Overlaps Help: Improved Bounds for Group Testing with Interval Queries
Cicalese, Ferdinando
Damaschke, Peter
Tansini, Libertad
Werth, Soeren
Given a finite ordered set of items and an unknown distinguished subset P of up to p positive elements, identify the items in P by asking the least number of queries of the type "does the subset Q intersect P?", where Q is a subset of consecutive elements of {1, 2,..., n}. This problem arises e.g. in computational biology, in a particular method for determining splice sites. We consider time-efficient algorithms where queries are arranged in a fixed number s of stages: in each stage, queries are performed in parallel. In a recent paper we devised query-optimal strategies in the special cases p = 1 or s = 2, subject to lower-order terms. Exploiting new ideas we are now able to provide a much neater argument that allows doubling the general lower bound for any p ! 2 and s >= 3. Moreover, we provide new strategies that match this new bound up to the constant of the main term. The new query scheme shows an effective use of overlapping queries within a stage. Remarkably, this contrasts with the known results for s <= 2 where optimal strategies were implemented by disjoint queries.
2005
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doc-type:conferenceObject
text
https://pub.uni-bielefeld.de/record/2308867
Cicalese F, Damaschke P, Tansini L, Werth S. Overlaps Help: Improved Bounds for Group Testing with Interval Queries. In: <em>Proc. 11th Annual International Conference on Computing and Combinatorics (COCOON 2005)</em>. Lecture Notes in Computer Science, 3595. 2005: 935-944.
eng
info:eu-repo/semantics/altIdentifier/doi/10.1007/11533719_94
info:eu-repo/semantics/altIdentifier/issn/0302-9743
info:eu-repo/semantics/closedAccess