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julius sysbio [31 articles]

Recent papers added to julius library classified by the tag sysbio. You can also see everyone's sysbio.
  • Drug[mdash]target network
    Nat Biotech, Vol. 25, No. 10. (October 2007), pp. 1119-1126.
    by Muhammed A Yildirim, Kwang-Il Goh, Michael E Cusick, Albert-Laszlo Barabasi, Marc Vidal
    posted to drug sysbio by julius on 2007-10-19 01:34:30 as *** along with 9 people and 1 group Yanno jyuh cannin jfr grahamc cjeans zwang dejori mingzhi libr
  • From Pathways Databases to Network Models of Switching Behavior
    PLoS Computational Biology, Vol. 3, No. 9. (1 September 2007), e152.
    by Baltazar D Aguda, Andrew B Goryachev
    posted to bioinformatics boolean qualitative sysbio by julius on 2007-09-29 16:23:37 as *** along with 3 people bayesian zwang Ema
  • Numerical Matrices Method for Nonlinear System Identification and Description of Dynamics of Biochemical Reaction Networks
    Biophys. J., Vol. 92, No. 10. (15 May 2007), pp. 3459-3473.
    by Alexey V Karnaukhov, Elena V Karnaukhova, James R Williamson
    posted to discrimination paramestim sysbio by julius on 2007-06-01 16:46:14 as *** along with 2 people and 1 group Borelli dylan77 SysbioMPI-TCells
  • A Kinetic Model for Calcium Dynamics in RAW 264.7 Cells: 1. Mechanisms, Parameters and Sub-populational Variability.
    Biophys J (4 May 2007)
    by Mano Ram R Maurya, Shankar Subramaniam
    posted to sysbio by julius on 2007-05-28 22:30:43 as ** along with 1 group SysbioMPI-TCells
  • Network-based prediction of protein function
    Mol Syst Biol, Vol. 3 (13 March 2007)
    by Roded Sharan, Igor Ulitsky, Ron Shamir
    posted to modularity sysbio by julius on 2007-05-22 17:46:27 as ** along with 11 people and 1 group ellakat carlk jjray cmmorel wnpx mikaelhuss massivemayhem cjeans iris_2001 karfunkel mingzhi SysbioMPI-TCells
  • Efficient classification of complete parameter regions based on semidefinite programming
    BMC Bioinformatics, Vol. 8 (15 January 2007), 12.
    by Lars Kuepfer, Uwe Sauer, Pablo A Parrilo
    posted to discrimination sysbio by julius on 2007-05-21 18:31:36 as read along with 1 person and 1 group jrbanga SysbioMPI-TCells
  • Tools for kinetic modeling of biochemical networks
    Nature Biotechnology, Vol. 24, No. 6. (June 2006), pp. 667-672.
    by Rui Alves, Fernando Antunes, Armindo Salvador
    posted to sysbio tools by julius on 2006-06-11 13:19:02 as read along with 4 people and 2 groups jfr jrbanga vietanh0 tlse65 SysbioMPI-TCells smac
  • Understanding bistability in complex enzyme-driven reaction networks
    PNAS, Vol. 103, No. 23. (6 June 2006), pp. 8697-8702.
    by Gheorghe Craciun, Yangzhong Tang, Martin Feinberg
    posted to multistability sysbio by julius on 2006-06-07 08:56:00 as read along with 1 group SysbioMPI-TCells
  • Scaffolding protein GAB1 sustains epidermal growth factor-induced mitogenic and survival signaling by multiple positive feedback loops.
    J Biol Chem (9 May 2006)
    by Anatoly Kiyatkin, Edita Aksamitiene, Nick I I Markevich, Nikolay M M Borisov, Jan B B Hoek, Boris N N Kholodenko
    posted to egf sysbio by julius on 2006-06-05 19:47:14 as ** along with 1 group SysbioMPI-TCells
  • Molecular flexibility can influence the stimulatory ability of receptor-ligand interactions at cell-cell junctions.
    Proc Natl Acad Sci U S A, Vol. 103, No. 12. (21 March 2006), pp. 4416-4421.
    by S Qi, M Krogsgaard, MM Davis, AK Chakraborty
    posted to immune sysbio tcell by julius on 2006-06-05 19:46:39 as ** along with 1 person and 1 group lna SysbioMPI-TCells
  • Genetic Network Analyzer: qualitative simulation of genetic regulatory networks
    Bioinformatics, Vol. 19, No. 3. (12 February 2003), pp. 336-344.
    by Hidde de Jong, Johannes Geiselmann, Celine Hernandez, Michel Page
    posted to qualitative sysbio by julius on 2006-05-26 13:30:09 as read along with 1 person and 4 groups beapen Atopic_and_Seborrhoeic_Dermatitis SysbioMPI-TCells Skin_Deep Applied_Bimatics
  • GINsim: A software suite for the qualitative modelling, simulation and analysis of regulatory networks
    Biosystems, Vol. 84, No. 2. (May 2006), pp. 91-100.
    by Gonzalez A Gonzalez, A Naldi, L Sanchez, D Thieffry, C Chaouiya
    posted to qualitative sysbio by julius on 2006-05-07 17:23:09 as *** along with 2 people and 2 groups nsamways rhem1224 TCR_Signaling SysbioMPI-TCells
  • The response of human epithelial cells to TNF involves an inducible autocrine cascade.
    Cell, Vol. 124, No. 6. (24 March 2006), pp. 1225-1239.
    by KA Janes, S Gaudet, JG Albeck, UB Nielsen, DA Lauffenburger, PK Sorger
    posted to apoptosis quantification sysbio by julius on 2006-04-10 10:33:00 as read along with 3 people and 3 groups dailybiomed jaycopeland cdppublications SysbioMPI-TCells SorgerLab CDP
  • Systems Biology Toolbox for MATLAB: a computational platform for research in systems biology
    Bioinformatics, Vol. 22, No. 4. (15 February 2006), pp. 514-515.
    by Henning Schmidt, Mats Jirstrand
    posted to sysbio by julius on 2006-03-24 16:04:04 as read along with 2 people and 2 groups raiyar jrbanga SysbioMPI-TCells steinmetzlab
  • A method for the generation of standardized qualitative dynamical systems of regulatory networks
    Theoretical Biology and Medical Modelling, Vol. 3, No. 1. (16 March 2006), 13.
    by Luis Mendoza, Ioannis Xenarios
    posted to immune sysbio tcell by julius on 2006-03-21 08:48:18 as ** along with 1 group SysbioMPI-TCells
  • Model of IP3 and Ca2+ oscillations: Frequency encoding and identification of underlying feedbacks.
    Biophys J (24 February 2006)
    by Antonio Politi, Lawrence D D Gaspers, Andrew P P Thomas, Thomas Höfer
    posted to sysbio by julius on 2006-03-06 12:30:54 as ** along with 1 group SysbioMPI-TCells
  • Colored Petri net modeling and simulation of signal transduction pathways
    Metabolic Engineering, Vol. 8, No. 2. (March 2006), pp. 112-122.
    by Dong-Yup Lee, Ralf Zimmer, Sang Y Lee, Sunwon Park
    posted to egf petrinets sysbio by julius on 2006-03-03 12:57:31 as ** along with 1 person and 1 group lukaswindhager SysbioMPI-TCells
  • Quantitative analysis of ultrasensitive responses
    FEBS Journal, Vol. 272, No. 16. (2005), pp. 4071-4079.
    by Stefan Legewie, Nils Bluthgen, Hanspeter Herzel
    posted to sysbio by julius on 2006-02-23 14:08:05 as ** along with 1 group SysbioMPI-TCells
  • Trading the micro-world of combinatorial complexity for the macro-world of protein interaction domains
    Biosystems, Vol. 83, No. 2-3. ( 2006), pp. 152-166.
    by Nikolay M Borisov, Nick I Markevich, Jan B Hoek, Boris N Kholodenko
    posted to insulin sysbio by julius on 2006-02-23 14:00:46 as *** along with 1 group SysbioMPI-TCells
  • Analysis of protein phosphorylation using mass spectrometry: deciphering the phosphoproteome
    Trends in Biotechnology, Vol. 20, No. 6. (1 June 2002), pp. 261-268.
    by Matthias Mann, Shao-En Ong, Mads Gronborg, Hanno Steen, Ole N Jensen, Akhilesh Pandey
    posted to quantification sysbio by julius on 2006-02-06 15:48:29 as ** along with 1 group SysbioMPI-TCells
  • A biological approach to computational models of proteomic networks
    Current Opinion in Chemical Biology, Vol. In Press, Corrected Proof
    by Kevin A Janes, Douglas A Lauffenburger
    posted to sysbio by julius on 2006-02-06 13:49:16 as read along with 6 people and 2 groups Borelli Ayest eweaver ponsfrilus cdppublications cdpwebadmin SysbioMPI-TCells CDP
  • A systematic framework for the design of reduced-order models for signal transduction pathways from a control theoretic perspective
    Computers & Chemical Engineering, Vol. 30, No. 3. (15 January 2006), pp. 437-452.
    by Mano R Maurya, Santhoji Katare, Priyan R Patkar, Ann E Rundell, Venkat Venkatasubramanian
    posted to modelreduction sysbio by julius on 2006-02-03 11:48:41 as ** along with 1 person and 1 group jrbanga SysbioMPI-TCells
  • Cancer: A Systems Biology disease
    Biosystems, Vol. In Press, Corrected Proof
    by Jorrit J Hornberg, Frank J Bruggeman, Hans V Westerhoff, Jan Lankelma
    posted to cancer sysbio by julius on 2006-02-03 11:44:24 as read along with 4 people and 1 group frohike Borelli fishtank maburkitt SysbioMPI-TCells
  • Robustness trade-offs and host-microbial symbiosis in the immune system
    Mol Syst Biol, Vol. 2, No. 1. (17 January 2006), pp. msb4100039-E1-msb4100039-E10.
    by Hiroaki Kitano, Kanae Oda
    posted to immune robustness sysbio by julius on 2006-02-01 08:20:55 as ** along with 1 person and 2 groups rhem1224 TCR_Signaling SysbioMPI-TCells
  • Modeling T Cell Antigen Discrimination Based on Feedback Control of Digital ERK Responses.
    PLoS Biol, Vol. 3, No. 11. (25 October 2005)
    by Grégoire Altan-Bonnet, Ronald N N Germain
    posted to immune sysbio tcell by julius on 2006-01-24 08:33:04 as read along with 3 people and 2 groups rklancer rhem1224 balabu TCR_Signaling SysbioMPI-TCells
  • Investigating the dynamic behavior of biochemical networks using model families.
    Bioinformatics, Vol. 21, No. 8. (15 April 2005), pp. 1617-1625.
    by MD Haunschild, B Freisleben, R Takors, W Wiechert
    posted to discrimination sysbio by julius on 2006-01-23 17:54:19 as *** along with 1 group SysbioMPI-TCells
  • Computer evaluation of network dynamics models with application to cell cycle control in budding yeast
    IEE Proceedings - Systems Biology, Vol. 153, No. 1. (2006), pp. 13-21.
    by NA Allen, KC Chen, CA Shaffer, JJ Tyson, LT Watson
    posted to cellcyle discrimination sysbio by julius on 2006-01-19 13:39:07 as ** along with 1 group SysbioMPI-TCells
  • Computational modelling of ErbB family phosphorylation dynamics in response to transforming growth factor alpha and heregulin indicates spatial compartmentation of phosphatase activity
    IEE Proceedings - Systems Biology, Vol. 153, No. 1. (2006), pp. 22-33.
    by BS Hendriks, J Cook, JM Burke, JM Beusmans, DA Lauffenburger, D de Graaf
    posted to egf erbb sysbio by julius on 2006-01-19 13:36:12 as *** along with 1 group SysbioMPI-TCells
  • Systems-level dissection of the cell-cycle oscillator: bypassing positive feedback produces damped oscillations.
    Cell, Vol. 122, No. 4. (26 August 2005), pp. 565-578.
    by JR Pomerening, SY Kim, JE Ferrell
    posted to cellcycle multistability sysbio by julius on 2006-01-18 09:27:17 as *** along with 1 person and 1 group rklancer SysbioMPI-TCells
  • A Systems Model of Signaling Identifies a Molecular Basis Set for Cytokine-Induced Apoptosis
    Science, Vol. 310, No. 5754. (9 December 2005), pp. 1646-1653.
    by Kevin A Janes, John G Albeck, Suzanne Gaudet, Peter K Sorger, Douglas A Lauffenburger, Michael B Yaffe
    posted to apoptosis sysbio by julius on 2006-01-18 09:01:26 as read along with 5 people and 3 groups tmmurali j3xucite jaycopeland cdppublications cdpwebadmin SysbioMPI-TCells SorgerLab CDP
  • Computational processing and error reduction strategies for standardized quantitative data in biological networks.
    FEBS J, Vol. 272, No. 24. (December 2005), pp. 6400-6411.
    by M Schilling, T Maiwald, S Bohl, M Kollmann, C Kreutz, J Timmer, U Klingmüller
    posted to quantification sysbio western by julius on 2006-01-18 08:58:56 as read along with 1 group SysbioMPI-TCells
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