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Eric Werner

Publications and source records attributed to Eric Werner.

6 recordsLinked to original sources
PubMed2005

Meeting report: the future and limits of systems biology.

Systems biology has enjoyed explosive growth in both the number of people participating in this area of research and the number of publications on the topic. And yet, the paradigms that underlie the field have not seen a similar expansiveness. Instead, most of these paradigms have been carried over from other fields like engineering, physics, and mathematics. As a result, a small set of concepts dominate the field. The traditional biologist is seen by many as outmoded and tolerated only as a source of data. In this view, the biologist's ideas may even be considered conceptually and theoretically irrelevant. In this Perspective, we take a critical look at some of the paradigms of systems biology and question whether the biologist's ideas, methods, and theories have really become outmoded. We see the future of systems biology as a tight coupling of in vivo and in vitro methods for bioengineering with in silico multicellular modeling and simulation.

Computational Biology↗
PubMed2005

Genome semantics, in silico multicellular systems and the Central Dogma.

Genomes with their complexity and size present what appears to be an impossible challenge. Scientists speak in terms of decades or even centuries before we will understand how genomes and their hosts the cell and the city of cells that make up the multicellular context function. We believe that there will be surprisingly quick progress made in our understanding of genomes. The key is to stop taking the Central Dogma as the only direction in which genome research can scale the semantics of genomes. Instead a top-down approach coupled with a bottom-up approach may snare the unwieldy beast and make sense of genomes. The method we propose is to take in silico biology seriously. By developing in silico models of genomes cells and multicellular systems, we position ourselves to develop a theory of meaning for artificial genomes. Then using that develop a natural semantics of genomes.

Cells↗
PubMed2003

In silico multicellular systems biology and minimal genomes.

The in vivo and in silico understanding of genomes and networks in cellular and multicellular systems is essential for drug discovery for multicellular diseases. In silico methodologies, when integrated with in vivo engineering methods, lay the groundwork for understanding multicellular organisms and their genomes. The quest to construct a minimal cell can be followed by designed, minimal multicellular organisms. In silico multicellular systems biology will be essential in the design and construction of minimal genomes for minimal multicellular organisms. Advanced methodologies come to light that can aid drug discovery. These novel approaches include multicellular pharmacodynamics and networked multicellular pharmacodynamics.

Animals↗
PubMed2003

Meeting report: in silico cell signaling underground.

Cell signaling is becoming a darling of systems biology. Because cell signaling is a relatively well understood, complex, but not overwhelming area of biology, it has become an attractive focal point for computational modeling and simulation efforts by engineers, computer scientists, mathematicians, and systems biologists. The flow of information within and between cells points to a possible conceptual and theoretical kinship with similar phenomena in computer networks, communication theory, information theory, and information flow in engineered systems. Although still in its infancy, the field is experiencing a growth in interest, as evidenced by the poster sessions at the recent International Conference on Systems Biology (ICSB 2002). This report focuses on some of those efforts to mathematically model and simulate cell signaling and signal transduction networks.

Animals↗