peterli's library 49 articles Export

	Systems biology, metabolic modelling and metabolomics in drug discovery and development. [My Copy] Drug discovery today, Vol. 11, No. 23-24. (December 2006), pp. 1085-1092. by Douglas B. Kell posted to systems-biology modelling metabolomics by peterli on 2009-09-24 14:09:27 as along with 13 people and 2 groups flbarroso schwartzjmc egonw irenas nicklynch alexg dullhunk mhucka raiyar fishtank shikin alanrw gemmalholliday steinmetzlab GeneGo
	Oscillatory, stochastic and chaotic growth rate fluctuations in permittistatically controlled yeast cultures. [My Copy] Biosystems, Vol. 39, No. 1. (1996), pp. 43-61. by H. M. Davey, C. L. Davey, A. M. Woodward, A. N. Edmonds, A. W. Lee, D. B. Kell posted to yeast turbidostat by peterli on 2009-09-24 11:53:22 as along with 1 person and 2 groups dbk streptomyces dbk-lab
	Non-linear optimization of biochemical pathways: applications to metabolic engineering and parameter estimation. [My Copy] Bioinformatics (Oxford, England), Vol. 14, No. 10. (1 November 1998), pp. 869-883. by P. Mendes, D. Kell posted to systems-biology numerical_optimization_methods by peterli on 2009-09-23 13:08:40 as along with 5 people and 1 group yujiangwang dullhunk dagmar csgillespie pmendes compneur
	Predicting drug side-effects by chemical systems biology. [My Copy] Genome biology, Vol. 10, No. 9. (2009), 238. by Nicholas P. Tatonetti, Tianyun Liu, Russ B. Altman posted to systems-biology cheminformatics by peterli on 2009-09-16 13:13:46 as along with 4 people flbarroso Yanno abhishek_tiwari biomcgary
	Human metabolic phenotype diversity and its association with diet and blood pressure. [My Copy] Nature, Vol. 453, No. 7193. (15 May 2008), pp. 396-400. by Elaine Holmes, Ruey Leng L. Loo, Jeremiah Stamler, et al.Magda Bictash, Ivan K. Yap, Queenie Chan, Tim Ebbels, Maria De Iorio, Ian J. Brown, Kirill A. Veselkov, Martha L. Daviglus, Hugo Kesteloot, Hirotsugu Ueshima, Liancheng Zhao, Jeremy K. Nicholson, Paul Elliott posted to metabolomics metabolism by peterli on 2009-09-09 13:41:52 as along with 3 people nicholso guhjy tmmurali
	Calculating life? A sociological perspective on systems biology. [My Copy] EMBO reports, Vol. 10 Suppl 1 (August 2009) by Jane Calvert, Joan H. Fujimura posted to systems-biology sociology by peterli on 2009-08-21 14:19:06 as
	Comparing simulation results of SBML capable simulators. [My Copy] Bioinformatics (Oxford, England), Vol. 24, No. 17. (1 September 2008), pp. 1963-1965. by Frank T. Bergmann, Herbert M. Sauro posted to validation systems-biology simulation sbml by peterli on 2009-08-16 10:15:42 as along with 7 people Vincent_Rouilly agomez guhjy ozzy11111 dullhunk sjcockell reyez
	mzAPI: a new strategy for efficiently sharing mass spectrometry data [My Copy] Nat Meth, Vol. 6, No. 4. (April 2009), pp. 240-241. by Manor Askenazi, Jignesh R. Parikh, Jarrod A. Marto posted to data mass_spectrometry proteomics by peterli on 2009-07-30 15:21:15 as
	Biochemistry by numbers: simulation of biochemical pathways with Gepasi 3. [My Copy] Trends in biochemical sciences, Vol. 22, No. 9. (September 1997), pp. 361-363. by P. Mendes posted to modelling simulation systems-biology by peterli on 2009-07-07 16:11:11 as along with 3 people and 3 groups beapen pmendes csanford Atopic_and_Seborrhoeic_Dermatitis Skin_Deep Applied_Bimatics
	On validation and invalidation of biological models [My Copy] BMC Bioinformatics, Vol. 10 (2009), 132. by J. Anderson, A. Papachristodoulou posted to modelling systems-biology validation by peterli on 2009-06-24 16:01:44 as
	Improving the development process for eukaryotic cell cycle models with a modeling support environment [My Copy] Simulation, Vol. 79, No. 12. (2003), pp. 674-688. by N. A. Allen, C. A. Shaffer, N. Ramakrishnan, M. T. Vass, L. T. Watson posted to modelling systems-biology validation by peterli on 2009-06-24 13:54:05 as
	Designing and encoding models for synthetic biology [My Copy] Journal of the Royal Society Interface (1 April 2009) by L. Endler, N. Rodriguez, N. Juty, et al.V. Chelliah, C. Laibe, C. Li, N. Le Novere posted to modelling systems-biology validation by peterli on 2009-06-23 16:38:54 as
	Non-linear optimization of biochemical pathways: applications to metabolic engineering and parameter estimation [My Copy] Bioinformatics, Vol. 14 (1998), pp. 869-883. by P. Mendes, D. B. Kell posted to optimization systems-biology by peterli on 2009-06-23 11:33:44 as
	How to build valid and credible simulation models [My Copy] Proceedings of the 2008 Winter Simulation Conference, pp. 39-47. by A. M. Law edited by S. J. Mason, R. R. Hill, L. Monch, O. Rose, T. Jefferson, J. W. Fowler posted to simulation validation by peterli on 2009-06-22 12:29:08 as
	Reactome: a knowledge base of biologic pathways and processes [My Copy] Genome Biology, Vol. 8, No. 3. (16 March 2007), R39. by Imre Vastrik, Peter D'Eustachio, Esther Schmidt, et al.Geeta J. Tope, Gopal Gopinath, David Croft, Bernard de Bono, Marc Gillespie, Bijay Jassal, Suzanna Lewis, Lisa Matthews, Guanming Wu, Ewan Birney, Lincoln Stein posted to pathway by peterli on 2009-06-03 14:59:54 as along with 15 people ipark-kaist neilswainston bertelsen aramesh2 dolchan shikin fgibson reyez guhjy dragonrez jfr balajis raiyar toshiaki_katayama AlexanderPico
	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 biology human modelling systems by peterli on 2009-06-01 16:52:18 as along with 10 people JeremyZucker vpenelle schwartzjmc Garamonfok dullhunk grahamc fishtank cjeans shung mdstobbe
	Parameter Estimation in Biochemical Pathways: A Comparison of Global Optimization Methods [My Copy] Genome Research, Vol. 13, No. 11. (1 November 2003), pp. 2467-2474. by Carmen G. Moles, Pedro Mendes, Julio R. Banga posted to biology parameter-estimation systems by peterli on 2009-06-01 15:48:09 as along with 10 people and 3 groups yuansong78 kentz cannin Borelli os252 nojhan jrbanga petrposik lord_weldaan pmendes EvolutionaryComputation Metaheuristics Optimization
	Computational procedures for optimal experimental design in biological systems. [My Copy] IET systems biology, Vol. 2, No. 4. (July 2008), pp. 163-172. by E. Balsa-Canto, A. A. Alonso, J. R. Banga posted to biology modelling systems by peterli on 2009-06-01 15:16:15 as along with 1 person agomez
	Modelling the dynamics of signalling pathways. [My Copy] Essays in biochemistry, Vol. 45 (2008), pp. 1-28. by Sree N. Sreenath, Kwang-Hyun H. Cho, Peter Wellstead posted to biology modelling systems by peterli on 2009-06-01 15:09:52 as along with 2 people chica cannin
	Flexible informatics for linking experimental data to mathematical models via DataRail [My Copy] Bioinformatics, Vol. 24, No. 6. (15 March 2008), pp. 840-847. by Julio Saez-Rodriguez, Arthur Goldsipe, Jeremy Muhlich, et al.Leonidas G. Alexopoulos, Bjorn Millard, Douglas A. Lauffenburger, Peter K. Sorger posted to biology modelling systems by peterli on 2009-06-01 15:08:47 as along with 6 people and 1 group abhishek_tiwari askrajiv jaycopeland guhjy cdppublications GeeSharpMinor SorgerLab
	Metabolic modeling of microbial strains in silico. [My Copy] Trends Biochem Sci, Vol. 26, No. 3. (March 2001), pp. 179-186. by M. W. Covert, C. H. Schilling, I. Famili, et al.J. S. Edwards, I. I. Goryanin, E. Selkov, B. O. Palsson posted to biology metabolism modelling systems by peterli on 2009-05-29 10:21:51 as along with 2 people and 2 groups icases raiyar steinmetzlab TNT
	High-throughput classification of yeast mutants for functional genomics using metabolic footprinting. [My Copy] Nat Biotechnol, Vol. 21, No. 6. (June 2003), pp. 692-696. by J. Allen, H. M. Davey, D. Broadhurst, et al.J. K. Heald, J. J. Rowland, S. G. Oliver, D. B. Kell posted to metabolism yeast by peterli on 2009-05-28 11:45:41 as along with 4 people and 3 groups dbk irenas raiyar katerinakal streptomyces dbk-lab steinmetzlab
	R: A language for data analysis and graphics [My Copy] J Compu Graph Statistics, Vol. 5, pp. 299-314. by R. Ihaka, R. Gentleman posted to analysis data by peterli on 2009-05-27 13:56:37 as
	PubChem: Integrated Platform of Small Molecules and Biological Activities [My Copy] Annual Reports in Computational Chemistry, Vol. 4 (2008) by E. E. Bolton, Y. Wang, P. A. Thiessen, S. H. Bryant posted to database metabolite by peterli on 2009-05-27 11:13:06 as
	Taverna: a tool for building and running workflows of services [My Copy] Nucl. Acids Res., Vol. 34, No. suppl_2. (1 July 2006), pp. W729-732. by Duncan Hull, Katy Wolstencroft, Robert Stevens, et al.Carole Goble, Mathew R. Pocock, Peter Li, Tom Oinn posted to bioinformatics taverna workflow by peterli on 2009-05-26 14:01:34 as along with 18 people and 1 group fisherp barriot bertelsen egonw vijyendra pekrau tjtaylor Cortel guhjy shikin daforerog druvus moborg wnpx asddd mroos dullhunk alanrw AID
	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, Vol. 104, No. 6. (6 February 2007), pp. 1777-1782. by N. C. Duarte, S. A. Becker, N. Jamshidi, et al.I. Thiele, M. L. Mo, T. D. Vo, R. Srivas, B. Ø. Palsson posted to biology human metabolism systems by peterli on 2009-05-26 11:07:17 as along with 9 people and 1 group vpenelle schwartzjmc michaelbarton dullhunk guhjy balajis alexg raiyar noby steinmetzlab
	ChEBI: a database and ontology for chemical entities of biological interest [My Copy] Nucl. Acids Res., Vol. 36, No. suppl_1. (11 January 2008), pp. D344-350. by Kirill Degtyarenko, Paula de Matos, Marcus Ennis, et al.Janna Hastings, Martin Zbinden, Alan McNaught, Rafael Alcantara, Michael Darsow, Mickael Guedj, Michael Ashburner posted to database metabolite by peterli on 2009-05-22 16:29:24 as along with 11 people and 1 group pauladza guhjy Effie schwartzjmc pauldobson richardbickerton anthropomorphism irenas dullhunk massivemayhem grottenolm NaCTeM
	SYCAMORE - A SYstems biology Computational Analysis and MOdeling Research Environment. [My Copy] Bioinformatics (Oxford, England) (7 May 2008) by Andreas Weidemann, Stefan Richter, Matthias Stein, et al.Sven Sahle, Ralph Gauges, Razif Gabdoulline, Irina Surovtsova, Nils Semmelrock, Bruno Besson, Isabel Rojas, Rebecca Wade, Ursula Kummer posted to biology sabio-rk systems by peterli on 2009-05-22 11:46:02 as along with 2 people lenov guhjy
	KEGG for linking genomes to life and the environment [My Copy] Nucl. Acids Res., Vol. 36, No. suppl_1. (11 January 2008), pp. D480-484. by Minoru Kanehisa, Michihiro Araki, Susumu Goto, et al.Masahiro Hattori, Mika Hirakawa, Masumi Itoh, Toshiaki Katayama, Shuichi Kawashima, Shujiro Okuda, Toshiaki Tokimatsu, Yoshihiro Yamanishi posted to no-tag by peterli on 2009-05-20 13:44:00 as along with 31 people ajsferreira Thaverkamp sjcockell JeremyZucker jperkins vkwn pablocarb VGreiff mqbphcw3 karinlag robert85 jjray schwartzjmc ubcg08l allysonlister YukaH Cortel coela daforerog reyez namunet irenas guhjy raiyar barriot renatomilani shung hpaces massivemayhem natstreet TheresaNiederberger
	Saccharomyces genome database: Underlying principles and organisation [My Copy] Brief Bioinform, Vol. 5, No. 1. (1 January 2004), pp. 9-22. by Selina S. Dwight, Rama Balakrishnan, Karen R. Christie, et al.Maria C. Costanzo, Kara Dolinski, Stacia R. Engel, Becket Feierbach, Dianna G. Fisk, Jodi Hirschman, Eurie L. Hong, Laurie Issel-Tarver, Robert S. Nash, Anand Sethuraman, Barry Starr, Chandra L. Theesfeld, Rey Andrada, Gail Binkley, Qing Dong, Christopher Lane, Mark Schroeder, Shuai Weng, David Botstein, J. Michael Cherry posted to database yeast by peterli on 2009-05-20 13:41:37 as along with 4 people and 1 group mtaschuk mgomes irenas dullhunk dbk-lab
	The UniProtKB/Swiss-Prot knowledgebase and its Plant Proteome Annotation Program. [My Copy] Journal of proteomics, Vol. 72, No. 3. (13 April 2009), pp. 567-573. by M. Schneider, L. Lane, E. Boutet, et al.D. Lieberherr, M. Tognolli, L. Bougueleret, A. Bairoch posted to database protein uniprot by peterli on 2009-05-20 13:37:31 as along with 4 people brianb BioNica natstreet druvus
	Integration of CellDesigner and SABIO-RK. [My Copy] In silico biology, Vol. 7, No. 2 Suppl. (2007) by A. Funahashi, A. Jouraku, Y. Matsuoka, H. Kitano posted to biology systems by peterli on 2009-05-19 12:47:04 as along with 1 person dullhunk
	Storing and annotating of kinetic data. [My Copy] In silico biology, Vol. 7, No. 2 Suppl. (2007) by I. Rojas, M. Golebiewski, R. Kania, et al.O. Krebs, S. Mir, A. Weidemann, U. Wittig posted to biology database kinetics systems by peterli on 2009-05-19 12:44:44 as
	Data and model integration using JWS Online. [My Copy] In Silico Biol, Vol. 7, No. 2 Suppl. (2007) by C. van Gend, R. Conradie, F. B. du Preez, J. L. Snoep posted to biology database model simulation systems by peterli on 2009-05-19 12:43:04 as along with 1 person guhjy
	BioModels Database: a free, centralized database of curated, published, quantitative kinetic models of biochemical and cellular systems. [My Copy] Nucleic acids research, Vol. 34, No. Database issue. (1 January 2006), pp. D689-691. by Nicolas Le Novère, Benjamin Bornstein, Alexander Broicher, et al.Mélanie Courtot, Marco Donizelli, Harish Dharuri, Lu Li, Herbert Sauro, Maria Schilstra, Bruce Shapiro, Jacky L. Snoep, Michael Hucka posted to biology database systems by peterli on 2009-05-19 12:39:48 as along with 11 people and 2 groups irenas jporternj yujiangwang behindtherabbit allysonlister shikin wnpx dullhunk dagmar lenov pmendes dIEMoSIRIS compneur
	MeMo: a hybrid SQL/XML approach to metabolomic data management for functional genomics [My Copy] BMC Bioinformatics, Vol. 7 (05 June 2006), 281. by Irena Spasic, Warwick Dunn, Giles Velarde, et al.Andy Tseng, Helen Jenkins, Nigel W. Hardy, Stephen G. Oliver, Douglas B. Kell posted to database metabolomics by peterli on 2009-05-19 11:45:05 as along with 1 person claas01
	The PRIDE proteomics identifications database: data submission, query, and dataset comparison. [My Copy] Methods in molecular biology (Clifton, N.J.), Vol. 484 (2008), pp. 287-303. by P. Jones, R. Côté posted to database protein by peterli on 2009-05-19 11:43:33 as along with 1 person druvus
	Can yeast glycolysis be understood in terms of in vitro kinetics of the constituent enzymes? Testing biochemistry. [My Copy] European journal of biochemistry / FEBS, Vol. 267, No. 17. (September 2000), pp. 5313-5329. by B. Teusink, J. Passarge, C. A. Reijenga, et al.E. Esgalhado, C. C. van der Weijden, M. Schepper, M. C. Walsh, B. M. Bakker, K. van Dam, H. V. Westerhoff, J. L. Snoep posted to biology glycolysis systems by peterli on 2009-05-19 11:29:10 as along with 6 people dadiamah schwartzjmc dullhunk pmendes marcio michaelbarton
	Schemes of flux control in a model of Saccharomyces cerevisiae glycolysis. [My Copy] Eur J Biochem, Vol. 269, No. 16. (August 2002), pp. 3894-3904. by L. Pritchard, D. B. Kell posted to biology glycolysis systems by peterli on 2009-05-19 11:27:18 as along with 6 people and 2 groups pmendes schwartzjmc michaelbarton dbk LeightonP dullhunk streptomyces dbk-lab
	COPASI--a COmplex PAthway SImulator. [My Copy] Bioinformatics (Oxford, England), Vol. 22, No. 24. (15 December 2006), pp. 3067-3074. by Stefan Hoops, Sven Sahle, Ralph Gauges, et al.Christine Lee, Jürgen Pahle, Natalia Simus, Mudita Singhal, Liang Xu, Pedro Mendes, Ursula Kummer posted to copasi sbml by peterli on 2009-05-18 13:56:01 as along with 10 people and 3 groups jvb yujiangwang schwartzjmc tonamswish agomez guhjy dragonrez carmaus dagmar pmendes dIEMoSIRIS MoSi-Rostock compneur
	Network-based prediction of human tissue-specific metabolism. [My Copy] Nature biotechnology, Vol. 26, No. 9. (17 September 2008), pp. 1003-1010. by Tomer Shlomi, Moran N. Cabili, Markus J. Herrgård, Bernhard Ø. Palsson, Eytan Ruppin posted to data expression gene human integration metabolism by peterli on 2008-10-20 09:02:48 as along with 12 people phoenixzxl grahamc yaredo Sonix jfr roys mdstobbe klo ptrobajo renatomilani zwang guhjy
	Something from nothing - bridging the gap between constraint-based and kinetic modelling [My Copy] The FEBS journal, Vol. 274, No. 21. (November 2007), pp. 5576-5585. by Smallbone, Kieran, Simeonidis, et al. Evangelos, Broomhead, S. David, Kell, B. Douglas posted to biology glycolysis modelling systems by peterli on 2008-07-09 11:56:57 as along with 4 people and 1 group dadiamah schwartzjmc dbk pmendes dbk-lab
	Are the current ontologies in biology good ontologies? [My Copy] Nature Biotechnology, Vol. 23, No. 9. (01 September 2005), pp. 1095-1098. by Larisa N. Soldatova, Ross D. King posted to microarray ontologies by peterli on 2008-05-23 15:38:43 as along with 17 people and 5 groups operon mikel_egana dagmar vkwn jerome irenas Yanno wcrosbie yas dullhunk onca anon_pl mhucka jmuhlich leechuck pablomendes dansullivanblk Life Sciences Semantic Web (LSSW) dbk-lab Wikipedia CoP_CMS T_lab
	The markup is the model: Reasoning about systems biology models in the Semantic Web era [My Copy] Journal of Theoretical Biology by Douglas B. Kell, Pedro Mendes posted to bioinformatics biology systems by peterli on 2008-05-14 16:04:15 as
	Chemistry for everyone [My Copy] Nature, Vol. 451, No. 7179. (7 February 2008), pp. 648-651. by Peter Murray-Rust posted to cheminformatics by peterli on 2008-05-01 14:42:58 as along with 10 people and 1 group Effie egonw aberamanda ucbcjbm operon dullhunk hpiwowar sci91078 massivemayhem guhjy NaCTeM
	Multilevel regulation of growth rate in yeast revealed using systems biology [My Copy] Journal of Biology, Vol. 6 (30 April 2007), 3. by Arvind Ramanathan, Stuart L. Schreiber posted to biology growth rate systems yeast by peterli on 2007-05-22 09:43:19 as
	Standards for systems biology [My Copy] Nature Reviews Genetics, Vol. 7, No. 8. (01 August 2006), pp. 593-605. by Alvis Brazma, Maria Krestyaninova, Ugis Sarkans posted to biology data standards systems by peterli on 2007-05-21 16:38:53 as along with 17 people and 3 groups mtaschuk irenas abhishek_tiwari allysonlister ptrobajo hbricknell daforerog natstreet aalibes jfr rdiaz ronaldozhou mhucka dagmar sgoetz giovenko fgibson dIEMoSIRIS compneur GelML
	DataBiNS: a BioMoby-based data-mining workflow for biological pathways and non-synonymous SNPs. [My Copy] Bioinformatics (Oxford, England), Vol. 23, No. 6. (15 March 2007), pp. 780-782. by Young C. Song, Edward Kawas, Ben M. Good, Mark D. Wilkinson, Scott J. Tebbutt posted to pathway snp taverna workflow by peterli on 2007-04-26 17:49:26 as along with 6 people daforerog druvus guhjy Ayest moborg dullhunk
	Beyond standardization: dynamic software infrastructures for systems biology [My Copy] Nature Reviews Genetics, Vol. 8, No. 3. (13 February 2007), pp. 235-243. by Morris A. Swertz, Ritsert C. Jansen posted to biology software systems by peterli on 2007-04-09 18:57:00 as along with 7 people and 1 group mtaschuk dansullivanblk druvus moborg dullhunk mhucka jfr Bioinformatics

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biology	19
systems	19
modelling	11
systems-biology	10
database	9
metabolism	5
validation	5
data	4
simulation	4
yeast	4
glycolysis	3
human	3
metabolomics	3
bioinformatics	2
cheminformatics	2
metabolite	2
pathway	2
protein	2
sbml	2
taverna	2
workflow	2
analysis	1
copasi	1
expression	1
gene	1
growth	1
integration	1
kinetics	1
mass_spectrometry	1
microarray	1
model	1
numerical_optimization_methods	1
ontologies	1
optimization	1
parameter-estimation	1
proteomics	1
rate	1
sabio-rk	1
snp	1
sociology	1
software	1
standards	1
turbidostat	1
uniprot	1

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