Competitive group testing and learning hidden vertex covers with minimum adaptivity
Journal article, 2010

Suppose that we are given a set of n elements d of which have a property called defective. A group test can check for any subset, called a pool, whether it contains a defective. It is known that a nearly optimal number of O(d log (n/d)) pools in 2 stages (where tests within a stage are done in parallel) are sufficient, but then the searcher must know d in advance. Here we explore group testing strategies that use a nearly optimal number of pools and a few stages although d is not known beforehand. We prove a lower bound of O(log d log log d) stages and a more general pools vs. stages tradeoff. This is almost tight, since O(log d) stages are sufficient for a strategy with O(d log n) pools. As opposed to this negative result, we devise a randomized strategy using O(d log (n/d)) pools in 3 stages, with any desired success probability 1-epsilon. With some additional measures even 2 stages are enough. Open questions concern the optimal constant factors and practical implications. A related problem motivated by, e.g., biological network analysis is to learn hidden vertex covers of a small size k in unknown graphs by edge group tests. Does a given subset of vertices contain an edge?) We give a 1-stage strategy using O(k^3 log n) pools, with any parameterized algorithm for vertex cover enumeration as a decoder. During the course of this work we also provide a classification of types of randomized search strategies in general.

randomization

competitive group testing

combinatorial search

nonadaptive group testing

Author

Peter Damaschke

Chalmers, Computer Science and Engineering (Chalmers), Computing Science (Chalmers)

Muhammad Azam Sheikh

Chalmers, Computer Science and Engineering (Chalmers), Computing Science (Chalmers)

Discrete Mathematics, Algorithms and Applications

1793-8309 (ISSN)

Vol. 2 3 291-311

Subject Categories

Computer Science

More information

Created

10/6/2017