Optimal group testing algorithms with interval queries and their application to splice site detection.
Given an ordered set of n items and an unknown subset P of up to p positive elements, we want to identify P by asking the least number of queries 'does Q intersect P?' where Q must consist of consecutive elements. This Interval Group Testing problem arises in the context of splice site detection in genes. We study algorithms that operate in a few stages where queries chosen depending on previous answers, are performed in parallel. We obtain tight bounds for two-stage strategies. Finally, we get results for any number of stages and positives.
Cicalese
Ferdinando
F
Damaschke
Peter
P
Vaccaro
Ugo
U
D000465:Algorithms