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GOLAN YONA |
Global Organization of All Known Proteins: Exploring the Sequence-Structure Mapping of Proteins |
Keywords: sequence-structure mapping, clustering, protein families, protein classification, sequence and structure based metrics, geometry of proteins space |
This research aims to find a globally consistent organization
of all proteins, based on the existing measures of distance for protein
sequences, and by combining structural information. This research focus
on exploring the mapping from sequence space to structure space, exploring
structure based metrics, and exploring high organization order in the space
of all proteins. It makes essential use of recent developments in the theory
of metric embedding and unsupervised learning, and of graph theoretic and
algorithmic tools. The research also makes use of results obtained for
sequence space. These results suggest the compression of sequence space
into a smaller set of representative sequences, with a possible correspondence
with the set of all known structures. |
High organization order might be a necessity in the view
of the constant flow of new biological information, we have been witnessing
in recent years. This organization may give a global view (ìmapî) of the
universe of all proteins. Such a global view would serve as a key tool
for the analysis of proteins, reveal relationships among protein families
and add some insights about the nature of new sequences. Moreover, by combining
sequence as well as structure considerations, a new map of the proteins
universe may take us one step closer to understanding the evolutionary
aspect of protein creation mechanism. |
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