Pattern discovery (an NP-hard problem), in contrast to pattern matching (a
problem solvable in polynomial time), is a challenging problem. Using
Teiresias, a newly developed algorithm, we are exploring a number of test cases
in order to identify patterns of amino acids that appear across sequences
(common motifs) as well as within individual sequences (internal repeats). The
examples aim at: (a) the validation of the approach through the discovery of
previously reported patterns; (b) the demonstration of the capability to
automatically identify highly selective patterns particular to the sequences
under consideration; and, (c) the discovery of previously unidentified
patterns in these well-studied example cases.
By: Isidore Rigoutsos, Aris Floratos, Christos Ouzounis (EMBL Cambridge)
Published in: RC20803 in 1997
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