Manuel C. Peitsch

About the use of protein models.

SWISS-MODEL: An automated protein homology-modeling server.

The application of systems biology to drug discovery.

From proteomics to systems biology of bacterial pathogens: approaches, tools, and applications.

Text mining for biology--the way forward: opinions from leading scientists.

Automated comparative protein structure modeling with SWISS-MODEL and Swiss-PdbViewer: a historical perspective.

Construction of a computable cell proliferation network focused on non-diseased lung cells.

Verification of systems biology research in the age of collaborative competition.

A computable cellular stress network model for non-diseased pulmonary and cardiovascular tissue.

A network-based approach to quantifying the impact of biologically active substances.

Industrial methodology for process verification in research (IMPROVER): toward systems biology verification.

Building an R&D chemical registration system.

Assessment of network perturbation amplitudes by applying high-throughput data to causal biological networks.

Modulation of atherogenic lipidome by cigarette smoke in apolipoprotein E-deficient mice.

Design of a tobacco exon array with application to investigate the differential cadmium accumulation property in two tobacco varieties.

Human bronchial epithelial cells exposed in vitro to cigarette smoke at the air-liquid interface resemble bronchial epithelium from human smokers.

Computer-assisted reading in drug discovery.

Construction of a computable network model for DNA damage, autophagy, cell death, and senescence.

Whole genome profiling physical map and ancestral annotation of tobacco Hicks Broadleaf.

A decade of Systems Biology: where are we and where are we going to?

Reference genomes and transcriptomes of Nicotiana sylvestris and Nicotiana tomentosiformis.

A modular cell-type focused inflammatory process network model for non-diseased pulmonary tissue.

Confero: an integrated contrast data and gene set platform for computational analysis and biological interpretation of omics data.

Systematic verification of upstream regulators of a computable cellular proliferation network model on non-diseased lung cells using a dedicated dataset.

Quantitative assessment of biological impact using transcriptomic data and mechanistic network models.

Case study: the role of mechanistic network models in systems toxicology.

Cigarette smoke induces molecular responses in respiratory tissues of ApoE(-/-) mice that are progressively deactivated upon cessation.

On Crowd-verification of Biological Networks.

Systems approaches evaluating the perturbation of xenobiotic metabolism in response to cigarette smoke exposure in nasal and bronchial tissues.

Systems biology approach for evaluating the biological impact of environmental toxicants in vitro.

Systems toxicology: from basic research to risk assessment.

Discovery of Emphysema Relevant Molecular Networks from an A/J Mouse Inhalation Study Using Reverse Engineering and Forward Simulation (REFS™).

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.

The tobacco genome sequence and its comparison with those of tomato and potato.

Assessment of a novel multi-array normalization method based on spike-in control probes suitable for microRNA datasets with global decreases in expression.

A vascular biology network model focused on inflammatory processes to investigate atherogenesis and plaque instability.

Human aspects of the management of drug discovery knowledge.

Competitive intelligence and patent analysis in drug discovery.

Quantification of biological network perturbations for mechanistic insight and diagnostics using two-layer causal models.

In vitro systems toxicology approach to investigate the effects of repeated cigarette smoke exposure on human buccal and gingival organotypic epithelial tissue cultures.

CSEO - the Cigarette Smoke Exposure Ontology.

Understanding the limits of animal models as predictors of human biology: lessons learned from the sbv IMPROVER Species Translation Challenge.

A crowd-sourcing approach for the construction of species-specific cell signaling networks.

The response of human nasal and bronchial organotypic tissue cultures to repeated whole cigarette smoke exposure.

Proteomics for systems toxicology.

Characterization of the Vitrocell® 24/48 in vitro aerosol exposure system using mainstream cigarette smoke.

Reputation-based collaborative network biology.