CCS:
Systems biology

Keywords:
systems biology

Abstract:
... in the representation, storage, manipulation, and communication of knowledge in systems biology. . Models capable of fulfilling such a role will likely ...

Primary CCS:
Systems biology

Title:
Systems biology, models, and concurrency

Full Text:
Systems Biology, , Models, and Concurrency?Walter FontanaDepartment of Systems Biology, , Harvard Medical School, 200 Longwood Avenue, Boston MA 02115, ... [Life and medical sci-ences]: Biology and geneticsGeneral Terms Experimentation, LanguagesKeywords systems biology, , models, concurrency, KappaSummaryIn the past decades, molecular biology and ...

CCS:
Systems biology

Keywords:
systems biology

Primary CCS:
Systems biology

References:
Furber, J. D. 2010. Systems biology of human aging: Network model of biochemical and physiological interactions in human senescence. http://www.legendarypharma.com/chartbg.html

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... generationGeneral Terms: Algorithms, Experimentation, PerformanceAdditional Key Words and Phrases: Planning, systems biology, , searchACM Reference Format:Bryce, D., Verdicchio, M., and Kim, S. ... systems, especially gene regulatory systems, has been thecrux of computational systems biology and biomedical science in general. Oncea model is constructed, it ...
... for reaching any state in the destination basin.Aging networks. The systems biology of human aging is a complex, quanti-tative process. Many theories ...
... analyzeexpression data. J. Comput. Biol. 7, 601?620.FURBER, J. D. 2010. Systems biology of human aging: Network model of biochemical and physi-ological interactions ...

CCS:
Systems biology

Keywords:
systems biology

CCS:
Systems biology

Keywords:
systems biology

CCS:
Systems biology

Keywords:
systems biology

Abstract:
As systems biology has begun to draw growing attention, bio-network inference and analysis ...

Primary CCS:
Systems biology

References:
Hucka, M., Finney, A., Sauro, H., M., Bolouri, H., Doyle, J., and Kitano, H. The ERATO Systems Biology Workbench: Enabling Interaction and Exchange between Software Tools for Computational Biology. In Proceedings of the Pacific Biocomputing Symposium 2002

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... Yuseong-Gu Daejeon, 305-701, Republic of Korea +82-42-869-4356 yhkim@biosoft.kaist.ac.kr ABSTRACT As systems biology has begun to draw growing attention, bio-network inference and analysis ... ? Biology and genetics General Terms Management, Design, Standardization. Keywords Systems Biology, , Information Fusion, Network Inference 1. INTRODUCTION Understanding internal networks ...
... enables one to assay microarray data and annotate inferred networks. Systems Biology Workbench (SBW) [20] also tries to connect various tools for ...
... M., Bolouri, H., Doyle, J., and Kitano, H. The ERATO Systems Biology Workbench: Enabling Interaction and Exchange between Software Tools for Computational ...

CCS:
Systems biology

Keywords:
systems biology

Primary CCS:
Systems biology

Full Text:
... Descriptors: J.3 [LIFE ANDMEDICAL SCIENCES]: Biology and geneticsGeneral Terms: Algorithms.Keywords: Systems Biology, , Gene Regulation, Inference,Evolutionary Algorithm.1. INTRODUCTIONThe construction of a network ...

CCS:
Systems biology

Keywords:
Systems biology, stochastic simulation, deterministic, biochemical networks.

Abstract:
Computational systems biology is largely driven by mathematical modeling and simulation of biochemical ... to a concentration gradient makes this method particularly attractive for systems biology-

Primary CCS:
Systems biology

References:
H. Kitano, "Computational Systems Biology," Nature, vol. 420, pp. 206-210, Nov. 2002.
H. Kitano, "Systems Biology: A Brief Overview," Science, vol. 295, pp. 1662-1664, Mar. 2002.
D.J. Wilkinson, Stochastic Modelling for Systems Biology. Chapman and Hall/CRC Press, 2006.
Q. Zhang, S. Bhattacharya, D.E. Kline, R.B. Crawford, R.B. Conolly, R.S. Thomas, N.E. Kaminski, and M.E. Anderson, "Stochastic Modeling of B Lymphocyte Terminal Differentiation and Its Suppression by Dioxin," BMC Systems Biology, vol. 4:40, pp. 1-18, Apr. 2010.

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... Simulating the Dynamicsof Biochemical SystemsAmit Sabnis and Robert W. HarrisonAbstract?Computational systems biology is largely driven by mathematical modeling and simulation of biochemical ... to a concentration gradient makes this method particularly attractive for systems biology- -based applications.Index Terms?Systems biology, , stochastic simulation, deterministic, biochemical networks. 1 INTRODUCTIONSYSTEMS-LEVEL investigation of biological ...
... is a Georgia Cancer CoalitionDistinguished Cancer Scholar).REFERENCES[1] H. Kitano, ?Computational Systems Biology, ,? Nature, vol. 420,pp. 206-210, Nov. 2002.[2] H. Kitano, ?Systems Biology: : A Brief Overview,? Science, vol. 295,pp. 1662-1664, Mar. 2002.[3] ...
... 122, pp. 54-103, Jan. 2005.[7] D.J. Wilkinson,, Stochastic Modelling for Systems Biology. . Chapmanand Hall/CRC Press, 2006.[8] S. Ramsey, D. Orrell, and ... of B Lymphocyte Terminal Differentiationand Its Suppression by Dioxin,? BMC Systems Biology, , vol. 4:40,pp. 1-18, Apr. 2010.[10] A. Sabnis and R.W. ...

CCS:
Systems biology

Keywords:
algorithmic systems biology
systems biology

Abstract:
<p>The ultimate goal of systems biology is the development of executable in silico models of cells ... development of executable in silico models of cells and organisms. Systems biology attempts to provide an integrative methodology, which while able to ... and simulations novel biological knowledge.</p> <p>In its more modest instantiations, Systems Biology seeks to *clarify* current biological understandings by formalizing what the ...

Primary CCS:
Systems biology

Full Text:
... held by the author/owner(s).GECCO?11, July 12?16, 2011, Dublin, ACM 978-1-4503-0690-4/11/07.OutlineOutlineOutline?Essential Systems Biology? ?Synthetic Biology?Computational Modeling for Systems/Synthetic Biology?A Note on Ethical, Social ... Far FutureThe Far FutureThe Far FutureChells & The Cellularity ScaleOutlineOutlineOutline?Essential Systems Biology? ?Synthetic Biology?Computational Modeling for Synthetic Biology?A Note on Ethical, Social ... on Ethical, Social and Legal Issues?Conclusions1161Essential Systems BiologyEssential Systems BiologyEssential Systems Biology? ?The following slides are based on U. Alon?s papers & ... U. Alon?s papers & excellent introductory text book:?An Introduction to Systems Biology: : Design Principles of Biological Circuits??Also, you may want to ...
... in complex systems.?Provide a route to engineering & programming cells.OutlineOutlineOutline?Essential Systems Biology? ?Synthetic Biology ?Computational Modeling for Synthetic Biology?A Note on Ethical, ... to design, program, optimise & control (new) biological systemsSynthetic & Systems Biology: : Sisters DisciplinesSynthetic & Systems Biology: : Synthetic & Systems Biology: : Sisters DisciplinesSisters Disciplines20Top-Down Synthetic Biology: An Approach to Engineering ...
... novel genetic sequential logic circuit: a push-on push-off switch, Molecular Systems Biology 6; Article number 3501168Example III: Push-on/Push-off circuitExample III: PushExample III: ... novel genetic sequential logic circuit: a push-on push-off switch, Molecular Systems Biology 6; Article number 350? Two different bacterial strains carrying specific ... MIT Registry of Standard PartsThe MIT Registry of Standard Partshttp://partsregistry.org/Main_Page1169OutlineOutlineOutline?Essential Systems Biology? ?Synthetic Biology ?Computational Modeling for Synthetic Biology?A Note on Ethical, ... is potentially a distinction between modeling for Synthetic Biology vs Systems Biology: :?Systems Biology is concerned with Biology as it is?Synthetic Biology is concerned ... making bothmore reliableModel DevelopmentModel DevelopmentModel DevelopmentFrom [E. Klipp et al, Systems Biology in Practice, 2005]:1) Formulation of the problem2) Verification of available ...
... King, and N. Krasnogor. Stochastic and deterministic multiscale models for systems biology: : an auxin-transport case study. BMC Systems Biology, , 4(:34), March 2010InfoBiotics Workbench and DashboardSpecificationDistributed and parallel rewritting ...
... Bennett, M. Gheorghe, and N. Krasnogor. Modular assembly of cell systems biology models using p systems. International Journal of Foundations of Computer ...
... Bennett, M. Gheorghe, and N. Krasnogor. Modular assembly of cell systems biology models using p systems. International Journal of Foundations of Computer ... low)Range of possible cross talk /leakiness between the various modules1184Outline?Essential Systems Biology? ?Synthetic Biology?Computational Modeling for Synthetic Biology?A Note on Ethical, Social ...
... only smarter, safer and Biology only smarter, safer and clearerclearerOutlineOutline?Essential Systems Biology? ?Synthetic Biology?Computational Modeling for Synthetic Biology?A Note on Ethical, Social ... M. Bennett, M. Gheorghe, and N.Krasnogor. Modular assembly of cell systems biology models using p systems. International Journal of Foundations of Computer ...
... Camara, and N. Krasnogor. Structure and parameter estimation for cell systems biology models. In Maarten Keijzer et.al, editor, Proceedings of the Genetic ...

CCS:
Systems biology

Keywords:
Process algebras, biological systems, modeling, Systems Biology Markup Language (SBML), translation tool, systems biology

Abstract:
A translation of SBML (Systems Biology Markup Language) into a process algebra is proposed in order ...

Primary CCS:
Systems biology

References:
H. Kitano, "Systems Biology: A Brief Overview," Science, vol. 295, no. 5560, pp. 1662-1664, 2002.
M. Calder, S. Gilmore, and J. Hillston, "Modeling the Influence of RKIP on the ERK Signalling Pathway Using the Stochastic Process Algebra PEPA," Proc. Computational Methods in Systems Biology (CMSB '04), 2004.
M. Hucka, A. Finney, B.J. Bornstein, S.M. Keating, B.E. Shapiro, J. Matthews, B.L. Kovitz, M.J. Schilstra, A. Funahashi, J.C. Doyle, and H. Kitano, "Evolving a Lingua Franca and Associated Software Infrastructure for Computational Systems Biology: The Systems Biology Markup Language (SBML) Project," Systems Biology, vol. 1, no. 1, June 2004.
N. Chabrier, F. Fages, and S. Soliman, "The Biochemical Abstract Machine BIOCHAM," Proc. Workshop Computational Methods in Systems Biology (CMSB '04), 2004.
C. Priami and P. Quaglia, "Beta Binders for Biological Interactions," Proc. Computational Methods in Systems Biology (CMSB '04), 2004.
F. Ciocchetta, C. Priami, and P. Quaglia, "Modeling Kohn Interaction Maps with Beta-Binders: An Example," Trans. Computational Systems Biology, vol. 3, pp. 33-48, 2005.
A. Finney and M. Hucka, "Systems Biology Markup Language (SBML) Level 2: Structures and Facilities for Model Definitions," http://sbml.org/documents/, 2003.
F. Ciocchetta and C. Priami, "Beta-Binders with Biological Trans.," Technical Report TR-10-2006, The Microsoft Research--Univ. of Trento Centre for Computational and Systems Biology, 2006.

Full Text:
... SBMLinto Beta-BindersFederica Ciocchetta, Corrado Priami, and Paola QuagliaAbstract?A translation of Systems Biology Markup Language (SBML) into a process algebra is proposed in ... a simple model is reported.Index Terms?Process algebras, biological systems, modeling, Systems Biology Markup Language (SBML), translation tool, systemsbiology. 1 INTRODUCTIONSYSTEMS biology is a ... studies have been carried out [9], [10].Another major challenge in systems biology is thedefinition of a standard for the collection and the ... is with The Microsoft Research?University of Trento, Centrefor Computational and Systems Biology, , Piazza Manci 17, I-38050 Povo(TN), Italy. E-mail: priami@dit.unitn.it.. P. ...
... is shown (Section 8). Finally, Section 9reports some final observations.2 SYSTEMS BIOLOGY MARKUP LANGUAGE (SBML)SBML is an XML-based format for the representation ...
... toward her PhDdegree at the University of Trento.REFERENCES[1] H. Kitano, ?Systems Biology: : A Brief Overview,? Science, vol. 295,no. 5560, pp. 1662-1664, ... Pathway Using the Stochastic ProcessAlgebra PEPA,? Proc. Computational Methods in Systems Biology( (CMSB ?04), 2004.[7] BIOSPI Project, http://www.wisdom.weizmann.ac.il/biospi/,June 2006.[8] A. Phillips, ?SPIM, ... Kitano, ?Evolving a Lingua Franca and AssociatedSoftware Infrastructure for Computational Systems Biology: : TheSystems Biology Markup Language (SBML) Project,? SystemsBiology, vol. 1, ...
... Quaglia, ?Beta Binders for Biological Interac-tions,? Proc. Computational Methods in Systems Biology (CMSB ?04),2004.[21] F. Ciocchetta, C. Priami, and P. Quaglia, ?Modeling ... Quaglia, ?Modeling KohnInteraction Maps with Beta-Binders: An Example,? Trans. Compu-tational Systems Biology, , vol. 3, pp. 33-48, 2005.[22] SBML Homepage, http://www.sbml.org/, Dec. ... SBML Homepage, http://www.sbml.org/, Dec. 2005.[23] A. Finney and M. Hucka, ?Systems Biology Markup Language(SBML) Level 2: Structures and Facilities for Model Definitions,?http://sbml.org/documents/, ... Report TR-10-2006, The Microsoft Research?Univ. ofTrento Centre for Computational and Systems Biology, , 2006.[28] C.V. Rao and A.P. Arkin, ?Stochastic Chemical Kinetics ... University ofEdinburgh. Her current research interests are inprocess calculi and systems biology. . Specifi-cally, she is interested in the application ofprocess algebras ...
... andorganizing committees. He coordinates national and internationalprojects on computational and systems biology, , formal methods, andsemantics. He published more than 120 papers ...

CCS:
Systems biology

Keywords:
systems biology

Primary CCS:
Systems biology

References:
D. Del Vecchio, A. Ninfa, and E. Sontag. Modular cell biology: retroactivity and insulation. Molecular Systems Biology, 4:161, 2008.

Full Text:
... DescriptorsJ.3 [Computer Applications]: Life and Medical SciencesKeywordsComputational Biology, Gene Expression, Systems Biology, ,Synthetic Biology, Yeast1. MOTIVATIONThe application of control theory to systems biology isnot novel. However, until recently, control theory has beenmostly employed ... so far. This problemis of importance not only for the systems biology communitybut also for the synthetic biology community.In the ?rst case, ...

CCS:
Systems biology

Keywords:
systems biology

Primary CCS:
Systems biology

Full Text:
... 2012, Philadelphia, Pennsylvania, USA.Copyright 2012 ACM 978-1-4503-1177-9/12/07 ...$10.00.KeywordsAnt Colony Optimization, Systems Biology, , Gene Expres-sion, Epigenetics1. INTRODUCTIONSince the introduction of the so-called ... give only one of many possible examples.Recent advances in large-scale systems biology wet lab ma-chinery provided us with huge amounts of both ...

CCS:
Systems biology

Keywords:
systems biology

Primary CCS:
Systems biology

References:
Dill, D. L., Knapp, M., Gage, P., Talcott, C. L., Laderoute, K., and Lincoln, P. 2005. The pathalyzer: A tool for analysis of signal transduction pathways. In Systems Biology and Regulatory Genomics (2007-09-20), E. Eskin, T. Ideker, B. J. Raphael, and C. T. Workman, Eds. Lecture Notes in Computer Science, vol. 4023. Springer, 11--22.
Hucka, M., Finney, A., Sauro, H., Bolouri, H., Doyle, J., and Kitano, H. 2002. The erato systems biology workbench: Enabling interaction and exchange between software tools for computational biology.
Kitano, H. 2001. Foundations of Systems Biology. MIT Press, Cambridge, MA, USA.
Priami, C. and Quaglia, P. 2005. Beta binders for biological interactions. In Proc. of Computational Methods in Systems Biology. LNCS, vol. 3082. Spinger, 20--33.

CCS:
Systems biology

Keywords:
systems biology

References:
D. Wilkinson. Stochastic modelling for systems biology. Chapman & Hall/CRC, 2006.

Full Text:
... Sciences]: Biology and geneticsGeneral TermsVeri?cationKeywordsSthochastic hybrid systems, Hybrid Input Output Automata,Systems Biology, , Ver?cation1. INTRODUCTIONStochastic hybrid systems are widely used in areas ...

CCS:
Systems biology

Keywords:
systems biology

References:
Breitling, R., Donaldson, R., Gilbert, D., & Heiner, M. (2010). Biomodel Engineering--From structure to behavior. Transactions on Computational Systems Biology XII, 1--12.
Dori D. and Choder M. (2007). Conceptual modeling in systems biology fosters empirical findings: the mRNA lifecycle. PLoS ONE. 2: e872.

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... Massachusetts Institute of Technology Keywords: Finite-state Transition Systems, Formal Verification, Systems Biology Abstract A myriad of detailed pieces of knowledge regarding the ... system. This trend calls for adopting a holistic, integrating, model-based Systems Biology paradigm that would enable making system-level sense of the countless ... efforts, many of which are currently considered as contributions to Systems Biology, , are aimed at understanding the underlying structure and behavior ... propose a modeling and verification framework to support research in Systems Biology. . The framework includes OPM-based modeling of biological systems, presented ...
Computational Systems Biology XII, , 1-12. 6. Harel D., Setty Y., Efroni S., ... 9. Dori D. and Choder M. (2007). Conceptual modeling in systems biology fosters empirical findings: the mRNA lifecycle. PLoS ONE. 2: e872. ...

CCS:
Systems biology

Keywords:
systems biology

Abstract:
... decades have witnessed great advances in the computational modeling and systems biology fields. Soon after the first models of metabolism were developed, ...

Primary CCS:
Systems biology

References:
Adam M Feist, Christopher S Henry, Jennifer L Reed, Markus Krummenacker, Andrew R Joyce, Peter D Karp, Linda J Broadbelt, Vassily Hatzimanikatis, and Bernhard Ø Palsson. 2007. A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information. Molecular systems biology 3, 1 (2007).
Nathan E Lewis, Kim K Hixson, Tom M Conrad, Joshua A Lerman, Pep Charusanti, Ashoka D Polpitiya, Joshua N Adkins, Gunnar Schramm, Samuel O Purvine, Daniel Lopez-Ferrer, and others. 2010. Omic data from evolved E. coli are consistent with computed optimal growth from genome-scale models. Molecular systems biology 6, 1 (2010).

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... decades have witnessed great advances in the com-putational modeling and systems biology fields. Soon after thefirst models of metabolism were developed, methods ... Linear programming;Quadratic program-ming; ?Applied computing ? Computational biology; Bio-logical networks; Systems biology; ;KEYWORDSSystems Biology, Evolutionary Algorithms, Metabolic Networks,Multiobjective optimizationACM Reference format:Paulo Maia, ...
... K-12 MG1655 that accounts for 1260 ORFs and thermodynamicinformation. Molecular systems biology 3, 1 (2007).[5] Christopher S Henry, Matthew DeJongh, Aaron A ...

CCS:
Systems biology

Keywords:
systems biology

Primary CCS:
Systems biology

CCS:
Systems biology

Keywords:
systems biology

Primary CCS:
Systems biology

References:
S. Aitken and O. E. Akman. 2013. Nested sampling for parameter inference in systems biology: application to an exemplar circadian model. BMC Syst. Biol. 7, (2013), 72.

CCS:
Systems biology

Keywords:
Probabilistic model checking, systems biology, sodium-potassium pump, palytoxin.

Primary CCS:
Systems biology

References:
M. Kwiatkowska, G. Norman, and D. Parker, "Probabilistic Model Checking for Systems Biology," Symbolic Systems Biology, pp. 31- 59, Jones and Bartlett, 2010.
E.M. Clarke, J.R. Faeder, C.J. Langmead, L.A. Harris, S.K. Jha, and A. Legay, "Statistical Model Checking in BioLab: Applications to the Automated Analysis of T-Cell Receptor Signaling Pathway," Proc. Sixth Int'l Conf. Computational Methods in Systems Biology, pp. 231-250, 2008.
M. Kwiatkowska, G. Norman, and D. Parker, "Using Probabilistic Model Checking in Systems Biology," ACM SIGMETRICS Performance Evaluation Rev., vol. 35, no. 4, pp. 14-21, Mar. 2008.

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... to treat diseasesassociated to their incorrect behavior.Index Terms?Probabilistic model checking, systems biology, , sodium-potassium pump, palytoxin. 1 INTRODUCTIONPROBABILISTIC model checking (PMC) is a ...
... M. Kwiatkowska, G. Norman, and D. Parker, ?Probabilistic ModelChecking for Systems Biology, ,? Symbolic Systems Biology, , pp. 31-59, Jones and Bartlett, 2010.[10] M. Kwiatkowska, G. ...
... T-Cell Receptor Signaling Pathway,?Proc. Sixth Int?l Conf. Computational Methods in Systems Biology, ,pp. 231-250, 2008.1540 IEEE/ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS, ... Kwiatkowska, G. Norman, and D. Parker, ?Using ProbabilisticModel Checking in Systems Biology, ,? ACM SIGMETRICSPerformance Evaluation Rev., vol. 35, no. 4, pp. ... Minas Gerais(scholarship by CAPES) on the topics of modelchecking and systems biology. . He also com-pleted a technical course on computer manage-ment ...

CCS:
Systems biology

Keywords:
systems biology

References:
L. Dematté. Parallel Particle-Based reaction diffusion: A GPU implementation. In Workshop on High Performance Computational Systems Biology, pages 67--77, 2010.
L. Dematté and T. Mazza. On parallel stochastic simulation of diffusive systems. In Computational Methods in Systems Biology, volume 5307, pages 191--210, 2008.
L. Dematté and D. Prandi. GPU computing for systems biology. Briefings in Bioinformatics, 11(3):323--333, 2010.
M. Klann, A. Lapin, and M. Reuss. Agent-based simulation of reactions in the crowded and structured intracellular environment: Influence of mobility and location of the reactants. BMC Systems Biology, 5(1):71, 2011.
N. I. Markevich, M. A. Tsyganov, J. B. Hoek, and B. N. Kholodenko. Long-range signaling by phosphoprotein waves arising from bistability in protein kinase cascades. Molecular Systems Biology, 2, 2006.
K. Takahashi, S. N. V. Arjunan, and M. Tomita. Space in systems biology of signaling pathways -- towards intracellular molecular crowding in silico. FEBS Letters, 579(8):1783--1788, 2005.

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... September 21-23, 2011 Paris, FRCopyright 2011 ACM 978-1-4503-0817-5/11/09 ...$10.00.1. INTRODUCTIONANDRELATEDWORKIn systems biology, , the characteristics and complex inter-actions of all elements in ... is well-suited for massively parallelized algo-rithms.Scientific aspects of simulations in systems biology
... Particle-Based reaction diffusion:A GPU implementation. In Workshop on HighPerformance Computational Systems Biology, , pages67?77, 2010.[8] L. Dematte and T. Mazza. On parallel ... Mazza. On parallel stochasticsimulation of diffusive systems. In ComputationalMethods in Systems Biology, , volume 5307, pages191?210, 2008.[9] L. Dematte and D. Prandi. ... structuredintracellular environment: Influence of mobility andlocation of the reactants. BMC Systems Biology, ,5(1):71, 2011.[18] M. T. Klann, A. Lapin, and M. Reuss. ... signaling byphosphoprotein waves arising from bistability in81protein kinase cascades. Molecular Systems Biology, , 2,2006.[23] G. Marsaglia. Xorshift rngs. Journal of StatisticalSoftware, 8(14):1?6, ...
... K. Takahashi, S. N. V. Arjunan, and M. Tomita.Space in systems biology of signaling pathways ?towards intracellular molecular crowding in silico.FEBS Letters, ...

CCS:
Systems biology

Keywords:
system biology

Primary CCS:
Systems biology

References:
A. Gottlieb, G. Y. Stein, E. Ruppin, and R. Sharan. PREDICT: a method for inferring novel drug indications with application to personalized medicine. Molecular Systems Biology, 7(1), June 2011.
M. Kuhn, M. Campillos, I. Letunic, L. J. Jensen, and P. Bork. A side effect resource to capture phenotypic effects of drugs. Molecular systems biology, 6(1), 2010.

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... biology and geneticsGeneral TermsAlgorithmsKeywordsLink prediction, Drug repurposing, Drug discovery, Poly-pharmacology, System biology, , Statistical relational learning,Machine learningPermission to make digital or hard ...
... perspectives. Cockell et al. [8] describe how to buildan integrated systems biology network for drug repurposingwith elements such as drugs, targets, genes, ...
... inferring novel drug indicati-ons with application to personalized medicine. Molecu-lar Systems Biology, , 7(1), June 2011.[12] E. Jain, A. Bairoch, S. Duvaud, ... A side effect resource to capture phenotypiceffects of drugs. Molecular systems biology, , 6(1), 2010.[16] J. Lamb. The Connectivity Map: a new ...