Hugh B. Nicholas

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We have developed a two-level case-based reasoning architecture for predicting protein secondary structure. The central idea is to break the problem into two levels: first, reasoning at the object (protein) level, and using the global information from this level to focus on a more restricted problem space; second, decomposing objects into pieces (segments),(More)
The MaxSegs algorithm has been distributed between a Cmy Y-AfP and a Thinking Machines CM-2 system at the Pittsbu~h %percomputing Center (PSC) to allow mpid and rigorous comparison of gene and prv-tein sequences with larye libnzries of other sequences. Thi~ achieves a. speedu,p factor of 5 to 10 in elapsed time. Users intervene at critical points in the(More)
In this unit a protocol is described for predicting the structure of simple transmembrane a-helical bundles. The protocol is based on a global molecular dynamics search (GMDS) of the configuration space of the helical bundle, yielding several candidate structures. The correct structure among these candidates is selected using information from silent amino(More)
BACKGROUND Phylogenetic study of protein sequences provides unique and valuable insights into the molecular and genetic basis of important medical and epidemiological problems as well as insights about the origins and development of physiological features in present day organisms. Consensus phylogenies based on the bootstrap and other resampling methods(More)
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