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A data integration approach for cell cycle analysis oriented to model simulation in systems biology.

Alfieri R, Merelli I, Mosca E, Milanesi L.

BMC Syst Biol. 2007 Aug 1;1:35.PMID: 17678529 [PubMed - indexed for MEDLINE]Related articlesFree article

The cell cycle DB: a systems biology approach to cell cycle analysis.

Alfieri R, Merelli I, Mosca E, Milanesi L.

Nucleic Acids Res. 2008 Jan;36(Database issue):D641-5. Epub 2007 Dec 26.PMID: 18160409 [PubMed - indexed for MEDLINE]Related articlesFree article

CYCLONET--an integrated database on cell cycle regulation and carcinogenesis.

Kolpakov F, Poroikov V, Sharipov R, Kondrakhin Y, Zakharov A, Lagunin A, Milanesi L, Kel A.

Nucleic Acids Res. 2007 Jan;35(Database issue):D550-6.PMID: 17202170 [PubMed - indexed for MEDLINE]Related articlesFree article

Systems biology by the rules: hybrid intelligent systems for pathway modeling and discovery.

Bosl WJ.

BMC Syst Biol. 2007 Feb 15;1:13.PMID: 17408503 [PubMed - indexed for MEDLINE]Related articlesFree article

Knowledge discovery and system biology in molecular medicine: an application on neurodegenerative diseases.

Fattore M, Arrigo P.

In Silico Biol. 2005;5(2):199-208.PMID: 15972015 [PubMed - indexed for MEDLINE]Related articlesFree article

SysBioMed report: advancing systems biology for medical applications.

Wolkenhauer O, Fell D, De Meyts P, Blüthgen N, Herzel H, Le Novère N, Höfer T, Schürrle K, van Leeuwen I.

IET Syst Biol. 2009 May;3(3):131-6.PMID: 19449974 [PubMed - indexed for MEDLINE]Related articles

Computational systems biology of the cell cycle.

Csikász-Nagy A.

Brief Bioinform. 2009 Jul;10(4):424-34. Epub 2009 Mar 6. Review.PMID: 19270018 [PubMed - indexed for MEDLINE]Related articles

Modelling biological complexity: a physical scientist's perspective.

Coveney PV, Fowler PW.

J R Soc Interface. 2005 Sep 22;2(4):267-80. Review.PMID: 16849185 [PubMed - indexed for MEDLINE]Related articlesFree article

EUCLIS--an information system for circadian systems biology.

Batista RT, Ramirez DB, Santos RD, del Rosario MC, Mendoza ER.

IET Syst Biol. 2007 Sep;1(5):266-73.PMID: 17907674 [PubMed - indexed for MEDLINE]Related articles

Parameter estimation for cell cycle ordinary differential equation (ODE) models using a grid approach.

Alfieri R, Mosca E, Merelli I, Milanesi L.

Stud Health Technol Inform. 2007;126:93-102.PMID: 17476052 [PubMed - indexed for MEDLINE]Related articles

Dynamic simulation of regulatory networks using SQUAD.

Di Cara A, Garg A, De Micheli G, Xenarios I, Mendoza L.

BMC Bioinformatics. 2007 Nov 26;8:462.PMID: 18039375 [PubMed - indexed for MEDLINE]Related articlesFree article

Systems biology model databases and resources.

van Gend C, Snoep JL.

Essays Biochem. 2008;45:223-36. Review.PMID: 18793135 [PubMed - indexed for MEDLINE]Related articles

PathSys: integrating molecular interaction graphs for systems biology.

Baitaluk M, Qian X, Godbole S, Raval A, Ray A, Gupta A.

BMC Bioinformatics. 2006 Feb 7;7:55.PMID: 16464251 [PubMed - indexed for MEDLINE]Related articlesFree article

Towards building the silicon cell: a modular approach.

Snoep JL, Bruggeman F, Olivier BG, Westerhoff HV.

Biosystems. 2006 Feb-Mar;83(2-3):207-16. Epub 2005 Oct 19.PMID: 16242236 [PubMed - indexed for MEDLINE]Related articles

Report on EU-USA workshop: how systems biology can advance cancer research (27 October 2008).

Aebersold R, Auffray C, Baney E, Barillot E, Brazma A, Brett C, Brunak S, Butte A, Califano A, Celis J, Cufer T, Ferrell J, Galas D, Gallahan D, Gatenby R, Goldbeter A, Hace N, Henney A, Hood L, Iyengar R, Jackson V, Kallioniemi O, Klingmüller U, Kolar P, Kolch W, Kyriakopoulou C, Laplace F, Lehrach H, Marcus F, Matrisian L, Nolan G, Pelkmans L, Potti A, Sander C, Seljak M, Singer D, Sorger P, Stunnenberg H, Superti-Furga G, Uhlen M, Vidal M, Weinstein J, Wigle D, Williams M, Wolkenhauer O, Zhivotovsky B, Zinovyev A, Zupan B.

Mol Oncol. 2009 Feb;3(1):9-17. Epub 2008 Dec 9.PMID: 19383362 [PubMed - indexed for MEDLINE]Related articles

Linking experimental results, biological networks and sequence analysis methods using Ontologies and Generalised Data Structures.

Koehler J, Rawlings C, Verrier P, Mitchell R, Skusa A, Ruegg A, Philippi S.

In Silico Biol. 2005;5(1):33-44.PMID: 15972003 [PubMed - indexed for MEDLINE]Related articlesFree article

Towards cooperative frameworks for modeling and integrating biological processes knowledge.

Fernández-Breis JT, Martínez-Béjar R, Vivancos-Vicente PJ, Valencia-García R, García-Sánchez F.

IEEE Trans Nanobioscience. 2004 Sep;3(3):164-71.PMID: 15473068 [PubMed - indexed for MEDLINE]Related articles

A phase synchronization clustering algorithm for identifying interesting groups of genes from cell cycle expression data.

Kim CS, Bae CS, Tcha HJ.

BMC Bioinformatics. 2008 Jan 28;9:56.PMID: 18221564 [PubMed - indexed for MEDLINE]Related articlesFree article

ProteoLens: a visual analytic tool for multi-scale database-driven biological network data mining.

Huan T, Sivachenko AY, Harrison SH, Chen JY.

BMC Bioinformatics. 2008 Aug 12;9 Suppl 9:S5.PMID: 18793469 [PubMed - indexed for MEDLINE]Related articlesFree article

IntNetDB v1.0: an integrated protein-protein interaction network database generated by a probabilistic model.

Xia K, Dong D, Han JD.

BMC Bioinformatics. 2006 Nov 18;7:508.PMID: 17112386 [PubMed - indexed for MEDLINE]Related articlesFree article