Manuel C. Peitsch

Publications

• Reputation-based Collaborative Network Biology
  Pacific Symposium on Biocomputing. Pacific Symposium on Biocomputing. 2015  |   Pubmed ID: 25592588
• Characterization of the Vitrocell® 24/48 in Vitro Aerosol Exposure System Using Mainstream Cigarette Smoke
  Chemistry Central Journal. 2014  |   Pubmed ID: 25411580
• Proteomics for Systems Toxicology
  Computational and Structural Biotechnology Journal. Aug, 2014  |   Pubmed ID: 25379146
• The Response of Human Nasal and Bronchial Organotypic Tissue Cultures to Repeated Whole Cigarette Smoke Exposure
  International Journal of Toxicology. Nov, 2014  |   Pubmed ID: 25297719
• A Crowd-sourcing Approach for the Construction of Species-specific Cell Signaling Networks
  Bioinformatics (Oxford, England). Oct, 2014  |   Pubmed ID: 25294919
• Understanding the Limits of Animal Models As Predictors of Human Biology: Lessons Learned from the Sbv IMPROVER Species Translation Challenge
  Bioinformatics (Oxford, England). Sep, 2014  |   Pubmed ID: 25236459
• CSEO - the Cigarette Smoke Exposure Ontology
  Journal of Biomedical Semantics. 2014  |   Pubmed ID: 25093069
• In Vitro Systems Toxicology Approach to Investigate the Effects of Repeated Cigarette Smoke Exposure on Human Buccal and Gingival Organotypic Epithelial Tissue Cultures
  Toxicology Mechanisms and Methods. Oct, 2014  |   Pubmed ID: 25046638
• Quantification of Biological Network Perturbations for Mechanistic Insight and Diagnostics Using Two-layer Causal Models
  BMC Bioinformatics. 2014  |   Pubmed ID: 25015298
• A Vascular Biology Network Model Focused on Inflammatory Processes to Investigate Atherogenesis and Plaque Instability
  Journal of Translational Medicine. 2014  |   Pubmed ID: 24965703
• Assessment of a Novel Multi-array Normalization Method Based on Spike-in Control Probes Suitable for MicroRNA Datasets with Global Decreases in Expression
  BMC Research Notes. 2014  |   Pubmed ID: 24886675
• The Tobacco Genome Sequence and Its Comparison with Those of Tomato and Potato
  Nature Communications. 2014  |   Pubmed ID: 24807620
• A 28-day Rat Inhalation Study with an Integrated Molecular Toxicology Endpoint Demonstrates Reduced Exposure Effects for a Prototypic Modified Risk Tobacco Product Compared with Conventional Cigarettes
  Food and Chemical Toxicology : an International Journal Published for the British Industrial Biological Research Association. Jun, 2014  |   Pubmed ID: 24632068
• Discovery of Emphysema Relevant Molecular Networks from an A/J Mouse Inhalation Study Using Reverse Engineering and Forward Simulation (REFS™)
  Gene Regulation and Systems Biology. 2014  |   Pubmed ID: 24596455
• Systems Toxicology: from Basic Research to Risk Assessment
  Chemical Research in Toxicology. Mar, 2014  |   Pubmed ID: 24446777
• Systems Biology Approach for Evaluating the Biological Impact of Environmental Toxicants in Vitro
  Chemical Research in Toxicology. Mar, 2014  |   Pubmed ID: 24428674
• Case Study: the Role of Mechanistic Network Models in Systems Toxicology
  Drug Discovery Today. Feb, 2014  |   Pubmed ID: 23933191
• A Decade of Systems Biology: Where Are We and Where Are We Going To?
  Drug Discovery Today. Feb, 2014  |   Pubmed ID: 23769977
• Systems Approaches Evaluating the Perturbation of Xenobiotic Metabolism in Response to Cigarette Smoke Exposure in Nasal and Bronchial Tissues
  BioMed Research International. 2013  |   Pubmed ID: 24224167
• On Crowd-verification of Biological Networks
  Bioinformatics and Biology Insights. 2013  |   Pubmed ID: 24151423
• Cigarette Smoke Induces Molecular Responses in Respiratory Tissues of ApoE(-/-) Mice That Are Progressively Deactivated Upon Cessation
  Toxicology. Dec, 2013  |   Pubmed ID: 24096154
• Quantitative Assessment of Biological Impact Using Transcriptomic Data and Mechanistic Network Models
  Toxicology and Applied Pharmacology. Nov, 2013  |   Pubmed ID: 23933166
• Systematic Verification of Upstream Regulators of a Computable Cellular Proliferation Network Model on Non-diseased Lung Cells Using a Dedicated Dataset
  Bioinformatics and Biology Insights. 2013  |   Pubmed ID: 23926424
• Confero: an Integrated Contrast Data and Gene Set Platform for Computational Analysis and Biological Interpretation of Omics Data
  BMC Genomics. 2013  |   Pubmed ID: 23895370
• A Modular Cell-type Focused Inflammatory Process Network Model for Non-diseased Pulmonary Tissue
  Bioinformatics and Biology Insights. 2013  |   Pubmed ID: 23843693
• Reference Genomes and Transcriptomes of Nicotiana Sylvestris and Nicotiana Tomentosiformis
  Genome Biology. 2013  |   Pubmed ID: 23773524
• Whole Genome Profiling Physical Map and Ancestral Annotation of Tobacco Hicks Broadleaf
  The Plant Journal : for Cell and Molecular Biology. Sep, 2013  |   Pubmed ID: 23672264
• Construction of a Computable Network Model for DNA Damage, Autophagy, Cell Death, and Senescence
  Bioinformatics and Biology Insights. 2013  |   Pubmed ID: 23515068
• Human Bronchial Epithelial Cells Exposed in Vitro to Cigarette Smoke at the Air-liquid Interface Resemble Bronchial Epithelium from Human Smokers
  American Journal of Physiology. Lung Cellular and Molecular Physiology. Apr, 2013  |   Pubmed ID: 23355383
• Design of a Tobacco Exon Array with Application to Investigate the Differential Cadmium Accumulation Property in Two Tobacco Varieties
  BMC Genomics. 2012  |   Pubmed ID: 23190529
• Modulation of Atherogenic Lipidome by Cigarette Smoke in Apolipoprotein E-deficient Mice
  Atherosclerosis. Dec, 2012  |   Pubmed ID: 23102783
• Assessment of Network Perturbation Amplitudes by Applying High-throughput Data to Causal Biological Networks
  BMC Systems Biology. 2012  |   Pubmed ID: 22651900
• Building an R&D Chemical Registration System
  Journal of Cheminformatics. 2012  |   Pubmed ID: 22650418
• Industrial Methodology for Process Verification in Research (IMPROVER): Toward Systems Biology Verification
  Bioinformatics (Oxford, England). May, 2012  |   Pubmed ID: 22423044
• A Network-based Approach to Quantifying the Impact of Biologically Active Substances
  Drug Discovery Today. May, 2012  |   Pubmed ID: 22155224
• A Computable Cellular Stress Network Model for Non-diseased Pulmonary and Cardiovascular Tissue
  BMC Systems Biology. 2011  |   Pubmed ID: 22011616
• Verification of Systems Biology Research in the Age of Collaborative Competition
  Nature Biotechnology. Sep, 2011  |   Pubmed ID: 21904331
• Construction of a Computable Cell Proliferation Network Focused on Non-diseased Lung Cells
  BMC Systems Biology. 2011  |   Pubmed ID: 21722388
• Automated Comparative Protein Structure Modeling with SWISS-MODEL and Swiss-PdbViewer: a Historical Perspective
  Electrophoresis. Jun, 2009  |   Pubmed ID: 19517507
• Text Mining for Biology--the Way Forward: Opinions from Leading Scientists
  Genome Biology. 2008  |   Pubmed ID: 18834498
• Computer-assisted Reading in Drug Discovery
  Expert Opinion on Drug Discovery. Mar, 2007  |   Pubmed ID: 23484641
• From Proteomics to Systems Biology of Bacterial Pathogens: Approaches, Tools, and Applications
  Proteomics. Mar, 2007  |   Pubmed ID: 17370256
• The Application of Systems Biology to Drug Discovery
  Current Opinion in Chemical Biology. Aug, 2006  |   Pubmed ID: 16822703
• Competitive Intelligence and Patent Analysis in Drug Discovery
  Drug Discovery Today. Technologies. 2005  |   Pubmed ID: 24981938
• Human Aspects of the Management of Drug Discovery Knowledge
  Drug Discovery Today. Technologies. 2005  |   Pubmed ID: 24981937
• SWISS-MODEL: An Automated Protein Homology-modeling Server
  Nucleic Acids Research. Jul, 2003  |   Pubmed ID: 12824332
• About the Use of Protein Models
  Bioinformatics (Oxford, England). Jul, 2002  |   Pubmed ID: 12117790