Tag metabolic_reconstruction [33 articles] Export Sort

Recent papers classified by the tag metabolic_reconstruction.

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	Integrated analysis of regulatory and metabolic networks reveals novel regulatory mechanisms in Saccharomyces cerevisiae [My Copy] Genome Research, Vol. 16, No. 5. (May 2006), pp. 627-635. by Markus J. HerrgÃ¥rd, Baek-Seok Lee, Vasiliy Portnoy, Bernhard Palsson posted to transcription_factor regulation metabolic_reconstruction gene_expression by schwartzjmc on 2009-12-28 13:39:37 as along with 9 people and 3 groups michaelbarton JeremyZucker nickluscombe aswin kengg koller raiyar cjeans edwardmorrissey EBI-regulation steinmetzlab Plantandetc
	Modeling Lactococcus lactis using a genome-scale flux model [My Copy] BMC Microbiology, Vol. 5, No. 1. (2005), 39. by Ana Oliveira, Jens Nielsen, Jochen Forster posted to metabolic_reconstruction fba bacteria by schwartzjmc on 2009-12-28 13:23:18 as along with 2 people and 3 groups bsmagic athleem Bioinformatics bioinplant JJJ
	Applications of genome-scale metabolic reconstructions [My Copy] Molecular Systems Biology, Vol. 5 (03 November 2009) by Matthew A. Oberhardt, Bernhard O. Palsson, Jason A. Papin posted to metabolic_reconstruction by schwartzjmc on 2009-12-17 11:06:50 as along with 5 people JeremyZucker pjmaybank michaelbarton arne pablocarb
	The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli [My Copy] Nature Biotechnology, Vol. 26, No. 6. (06 June 2008), pp. 659-667. by Adam M. Feist, Bernhard posted to metabolic_reconstruction metabolic-reconstruction fba ecoli by JeremyZucker on 2009-12-16 18:55:36 as along with 7 people and 2 groups eline_koers schwartzjmc lflorez fishtank ptrobajo michaelbarton AlexanderPico BergmanLab TNT
	Large-scale reconstruction and phylogenetic analysis of metabolic environments. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 105, No. 38. (23 September 2008), pp. 14482-14487. by E. Borenstein, M. Kupiec, M. W. Feldman, E. Ruppin posted to tree_of_life phylogenetic_tree_of_life obligate_parasites metabolic_reconstruction metabolic_capacity metabolic-reconstruction by JeremyZucker on 2009-12-10 22:19:43 as along with 4 people michaelbarton schwartzjmc skembel stringertheory
	Metabolic networks are NP-hard to reconstruct [My Copy] Journal of Theoretical Biology, Vol. 254, No. 4. (21 October 2008), pp. 807-816. by Zoran Nikoloski, Sergio Grimbs, Patrick May, Joachim Selbig posted to polynomial_time_approximation metabolic_reconstruction metabolic-reconstruction by JeremyZucker on 2009-12-02 20:37:35 as along with 1 person maren
	The Edinburgh human metabolic network reconstruction and its functional analysis. [My Copy] Molecular systems biology, Vol. 3 (2007) by H. Ma, A. Sorokin, A. Mazein, et al.A. Selkov, E. Selkov, O. Demin, I. Goryanin posted to systems_biology metabolic_reconstruction metabolic_pathways human_metabolism edinburgh bow_tie by JeremyZucker on 2009-11-25 00:00:50 as along with 12 people pmendes dadiamah vpenelle peterli schwartzjmc Garamonfok dullhunk grahamc fishtank cjeans shung mdstobbe
	Modeling methanogenesis with a genome-scale metabolic reconstruction of Methanosarcina barkeri [My Copy] Mol Syst Biol, Vol. 2 (31 January 2006) by Adam M. Feist, Johannes C. Scholten, Bernhard O. Palsson, Fred J. Brockman, Trey Ideker posted to methanogenesis metabolic_reconstruction fba by JeremyZucker on 2009-11-24 23:59:58 as along with 2 people michaelbarton lylu
	Caveat emptor: limitations of the automated reconstruction of metabolic pathways in Plasmodium [My Copy] Trends in Parasitology, Vol. 25, No. 1. (January 2009), pp. 37-43. by H. Ginsburg posted to plasmodium metabolic_reconstruction by schwartzjmc on 2009-11-19 11:58:16 as
	A Genome-scale Metabolic Model of Arabidopsis thaliana and Some of its Properties [My Copy] Plant Physiol. (15 September 2009), pp.109.141267. by Mark G. Poolman, Laurent Miguet, Lee J. Sweetlove, David A. Fell posted to plant metabolic_reconstruction arabidopsis by schwartzjmc on 2009-11-04 17:18:55 as along with 1 person pjmaybank
	Three-Dimensional Structural View of the Central Metabolic Network of Thermotoga maritima [My Copy] Science, Vol. 325, No. 5947. (18 September 2009), pp. 1544-1549. by Ying Zhang, Ines Thiele, Dana Weekes, et al.Zhanwen Li, Lukasz Jaroszewski, Krzysztof Ginalski, Ashley M. Deacon, John Wooley, Scott A. Lesley, Ian A. Wilson, Bernhard Palsson, Andrei Osterman, Adam Godzik posted to metabolic_reconstruction bacteria by schwartzjmc on 2009-10-19 15:39:28 as along with 15 people freesci robfsouza michaelbarton venancio apocapoc eehsanipour riffraff reyez TRHvidsten flbarroso daveGerrard zwang pablocarb phoenixzxl roys
	Group contribution method for thermodynamic analysis of complex metabolic networks. [My Copy] Biophysical journal, Vol. 95, No. 3. (1 August 2008), pp. 1487-1499. by Matthew D. Jankowski, Christopher S. Henry, Linda J. Broadbelt, Vassily Hatzimanikatis posted to metabolic_reconstruction thermodynamics by schwartzjmc on 2009-08-05 12:24:59 as along with 2 people dullhunk JeremyZucker
	An expanded genome-scale model of Escherichia coli K-12 (iJR904 GSM/GPR) [My Copy] Genome Biology, Vol. 4, No. 9. (2003), R54. by Jennifer Reed, Thuy Vo, Christophe Schilling, Bernhard Palsson posted to bacteria metabolic_reconstruction by schwartzjmc on 2009-07-26 15:17:24 as along with 5 people and 2 groups csanford michaelbarton cate bjorns JeremyZucker biospec MetabolicModeling
	The canonical network of autotrophic intermediary metabolism: minimal metabolome of a reductive chemoautotroph. [My Copy] The Biological bulletin, Vol. 216, No. 2. (April 2009), pp. 126-130. by V. Srinivasan, H. J. Morowitz posted to metabolic_reconstruction thermodynamics by schwartzjmc on 2009-07-03 14:46:37 as
	EFICAz: a comprehensive approach for accurate genome-scale enzyme function inference [My Copy] Nucleic Acids Research, Vol. 32, No. 21., 6226. by Weidong Tian, Adrian K. Arakaki, Jeffrey Skolnick posted to metabolic_reconstruction by schwartzjmc on 2009-06-26 12:04:06 as along with 3 people JeremyZucker MaggieYe shung
	Metabolic functions of duplicate genes in Saccharomyces cerevisiae. [My Copy] Genome Res, Vol. 15, No. 10. (October 2005), pp. 1421-1430. by L. Kuepfer, U. Sauer, L. M. Blank posted to fba metabolic_reconstruction yeast by schwartzjmc on 2009-06-08 16:54:36 as along with 2 people dadiamah edwardmorrissey
	Elucidation and structural analysis of conserved pools for genome-scale metabolic reconstructions. [My Copy] Biophysical journal, Vol. 88, No. 1. (January 2005), pp. 37-49. by E. V. Nikolaev, A. P. Burgard, C. D. Maranas posted to metabolic_reconstruction stoichiometry by schwartzjmc on 2009-05-24 18:11:44 as
	Detection of stoichiometric inconsistencies in biomolecular models. [My Copy] Bioinformatics (Oxford, England), Vol. 24, No. 19. (1 October 2008), pp. 2245-2251. by A. Gevorgyan, M. G. Poolman, D. A. Fell posted to metabolic_reconstruction stoichiometry by schwartzjmc on 2009-05-24 18:05:41 as
	The Escherichia coli MG1655 in silico metabolic genotype: Its definition, characteristics, and capabilities [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 97, No. 10. (9 May 2000), pp. 5528-5533. by J. S. Edwards, B. O. Palsson posted to bacteria metabolic_reconstruction by schwartzjmc on 2009-05-19 18:48:01 as along with 4 people pablocarb lflorez tny fishtank
	Genome-Scale Reconstruction of the Saccharomyces cerevisiae Metabolic Network [My Copy] Genome Research In Genome Research, Vol. 13, No. 2. (1 February 2003), pp. 244-253. by Jochen FÃ¶rster, Iman Famili, Patrick Fu, Bernhard Palsson, Jens Nielsen posted to metabolic_reconstruction yeast by schwartzjmc on 2009-05-19 15:19:40 as along with 12 people and 3 groups dadiamah sergiun michaelbarton csanford opheliav wnpx nirfriedman JeremyZucker bsmagic gcalda jpoyatos edwardmorrissey Bioinformatics bioinplant MetabolicModeling
	Reconstruction of metabolic networks from genome data and analysis of their global structure for various organisms. [My Copy] Bioinformatics, Vol. 19, No. 2. (22 January 2003), pp. 270-277. by H. Ma, A. P. Zeng posted to metabolic_reconstruction topology by schwartzjmc on 2009-05-19 15:12:28 as along with 5 people coela kuhn eweaver tny yoh
	Metabolic Reconstruction and Modeling of Nitrogen Fixation in <named-content xmlns:xlink="http://www.w3.org/1999/xlink" content-type="genus-species" xlink:type="simple">Rhizobium etli</named-content> [My Copy] PLoS Comput Biol, Vol. 3, No. 10. (5 October 2007), e192. by Osbaldo Resendis-Antonio, Jennifer L. Reed, Sergio Encarnación, Julio Collado-Vides, Bernhard Palsson posted to bacteria metabolic_reconstruction by schwartzjmc on 2009-05-19 15:00:11 as along with 1 person akraemer
	Understanding human metabolic physiology: a genome-to-systems approach [My Copy] Trends in Biotechnology, Vol. 27, No. 1. (14 January 2009), pp. 37-44. by M. Mo, B. Palsson posted to human metabolic_reconstruction by schwartzjmc on 2009-05-19 14:51:48 as along with 5 people mingzhi agonzale guhjy ptrobajo dullhunk
	A genome-scale metabolic reconstruction of Mycoplasma genitalium, iPS189. [My Copy] PLoS computational biology, Vol. 5, No. 2. (13 February 2009), e1000285. by Patrick F. Suthers, Madhukar S. Dasika, Vinay Satish S. Kumar, Gennady Denisov, John I. Glass, Costas D. Maranas posted to bacteria metabolic_reconstruction by schwartzjmc on 2009-05-19 14:39:09 as along with 5 people and 1 group michaelbarton JeremyZucker erinmr Scis0000002 mycomodel MAGEEP Doctoral Network
	Comparative genome-scale metabolic reconstruction and flux balance analysis of multiple Staphylococcus aureus genomes identify novel anti-microbial drug targets. [My Copy] Journal of bacteriology (17 April 2009) by Deok-Sun S. Lee, Henry Burd, Jiangxia Liu, et al.Eivind Almaas, Olaf Wiest, Albert-László L. Barabási, Zoltán N N. Oltvai, Vinayak Kapatral posted to bacteria fba metabolic_reconstruction by schwartzjmc on 2009-05-19 14:25:41 as
	Genome-scale Reconstruction of Metabolic Network in Bacillus subtilis Based on High-throughput Phenotyping and Gene Essentiality Data. [My Copy] J Biol Chem, Vol. 282, No. 39. (28 September 2007), pp. 28791-28799. by Y. K. Oh, B. O. Palsson, S. M. Park, C. H. Schilling, R. Mahadevan posted to bacteria metabolic_reconstruction by schwartzjmc on 2009-05-17 15:55:39 as along with 8 people and 1 group JeremyZucker coela aschmeis jholder michaelbarton lflorez alexg hryk MetabolicModeling
	Global reconstruction of the human metabolic network based on genomic and bibliomic data [My Copy] Proceedings of the National Academy of Sciences of the United States of America In Proceedings of the National Academy of Sciences, Vol. 104, No. 6. (6 February 2007), pp. 1777-1782. by Natalie C. Duarte, Scott A. Becker, Neema Jamshidi, et al.Ines Thiele, Monica L. Mo, Thuy D. Vo, Rohith Srivas, Bernhard Palsson posted to human metabolic_reconstruction by schwartzjmc on 2009-05-17 15:47:43 as along with 10 people and 1 group dadiamah vpenelle peterli michaelbarton dullhunk guhjy balajis alexg raiyar noby steinmetzlab
	Modeling hybridoma cell metabolism using a generic genome-scale metabolic model of Mus musculus. [My Copy] Biotechnology progress, Vol. 21, No. 1. (b 2005), pp. 112-121. by K. Sheikh, J. Förster, L. K. Nielsen posted to metabolic_reconstruction mouse by schwartzjmc on 2009-03-19 14:43:52 as
	Challenges to be faced in the reconstruction of metabolic networks from public databases. [My Copy] Systems biology, Vol. 153, No. 5. (September 2006), pp. 379-384. by M. G. Poolman, B. K. Bonde, A. Gevorgyan, H. H. Patel, D. A. Fell posted to metabolic_reconstruction by schwartzjmc on 2009-03-19 14:42:14 as
	A consensus yeast metabolic network reconstruction obtained from a community approach to systems biology [My Copy] Nat Biotech, Vol. 26, No. 10. (09 October 2008), pp. 1155-1160. by Markus J. Herrgard, Neil Swainston, Paul Dobson, et al.Warwick B. Dunn, K. Yalcin Arga, Mikko Arvas, Nils Buthgen, Simon Borger, Roeland Costenoble, Matthias Heinemann, Michael Hucka, Nicolas Le Novere, Peter Li, Wolfram Liebermeister, Monica L. Mo, Ana P. Oliveira, Dina Petranovic, Stephen Pettifer, Evangelos Simeonidis, Kieran Smallbone, Irena Spasie, Dieter Weichart, Roger Brent, David S. Broomhead, Hans V. Westerhoff, Betul Kurdar, Merja Penttila, Edda Klipp, Bernhard O. Palsson, Uwe Sauer, Stephen G. Oliver, Pedro Mendes, Jens Nielsen, Douglas B. Kell posted to metabolic_reconstruction yeast by schwartzjmc on 2009-03-17 15:57:12 as along with 23 people and 2 groups dadiamah m_j pmendes windman83 jfr raiyar neilswainston irenas JeremyZucker chasmand pinney pauldobson alaninmcr allysonlister zwang guhjy dbk michaelbarton ptrobajo neils dullhunk pengchy tmmurali MetabolicModeling BergmanLab
	In silico genome-scale reconstruction and validation of the <I>Staphylococcus aureus</I> metabolic network [My Copy] Biotechnology and Bioengineering, Vol. 92, No. 7. (2005), pp. 850-864. by Matthias Heinemann, Anne Kümmel, Reto Ruinatscha, Sven Panke posted to bacteria metabolic_reconstruction by schwartzjmc on 2009-03-17 15:56:26 as along with 1 person JeremyZucker
	A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. [My Copy] Molecular systems biology, Vol. 3 (26 June 2007) by Adam M. Feist, Christopher S. Henry, Jennifer L. Reed, et al.Markus Krummenacker, Andrew R. Joyce, Peter D. Karp, Linda J. Broadbelt, Vassily Hatzimanikatis, Bernhard Ø. Palsson posted to bacteria thermodynamics metabolic_reconstruction by schwartzjmc on 2009-03-17 15:51:26 as along with 7 people winterstream aheilbut alexg cjeans hryk michaelbarton JeremyZucker
	Metabolic model integration of the bibliome, genome, metabolome and reactome of Aspergillus niger [My Copy] Molecular Systems Biology, Vol. 4 (25 March 2008) by Mikael R. Andersen, Michael L. Nielsen, Jens Nielsen posted to metabolic_reconstruction by schwartzjmc on 2009-03-16 15:24:34 as along with 5 people dadiamah JeremyZucker egonw dullhunk westoll

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