Systems biology approaches and pathway tools for investigating cardiovascular disease.
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Susumu Goto | Minoru Kanehisa | Shuichi Kawashima | Robert Kleemann | Åsa M Wheelock | Craig E Wheelock | Diego Diez | Jesper Z Haeggström | M. Kanehisa | S. Goto | R. Kleemann | S. Kawashima | J. Haeggström | Å. Wheelock | C. Wheelock | Diego Diez | M. V. van Erk | Marjan Van Erk
[1] Qiong Gao,et al. Resources for integrative systems biology: from data through databases to networks and dynamic system models , 2006, Briefings Bioinform..
[2] Alvis Brazma,et al. Current approaches to gene regulatory network modelling , 2007, BMC Bioinformatics.
[3] Jennifer Y. King,et al. Pathway analysis of coronary atherosclerosis. , 2005, Physiological genomics.
[4] K. Furie,et al. Heart disease and stroke statistics--2007 update: a report from the American Heart Association Statistics Committee and Stroke Statistics Subcommittee. , 2008, Circulation.
[5] Jonathan Cohen. The immunopathogenesis of sepsis , 2002, Nature.
[6] Brian J. Bennett,et al. Network-centered view of coronary artery disease , 2007, Expert review of cardiovascular therapy.
[7] S. Shen-Orr,et al. Network motifs: simple building blocks of complex networks. , 2002, Science.
[8] Aldons J. Lusis,et al. Atherosclerosis : Vascular biology , 2000 .
[9] S. Wold,et al. Orthogonal projections to latent structures (O‐PLS) , 2002 .
[10] T. Hankemeier,et al. Metabolomics-based systems biology and personalized medicine: moving towards n = 1 clinical trials? , 2006, Pharmacogenomics.
[11] Yoram Vodovotz,et al. Deciphering the complexity of acute inflammation using mathematical models , 2006, Immunologic research.
[12] Falk Schreiber,et al. Dynamic exploration and editing of KEGG pathway diagrams , 2007, Bioinform..
[13] Jean YH Yang,et al. Bioconductor: open software development for computational biology and bioinformatics , 2004, Genome Biology.
[14] Jihoon Kim,et al. ArrayXPath: mapping and visualizing microarray gene-expression data with integrated biological pathway resources using Scalable Vector Graphics , 2004, Nucleic Acids Res..
[15] Rachel B. Brem,et al. Integrating large-scale functional genomic data to dissect the complexity of yeast regulatory networks , 2008, Nature Genetics.
[16] Roy C. P. Kerckhoffs,et al. Computational modeling for bedside application. , 2008, Heart failure clinics.
[17] Korbinian Strimmer,et al. An empirical Bayes approach to inferring large-scale gene association networks , 2005, Bioinform..
[18] D. Noble. Modeling the Heart--from Genes to Cells to the Whole Organ , 2002, Science.
[19] Leroy Hood,et al. The impact of systems approaches on biological problems in drug discovery , 2004, Nature Biotechnology.
[20] Gary An,et al. Translational Systems Biology of Inflammation , 2008, PLoS Comput. Biol..
[21] Marko Sysi-Aho,et al. Acquired Obesity Is Associated with Changes in the Serum Lipidomic Profile Independent of Genetic Effects – A Monozygotic Twin Study , 2007, PloS one.
[22] A. Barabasi,et al. Network biology: understanding the cell's functional organization , 2004, Nature Reviews Genetics.
[23] J. van der Greef,et al. The art and practice of systems biology in medicine: mapping patterns of relationships. , 2007, Journal of proteome research.
[24] G. Hansson,et al. Introduction: Atherosclerosis as inflammation: a controversial concept becomes accepted , 2008, Journal of internal medicine.
[25] Doheon Lee,et al. Modularized learning of genetic interaction networks from biological annotations and mRNA expression data , 2005, Bioinform..
[26] R. Aebersold,et al. Mass Spectrometry and Protein Analysis , 2006, Science.
[27] Robert Gentleman,et al. Local modeling of global interactome networks , 2005 .
[28] David J. Reiss,et al. The Gaggle: An open-source software system for integrating bioinformatics software and data sources , 2006, BMC Bioinformatics.
[29] Amarnath Gupta,et al. BiologicalNetworks: visualization and analysis tool for systems biology , 2006, Nucleic Acids Res..
[30] Aldons J. Lusis,et al. A thematic review series: systems biology approaches to metabolic and cardiovascular disorders , 2006, Journal of Lipid Research.
[31] Gilles Clermont,et al. IN SILICO MODELS OF ACUTE INFLAMMATION IN ANIMALS , 2006, Shock.
[32] Allan Kuchinsky,et al. An architecture for biological information extraction and representation , 2005, Bioinform..
[33] S. Shen-Orr,et al. Network motifs in the transcriptional regulation network of Escherichia coli , 2002, Nature Genetics.
[34] H. Roche,et al. Divergent mechanisms of cis9, trans11‐ and trans10, cis12‐conjugated linoleic acid affecting insulin resistance and inflammation in apolipoprotein E knockout mice: a proteomics approach , 2005, FASEB journal : official publication of the Federation of American Societies for Experimental Biology.
[35] U. Hedin,et al. The Antiviral Cytomegalovirus Inducible Gene 5/Viperin Is Expressed in Atherosclerosis and Regulated by Proinflammatory Agents , 2005, Arteriosclerosis, thrombosis, and vascular biology.
[36] Eric K. Neumann,et al. Phenotype Characterisation Using Integrated Gene Transcript, Protein and Metabolite Profiling , 2004, Applied bioinformatics.
[37] Robert M Califf,et al. Cardiovascular disease on a global scale: defining the path forward for research and practice. , 2007, European heart journal.
[38] Amarnath Gupta,et al. PathSys: integrating molecular interaction graphs for systems biology , 2006, BMC Bioinformatics.
[39] Joseph Zaia,et al. Mass spectrometry and the emerging field of glycomics. , 2008, Chemistry & biology.
[40] Kwang-Hyun Cho,et al. Cardiac systems biology and parameter sensitivity analysis: intracellular Ca2+ regulatory mechanisms in mouse ventricular myocytes. , 2008, Advances in biochemical engineering/biotechnology.
[41] J. Yates,et al. Mass spectrometry for proteomics. , 2008, Current opinion in chemical biology.
[42] Matej Oresic,et al. Integrative biological analysis of the APOE*3-leiden transgenic mouse. , 2004, Omics : a journal of integrative biology.
[43] P. Libby. Inflammation in atherosclerosis , 2002, Nature.
[44] Hiroaki Kitano,et al. The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models , 2003, Bioinform..
[45] R. Albert,et al. The large-scale organization of metabolic networks , 2000, Nature.
[46] Gary An,et al. Concepts for developing a collaborative in silico model of the acute inflammatory response using agent-based modeling. , 2006, Journal of critical care.
[47] John D. Storey,et al. A network-based analysis of systemic inflammation in humans , 2005, Nature.
[48] R. Frants,et al. Transgenic mice carrying the apolipoprotein E3-Leiden gene exhibit hyperlipoproteinemia. , 1993, The Journal of biological chemistry.
[49] B. Hammock,et al. Mass spectrometry-based metabolomics. , 2007, Mass spectrometry reviews.
[50] John R. Yates,et al. The biological impact of mass-spectrometry-based proteomics , 2007, Nature.
[51] Falk Schreiber,et al. VANTED: A system for advanced data analysis and visualization in the context of biological networks , 2006, BMC Bioinformatics.
[52] Marko Sysi-Aho,et al. A Systems Biology Strategy Reveals Biological Pathways and Plasma Biomarker Candidates for Potentially Toxic Statin-Induced Changes in Muscle , 2006, PloS one.
[53] Anders Gabrielsen,et al. Expression of 5-lipoxygenase and leukotriene A4 hydrolase in human atherosclerotic lesions correlates with symptoms of plaque instability. , 2006, Proceedings of the National Academy of Sciences of the United States of America.
[54] Pei Yee Ho,et al. Multiple High-Throughput Analyses Monitor the Response of E. coli to Perturbations , 2007, Science.
[55] Chris T. A. Evelo,et al. Presenting and exploring biological pathways with PathVisio , 2008, BMC Bioinformatics.
[56] R. Aebersold,et al. Mass spectrometry-based proteomics , 2003, Nature.
[57] P. Khatri,et al. A systems biology approach for pathway level analysis. , 2007, Genome research.
[58] W. Pearson,et al. Current Protocols in Bioinformatics , 2002 .
[59] E. Winzeler,et al. Genomics, gene expression and DNA arrays , 2000, Nature.
[60] Julian L Griffin,et al. Proton NMR analysis of plasma is a weak predictor of coronary artery disease , 2006, Nature Medicine.
[61] H. Kitano. Systems Biology: A Brief Overview , 2002, Science.
[62] Qiong Gao,et al. pSTIING: a ‘systems’ approach towards integrating signalling pathways, interaction and transcriptional regulatory networks in inflammation and cancer , 2005, Nucleic Acids Res..
[63] Olli Simell,et al. Gender-dependent progression of systemic metabolic states in early childhood , 2008, Molecular systems biology.
[64] C. Schilling,et al. Flux coupling analysis of genome-scale metabolic network reconstructions. , 2004, Genome research.
[65] Giovanni Paternostro,et al. Cardiac Systems Biology , 2005, Annals of the New York Academy of Sciences.
[66] A. Barabasi,et al. The human disease network , 2007, Proceedings of the National Academy of Sciences.
[67] Leroy Hood,et al. Systems biology, proteomics, and the future of health care: toward predictive, preventative, and personalized medicine. , 2004, Journal of proteome research.
[68] U. Alon. Network motifs: theory and experimental approaches , 2007, Nature Reviews Genetics.
[69] R J Roman,et al. A Genomic-Systems Biology Map for Cardiovascular Function , 2001, Science.
[70] Sean Ekins,et al. Pathway mapping tools for analysis of high content data. , 2007, Methods in molecular biology.
[71] Shah Ebrahim,et al. European guidelines on cardiovascular disease prevention in clinical practice: executive summary: Fourth Joint Task Force of the European Society of Cardiology and Other Societies on Cardiovascular Disease Prevention in Clinical Practice (Constituted by representatives of nine societies and by invit , 2007, European heart journal.
[72] Daniel Figeys,et al. Proteomics technology in systems biology. , 2006, Molecular bioSystems.
[73] Rainer Spang,et al. Inferring cellular networks – a review , 2007, BMC Bioinformatics.
[74] M. Tewari,et al. The Limits of Reductionism in Medicine: Could Systems Biology Offer an Alternative? , 2006, PLoS medicine.
[75] M. Tewari,et al. The Clinical Applications of a Systems Approach , 2006, PLoS medicine.
[76] Arachidonate 5-lipoxygenase promoter genotype, dietary arachidonic acid, and atherosclerosis. , 2004 .
[77] Yoshihiro Yamanishi,et al. KEGG for linking genomes to life and the environment , 2007, Nucleic Acids Res..
[78] Vincent J Carey,et al. Bioconductor: an open source framework for bioinformatics and computational biology. , 2006, Methods in enzymology.
[79] P. Shannon,et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. , 2003, Genome research.
[80] Age K Smilde,et al. Atherosclerosis and liver inflammation induced by increased dietary cholesterol intake: a combined transcriptomics and metabolomics analysis , 2007, Genome Biology.
[81] Lennart Martens,et al. The minimum information about a proteomics experiment (MIAPE) , 2007, Nature Biotechnology.
[82] J. Tegnér,et al. Transcriptional Profiling Uncovers a Network of Cholesterol-Responsive Atherosclerosis Target Genes , 2008, PLoS genetics.
[83] Michael Q. Zhang,et al. Network-based global inference of human disease genes , 2008, Molecular systems biology.
[84] J. Nicholson,et al. Rapid and noninvasive diagnosis of the presence and severity of coronary heart disease using 1H-NMR-based metabonomics , 2002, Nature Medicine.
[85] B. Palsson,et al. The model organism as a system: integrating 'omics' data sets , 2006, Nature Reviews Molecular Cell Biology.
[86] Albert-László Barabási,et al. Transcription factor modularity in a gene-centered C. elegans core neuronal protein-DNA interaction network. , 2007, Genome research.
[87] Per Eriksson,et al. Gene Expression in Atherosclerotic Lesion of ApoE Deficient Mice , 2001, Molecular medicine.
[88] L. Norgren,et al. Lipopolysaccharide-Induced Cytokine and Chemokine Expression in Human Carotid Lesions , 2005, Journal of Vascular Research.
[89] A. Barabasi,et al. Hierarchical Organization of Modularity in Metabolic Networks , 2002, Science.
[90] U. Sauer,et al. Getting Closer to the Whole Picture , 2007, Science.
[91] Lieping Chen,et al. CD137 Is Expressed in Human Atherosclerosis and Promotes Development of Plaque Inflammation in Hypercholesterolemic Mice , 2008, Circulation.
[92] H. Juan,et al. Lipopolysaccharide‐stimulated responses in rat aortic endothelial cells by a systems biology approach , 2006, Proteomics.
[93] Pradeep Kumar Shreenivasaiah,et al. An overview of cardiac systems biology. , 2008, Journal of molecular and cellular cardiology.
[94] E. Raineri,et al. Evolvability and hierarchy in rewired bacterial gene networks , 2008, Nature.
[95] Eric W. Deutsch,et al. SBEAMS-Microarray: database software supporting genomic expression analyses for systems biology , 2006, BMC Bioinformatics.
[96] Nigel W. Hardy,et al. The Metabolomics Standards Initiative , 2007, Nature Biotechnology.
[97] G. Hansson. Inflammation, atherosclerosis, and coronary artery disease. , 2005, The New England journal of medicine.
[98] Robert Gentleman,et al. Network structures and algorithms in Bioconductor , 2005, Bioinform..
[99] Costas D Maranas,et al. Elucidation and structural analysis of conserved pools for genome-scale metabolic reconstructions. , 2005, Biophysical journal.