New concepts may prove necessary to profit from the avalanche of sequence data on the genome, transcriptome, proteome and interactome and to relate this information to cell physiology. Here, we focus on the concept of large activity-based structures, or hyperstructures, in which a variety of types of molecules are brought together to perform a function. We review the evidence for the existence of hyperstructures responsible for the initiation of DNA replication, the sequestration of newly replicated origins of replication, cell division (...) and for metabolism. The processes responsible for hyperstructure formation include changes in enzyme affinities due to metabolite-induction, lipid-protein affinities, elevated local concentrations of proteins and their binding sites on DNA and RNA, and transertion. Experimental techniques exist that can be used to study hyperstructures and we review some of the ones less familiar to biologists. Finally, we speculate on how a variety of in silico approaches involving cellular automata and multi-agent systems could be combined to develop new concepts in the form of an Integrated cell (I-cell) which would undergo selection for growth and survival in a world of artificial microbiology. (shrink)
In a recent paper, Dylan Evans proposed that emotions could help solve what has been known as ?the frame problem?. In the process, he first questioned the utility of using the frame problem as a framework. After tackling this issue, he provided an alternative terminology to the frame problem?termed ?the search hypothesis of emotion??in order to re-examine how emotions aid rational agents. His new terminology, however, opens itself to other critiques. While accepting the basic tenets of his analysis, I question (...) (i) whether a single search theory of emotion is adequate, and (ii) whether his theory would have been better termed ?the search hypothesis of feeling?. Finally, I extend some of the ideas developed in Evans' paper. Introduction Emotion, reason and ends The search hypothesis of emotion revisited Conclusion. (shrink)
A decade after the fall of Communism in Europe, the Czech Republic'smembership in the European Union is still a matter of a relatively shortwaiting period of 4 years. Not so the imagination of this membership andthe creation of a political concept created to promote this goal: thespecific Central European policy initiated by Thomas G. Masaryk andrevitalized by Václav Havel. Despite the deep differences in thepolitical thought and philosophical orientations of both Presidents, notto mention the historic rupture of 41 years of (...) Totalitarianism, theirperceptions of Europe as an Imagined Community are identical. (shrink)
