Families of languages defined by ciliate bio-operations

Authors:
Mark Daley;Lila Kari;Ian McQuillan
Affiliations:
Department of Computer Science, University of Saskatchewan, Saskatoon, Sask., Canada S7N 5A9;Department of Computer Science, University of Western Ontario, London, Ont., Canada N6A 5B7;Department of Computer Science, University of Western Ontario, London, Ont., Canada N6A 5B7
Venue:
Theoretical Computer Science
Year:
2004

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Abstract

We investigate families of languages defined by closure under operations generalized from models of gene descrambling in stichotrichous ciliates. We specifically consider languages that are closed under the synchronized insertion and deletion operations as well as languages closed under the hairpin inversion (hi) operation. Biologically, this studies sets of genes that cannot be further descrambled. In addition, we show that every trio closed under hairpin inversion is also closed under the double loop with alternating direct pointers (dlad)-excision/reinsertion bio-operation.