Mikelis G. Bickis

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BACKGROUND We study the usage of specific peptide platforms in protein composition. Using the pentapeptide as a unit of length, we find that in the universal proteome many pentapeptides are heavily repeated (even thousands of times), whereas some are quite rare, and a small number do not appear at all. To understand the physico-chemical-biological basis(More)
Hidden Markov models (HMMs) are one of various methods that have been applied to prediction of major histo-compatibility complex (MHC) binding peptide. In terms of model topology, a fully-connected HMM (fcHMM) has the greatest potential to predict binders, at the cost of intensive computation. While a profile HMM (pHMM) performs dramatically fewer(More)
Cayley's hyperdeterminant is a homogeneous polynomial of degree 4 in the 8 entries of a 2×2×2 array. It is the simplest (nonconstant) polynomial which is invariant under changes of basis in three directions. We use elementary facts about representations of the 3-dimensional simple Lie algebra sl 2 (C) to reduce the problem of finding the invariant(More)
Alignment of protein sequences is fundamental in analyzing homology, evolutionary events and functional relationships. Searching for the epitopic peptide platform underlying hepatitis C virus (HCV) infection and autoimmune phenomena, we have used sequence-sequence peptide matching to compare the HCV polyprotein sequence to the human proteome. The following(More)
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