes in Saccharomyces cerevisiae. Genome Res 2005, 15:1421-1430.
-
(2005)
Genome Res
, vol.15
, pp. 1421-1430
-
-
Kuepfer, L.1
Sauer, U.2
Blank, L.M.3
-
8
-
-
33751567092
-
Experimental and computational assessment of conditionally essential genes in Escherichia coli
-
Joyce A.R., Reed J.L., White A., Edwards R., Osterman A., Baba T., Mori H., Lesely S.A., Palsson B.O., Agarwalla S. Experimental and computational assessment of conditionally essential genes in Escherichia coli. J Bacteriol 2006, 188:8259-8271.
-
(2006)
J Bacteriol
, vol.188
, pp. 8259-8271
-
-
Joyce, A.R.1
Reed, J.L.2
White, A.3
Edwards, R.4
Osterman, A.5
Baba, T.6
Mori, H.7
Lesely, S.A.8
Palsson, B.O.9
Agarwalla, S.10
-
9
-
-
83655197492
-
Bugs, drugs and chemical genomics
-
Roemer T., Davies J., Giaever G., Nislow C. Bugs, drugs and chemical genomics. Nat Chem Biol 2012, 8:46-56.
-
(2012)
Nat Chem Biol
, vol.8
, pp. 46-56
-
-
Roemer, T.1
Davies, J.2
Giaever, G.3
Nislow, C.4
-
10
-
-
84879652363
-
Dissecting a complex chemical stress: chemogenomic profiling of plant hydrolysates
-
Skerker J.M., Leon D., Price M.N., Mar J.S., Tarjan D.R., Wetmore K.M., Deutschbauer A.M., Baumohl J.K., Bauer S., Ibanez A.B., et al. Dissecting a complex chemical stress: chemogenomic profiling of plant hydrolysates. Mol Syst Biol 2013, 9:674.
-
(2013)
Mol Syst Biol
, vol.9
, pp. 674
-
-
Skerker, J.M.1
Leon, D.2
Price, M.N.3
Mar, J.S.4
Tarjan, D.R.5
Wetmore, K.M.6
Deutschbauer, A.M.7
Baumohl, J.K.8
Bauer, S.9
Ibanez, A.B.10
-
11
-
-
84870941105
-
FOCAL: an experimental design tool for systematizing metabolic discoveries and model development
-
Tervo C.J., Reed J.L. FOCAL: an experimental design tool for systematizing metabolic discoveries and model development. Genome Biol 2012, 13:R116.
-
(2012)
Genome Biol
, vol.13
-
-
Tervo, C.J.1
Reed, J.L.2
-
12
-
-
33751226921
-
Systems approach to refining genome annotation
-
Reed J.L., Patel T.R., Chen K.H., Joyce A.R., Applebee M.K., Herring C.D., Bui O.T., Knight E.M., Fong S.S., Palsson B.O. Systems approach to refining genome annotation. Proc Natl Acad Sci U S A 2006, 103:17480-17484.
-
(2006)
Proc Natl Acad Sci U S A
, 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
-
13
-
-
84870053320
-
MIRAGE: a functional genomics-based approach for metabolic network model reconstruction and its application to cyanobacteria networks
-
Vitkin E., Shlomi T. MIRAGE: a functional genomics-based approach for metabolic network model reconstruction and its application to cyanobacteria networks. Genome Biol 2012, 13:R111.
-
(2012)
Genome Biol
, vol.13
-
-
Vitkin, E.1
Shlomi, T.2
-
14
-
-
63549108441
-
GrowMatch: an automated method for reconciling in silico/in vivo growth predictions
-
Kumar V.S., Maranas C.D. GrowMatch: an automated method for reconciling in silico/in vivo growth predictions. PLoS Comput Biol 2009, 5:e1000308.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Kumar, V.S.1
Maranas, C.D.2
-
15
-
-
34547676311
-
Optimization based automated curation of metabolic reconstructions
-
Satish Kumar V., Dasika M.S., Maranas C.D. Optimization based automated curation of metabolic reconstructions. BMC Bioinformatics 2007, 8:212.
-
(2007)
BMC Bioinformatics
, vol.8
, pp. 212
-
-
Satish Kumar, V.1
Dasika, M.S.2
Maranas, C.D.3
-
16
-
-
84862159261
-
Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions
-
Orth J.D., Palsson B. Gap-filling analysis of the iJO1366 Escherichia coli metabolic network reconstruction for discovery of metabolic functions. BMC Syst Biol 2012, 6:30.
-
(2012)
BMC Syst Biol
, vol.6
, pp. 30
-
-
Orth, J.D.1
Palsson, B.2
-
17
-
-
69249102097
-
Genome-scale gene/reaction essentiality and synthetic lethality analysis
-
Suthers P.F., Zomorrodi A., Maranas C.D. Genome-scale gene/reaction essentiality and synthetic lethality analysis. Mol Syst Biol 2009, 5:301.
-
(2009)
Mol Syst Biol
, vol.5
, pp. 301
-
-
Suthers, P.F.1
Zomorrodi, A.2
Maranas, C.D.3
-
18
-
-
78650595350
-
Improving the iMM904 S. cerevisiae metabolic model using essentiality and synthetic lethality data
-
Zomorrodi A.R., Maranas C.D. Improving the iMM904 S. cerevisiae metabolic model using essentiality and synthetic lethality data. BMC Syst Biol 2010, 4:178.
-
(2010)
BMC Syst Biol
, vol.4
, pp. 178
-
-
Zomorrodi, A.R.1
Maranas, C.D.2
-
19
-
-
84870256513
-
Global probabilistic annotation of metabolic networks enables enzyme discovery
-
Plata G., Fuhrer T., Hsiao T.L., Sauer U., Vitkup D. Global probabilistic annotation of metabolic networks enables enzyme discovery. Nat Chem Biol 2012, 8:848-854.
-
(2012)
Nat Chem Biol
, vol.8
, pp. 848-854
-
-
Plata, G.1
Fuhrer, T.2
Hsiao, T.L.3
Sauer, U.4
Vitkup, D.5
-
20
-
-
33746660425
-
Identification of genome-scale metabolic network models using experimentally measured flux profiles
-
Herrgard M.J., Fong S.S., Palsson B.O. Identification of genome-scale metabolic network models using experimentally measured flux profiles. PLoS Comput Biol 2006, 2:e72.
-
(2006)
PLoS Comput Biol
, vol.2
-
-
Herrgard, M.J.1
Fong, S.S.2
Palsson, B.O.3
-
21
-
-
84891959604
-
BioMog: a computational framework for the de novo generation or modification of essential biomass components
-
Tervo C.J., Reed J.L. BioMog: a computational framework for the de novo generation or modification of essential biomass components. PLoS One 2013, 8:e81322.
-
(2013)
PLoS One
, vol.8
-
-
Tervo, C.J.1
Reed, J.L.2
-
22
-
-
2342648924
-
Integrating high-throughput and computational data elucidates bacterial networks
-
Covert M.W., Knight E.M., Reed J.L., Herrgard M.J., Palsson B.O. Integrating high-throughput and computational data elucidates bacterial networks. Nature 2004, 429:92-96.
-
(2004)
Nature
, vol.429
, pp. 92-96
-
-
Covert, M.W.1
Knight, E.M.2
Reed, J.L.3
Herrgard, M.J.4
Palsson, B.O.5
-
23
-
-
33745178476
-
Integrated analysis of regulatory and metabolic networks reveals novel regulatory mechanisms in Saccharomyces cerevisiae
-
Herrgard M.J., Lee B.S., Portnoy V., Palsson B.O. Integrated analysis of regulatory and metabolic networks reveals novel regulatory mechanisms in Saccharomyces cerevisiae. Genome Res 2006, 16:627-635.
-
(2006)
Genome Res
, vol.16
, pp. 627-635
-
-
Herrgard, M.J.1
Lee, B.S.2
Portnoy, V.3
Palsson, B.O.4
-
24
-
-
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 2002, 277:28058-28064.
-
(2002)
J Biol Chem
, vol.277
, pp. 28058-28064
-
-
Covert, M.W.1
Palsson, B.O.2
-
25
-
-
78349239648
-
An automated phenotype-driven approach (GeneForce) for refining metabolic and regulatory models
-
Barua D., Kim J., Reed J.L. An automated phenotype-driven approach (GeneForce) for refining metabolic and regulatory models. PLoS Comput Biol 2010, 6:e1000970.
-
(2010)
PLoS Comput Biol
, vol.6
-
-
Barua, D.1
Kim, J.2
Reed, J.L.3
-
26
-
-
78049255973
-
Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and Mycobacterium tuberculosis
-
Chandrasekaran S., Price N.D. Probabilistic integrative modeling of genome-scale metabolic and regulatory networks in Escherichia coli and Mycobacterium tuberculosis. Proc Natl Acad Sci U S A 2010, 107:17845-17850.
-
(2010)
Proc Natl Acad Sci U S A
, vol.107
, pp. 17845-17850
-
-
Chandrasekaran, S.1
Price, N.D.2
-
27
-
-
84876543942
-
RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more
-
Database issue
-
Salgado H., Peralta-Gil M., Gama-Castro S., Santos-Zavaleta A., Muniz-Rascado L., Garcia-Sotelo J.S., Weiss V., Solano-Lira H., Martinez-Flores I., Medina-Rivera A., et al. RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more. Nucleic Acids Res 2013, 41(Database issue):D203-D213.
-
(2013)
Nucleic Acids Res
, vol.41
-
-
Salgado, H.1
Peralta-Gil, M.2
Gama-Castro, S.3
Santos-Zavaleta, A.4
Muniz-Rascado, L.5
Garcia-Sotelo, J.S.6
Weiss, V.7
Solano-Lira, H.8
Martinez-Flores, I.9
Medina-Rivera, A.10
-
28
-
-
84891806965
-
The YEASTRACT database: an upgraded information system for the analysis of gene and genomic transcription regulation in Saccharomyces cerevisiae
-
Database issue
-
Teixeira M.C., Monteiro P.T., Guerreiro J.F., Goncalves J.P., Mira N.P., Dos Santos S.C., Cabrito T.R., Palma M., Costa C., Francisco A.P., et al. The YEASTRACT database: an upgraded information system for the analysis of gene and genomic transcription regulation in Saccharomyces cerevisiae. Nucleic Acids Res 2014, 42(Database issue):D161-D166.
-
(2014)
Nucleic Acids Res
, vol.42
-
-
Teixeira, M.C.1
Monteiro, P.T.2
Guerreiro, J.F.3
Goncalves, J.P.4
Mira, N.P.5
Dos Santos, S.C.6
Cabrito, T.R.7
Palma, M.8
Costa, C.9
Francisco, A.P.10
-
29
-
-
38549162091
-
DBTBS: a database of transcriptional regulation in Bacillus subtilis containing upstream intergenic conservation information
-
Database issue
-
Sierro N., Makita Y., de Hoon M., Nakai K. DBTBS: a database of transcriptional regulation in Bacillus subtilis containing upstream intergenic conservation information. Nucleic Acids Res 2008, 36(Database issue):D93-D96.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Sierro, N.1
Makita, Y.2
de Hoon, M.3
Nakai, K.4
-
30
-
-
84875521674
-
RegTransBase-a database of regulatory sequences and interactions based on literature: a resource for investigating transcriptional regulation in prokaryotes
-
Cipriano M.J., Novichkov P.N., Kazakov A.E., Rodionov D.A., Arkin A.P., Gelfand M.S., Dubchak I. RegTransBase-a database of regulatory sequences and interactions based on literature: a resource for investigating transcriptional regulation in prokaryotes. BMC Genomics 2013, 14:213.
-
(2013)
BMC Genomics
, vol.14
, pp. 213
-
-
Cipriano, M.J.1
Novichkov, P.N.2
Kazakov, A.E.3
Rodionov, D.A.4
Arkin, A.P.5
Gelfand, M.S.6
Dubchak, I.7
-
31
-
-
46049087782
-
The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation
-
Wingender E. The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation. Brief Bioinform 2008, 9:326-332.
-
(2008)
Brief Bioinform
, vol.9
, pp. 326-332
-
-
Wingender, E.1
-
32
-
-
84886739636
-
RegPrecise 3.0-a resource for genome-scale exploration of transcriptional regulation in bacteria
-
Novichkov P.S., Kazakov A.E., Ravcheev D.A., Leyn S.A., Kovaleva G.Y., Sutormin R.A., Kazanov M.D., Riehl W., Arkin A.P., Dubchak I., et al. RegPrecise 3.0-a resource for genome-scale exploration of transcriptional regulation in bacteria. BMC Genomics 2013, 14:745.
-
(2013)
BMC Genomics
, vol.14
, pp. 745
-
-
Novichkov, P.S.1
Kazakov, A.E.2
Ravcheev, D.A.3
Leyn, S.A.4
Kovaleva, G.Y.5
Sutormin, R.A.6
Kazanov, M.D.7
Riehl, W.8
Arkin, A.P.9
Dubchak, I.10
-
33
-
-
84864843180
-
In silico method for modelling metabolism and gene product expression at genome scale
-
Lerman J.A., Hyduke D.R., Latif H., Portnoy V.A., Lewis N.E., Orth J.D., Schrimpe-Rutledge A.C., Smith R.D., Adkins J.N., Zengler K., et al. In silico method for modelling metabolism and gene product expression at genome scale. Nat Commun 2012, 3:929.
-
(2012)
Nat Commun
, vol.3
, pp. 929
-
-
Lerman, J.A.1
Hyduke, D.R.2
Latif, H.3
Portnoy, V.A.4
Lewis, N.E.5
Orth, J.D.6
Schrimpe-Rutledge, A.C.7
Smith, R.D.8
Adkins, J.N.9
Zengler, K.10
-
34
-
-
84866975246
-
Multiscale modeling of metabolism and macromolecular synthesis in E. coli and its application to the evolution of codon usage
-
Thiele I., Fleming R.M., Que R., Bordbar A., Diep D., Palsson B.O. Multiscale modeling of metabolism and macromolecular synthesis in E. coli and its application to the evolution of codon usage. PLoS One 2012, 7:e45635.
-
(2012)
PLoS One
, vol.7
-
-
Thiele, I.1
Fleming, R.M.2
Que, R.3
Bordbar, A.4
Diep, D.5
Palsson, B.O.6
-
35
-
-
84885367114
-
Genome-scale models of metabolism and gene expression extend and refine growth phenotype prediction
-
O'Brien E.J., Lerman J.A., Chang R.L., Hyduke D.R., Palsson B.O. Genome-scale models of metabolism and gene expression extend and refine growth phenotype prediction. Mol Syst Biol 2013, 9:693.
-
(2013)
Mol Syst Biol
, vol.9
, pp. 693
-
-
O'Brien, E.J.1
Lerman, J.A.2
Chang, R.L.3
Hyduke, D.R.4
Palsson, B.O.5
-
36
-
-
77955141026
-
Omic data from evolved E. coli are consistent with computed optimal growth from genome-scale models
-
Lewis N.E., Hixson K.K., Conrad T.M., Lerman J.A., Charusanti P., Polpitiya A.D., Adkins J.N., Schramm G., Purvine S.O., Lopez-Ferrer D., et al. Omic data from evolved E. coli are consistent with computed optimal growth from genome-scale models. Mol Syst Biol 2010, 6:390.
-
(2010)
Mol Syst Biol
, vol.6
, pp. 390
-
-
Lewis, N.E.1
Hixson, K.K.2
Conrad, T.M.3
Lerman, J.A.4
Charusanti, P.5
Polpitiya, A.D.6
Adkins, J.N.7
Schramm, G.8
Purvine, S.O.9
Lopez-Ferrer, D.10
-
37
-
-
51349092391
-
Network-based prediction of human tissue-specific metabolism
-
Shlomi T., Cabili M.N., Herrgard M.J., Palsson B.O., Ruppin E. Network-based prediction of human tissue-specific metabolism. Nat Biotechnol 2008, 26:1003-1010.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 1003-1010
-
-
Shlomi, T.1
Cabili, M.N.2
Herrgard, M.J.3
Palsson, B.O.4
Ruppin, E.5
-
38
-
-
44949225040
-
Context-specific metabolic networks are consistent with experiments
-
Becker S.A., Palsson B.O. Context-specific metabolic networks are consistent with experiments. PLoS Comput Biol 2008, 4:e1000082.
-
(2008)
PLoS Comput Biol
, vol.4
-
-
Becker, S.A.1
Palsson, B.O.2
-
39
-
-
70049110173
-
Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production
-
Colijn C., Brandes A., Zucker J., Lun D.S., Weiner B., Farhat M.R., Cheng T.Y., Moody D.B., Murray M., Galagan J.E. Interpreting expression data with metabolic flux models: predicting Mycobacterium tuberculosis mycolic acid production. PLoS Comput Biol 2009, 5:e1000489.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Colijn, C.1
Brandes, A.2
Zucker, J.3
Lun, D.S.4
Weiner, B.5
Farhat, M.R.6
Cheng, T.Y.7
Moody, D.B.8
Murray, M.9
Galagan, J.E.10
-
40
-
-
79951536020
-
Functional integration of a metabolic network model and expression data without arbitrary thresholding
-
Jensen P.A., Papin J.A. Functional integration of a metabolic network model and expression data without arbitrary thresholding. Bioinformatics 2011, 27:541-547.
-
(2011)
Bioinformatics
, vol.27
, pp. 541-547
-
-
Jensen, P.A.1
Papin, J.A.2
-
41
-
-
78449291015
-
Predicting metabolic fluxes using gene expression differences as constraints
-
van Berlo R.J., de Ridder D., Daran J.M., Daran-Lapujade P.A., Teusink B., Reinders M.J. Predicting metabolic fluxes using gene expression differences as constraints. IEEE/ACM Trans Comput Biol Bioinform 2011, 8:206-216.
-
(2011)
IEEE/ACM Trans Comput Biol Bioinform
, vol.8
, pp. 206-216
-
-
van Berlo, R.J.1
de Ridder, D.2
Daran, J.M.3
Daran-Lapujade, P.A.4
Teusink, B.5
Reinders, M.J.6
-
42
-
-
84856015478
-
Reconstruction of Arabidopsis metabolic network models accounting for subcellular compartmentalization and tissue-specificity
-
Mintz-Oron S., Meir S., Malitsky S., Ruppin E., Aharoni A., Shlomi T. Reconstruction of Arabidopsis metabolic network models accounting for subcellular compartmentalization and tissue-specificity. Proc Natl Acad Sci U S A 2012, 109:339-344.
-
(2012)
Proc Natl Acad Sci U S A
, vol.109
, pp. 339-344
-
-
Mintz-Oron, S.1
Meir, S.2
Malitsky, S.3
Ruppin, E.4
Aharoni, A.5
Shlomi, T.6
-
43
-
-
84877315835
-
A community-driven global reconstruction of human metabolism
-
Thiele I., Swainston N., Fleming R.M., Hoppe A., Sahoo S., Aurich M.K., Haraldsdottir H., Mo M.L., Rolfsson O., Stobbe M.D., et al. A community-driven global reconstruction of human metabolism. Nat Biotechnol 2013, 31:419-425.
-
(2013)
Nat Biotechnol
, vol.31
, pp. 419-425
-
-
Thiele, I.1
Swainston, N.2
Fleming, R.M.3
Hoppe, A.4
Sahoo, S.5
Aurich, M.K.6
Haraldsdottir, H.7
Mo, M.L.8
Rolfsson, O.9
Stobbe, M.D.10
-
44
-
-
77956417789
-
Computational reconstruction of tissue-specific metabolic models: application to human liver metabolism
-
Jerby L., Shlomi T., Ruppin E. Computational reconstruction of tissue-specific metabolic models: application to human liver metabolism. Mol Syst Biol 2010, 6:401.
-
(2010)
Mol Syst Biol
, vol.6
, pp. 401
-
-
Jerby, L.1
Shlomi, T.2
Ruppin, E.3
-
45
-
-
78650002545
-
Large-scale in silico modeling of metabolic interactions between cell types in the human brain
-
Lewis N.E., Schramm G., Bordbar A., Schellenberger J., Andersen M.P., Cheng J.K., Patel N., Yee A., Lewis R.A., Eils R., et al. Large-scale in silico modeling of metabolic interactions between cell types in the human brain. Nat Biotechnol 2010, 28:1279-1285.
-
(2010)
Nat Biotechnol
, vol.28
, pp. 1279-1285
-
-
Lewis, N.E.1
Schramm, G.2
Bordbar, A.3
Schellenberger, J.4
Andersen, M.P.5
Cheng, J.K.6
Patel, N.7
Yee, A.8
Lewis, R.A.9
Eils, R.10
-
46
-
-
84863331725
-
Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation
-
Bordbar A., Mo M.L., Nakayasu E.S., Schrimpe-Rutledge A.C., Kim Y.M., Metz T.O., Jones M.B., Frank B.C., Smith R.D., Peterson S.N., et al. Model-driven multi-omic data analysis elucidates metabolic immunomodulators of macrophage activation. Mol Syst Biol 2012, 8:558.
-
(2012)
Mol Syst Biol
, vol.8
, pp. 558
-
-
Bordbar, A.1
Mo, M.L.2
Nakayasu, E.S.3
Schrimpe-Rutledge, A.C.4
Kim, Y.M.5
Metz, T.O.6
Jones, M.B.7
Frank, B.C.8
Smith, R.D.9
Peterson, S.N.10
-
47
-
-
84863662483
-
Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using INIT
-
Agren R., Bordel S., Mardinoglu A., Pornputtapong N., Nookaew I., Nielsen J. Reconstruction of genome-scale active metabolic networks for 69 human cell types and 16 cancer types using INIT. PLoS Comput Biol 2012, 8:e1002518.
-
(2012)
PLoS Comput Biol
, vol.8
-
-
Agren, R.1
Bordel, S.2
Mardinoglu, A.3
Pornputtapong, N.4
Nookaew, I.5
Nielsen, J.6
-
48
-
-
84870933131
-
Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE
-
Wang Y., Eddy J.A., Price N.D. Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE. BMC Syst Biol 2012, 6:153.
-
(2012)
BMC Syst Biol
, vol.6
, pp. 153
-
-
Wang, Y.1
Eddy, J.A.2
Price, N.D.3
-
49
-
-
84883787394
-
Integration of clinical data with a genome-scale metabolic model of the human adipocyte
-
Mardinoglu A., Agren R., Kampf C., Asplund A., Nookaew I., Jacobson P., Walley A.J., Froguel P., Carlsson L.M., Uhlen M., et al. Integration of clinical data with a genome-scale metabolic model of the human adipocyte. Mol Syst Biol 2013, 9:649.
-
(2013)
Mol Syst Biol
, vol.9
, pp. 649
-
-
Mardinoglu, A.1
Agren, R.2
Kampf, C.3
Asplund, A.4
Nookaew, I.5
Jacobson, P.6
Walley, A.J.7
Froguel, P.8
Carlsson, L.M.9
Uhlen, M.10
-
50
-
-
84883389182
-
Understanding the interactions between bacteria in the human gut through metabolic modeling
-
Shoaie S., Karlsson F., Mardinoglu A., Nookaew I., Bordel S., Nielsen J. Understanding the interactions between bacteria in the human gut through metabolic modeling. Sci Rep 2013, 3:2532.
-
(2013)
Sci Rep
, vol.3
, pp. 2532
-
-
Shoaie, S.1
Karlsson, F.2
Mardinoglu, A.3
Nookaew, I.4
Bordel, S.5
Nielsen, J.6
|