Deep Approximation of Set Cover Greedy Algorithm for Test Set
Affiliation:

  • Article
  • | |
  • Metrics
  • |
  • Reference [11]
  • |
  • Related [20]
  • |
  • Cited by [1]
  • | |
  • Comments
    Abstract:

    Test set problem is a NP-hard problem with wide applications. Set cover greedy algorithm is one of the commonly used algorithms for the test set problem. It is an open problem if the approximation ratio 2ln n+1 directly derived from the set cover problem can be improved. The generalization of set cover greedy algorithm is used to solve the redundant test set problem arising in bioinformatics. This paper analyzes the distribution of the times for which the item pairs are differentiated, and proves that the approximation ratio of the set cover greedy algorithm for test set can be 1.5lnn+0.5lnlnn+2 by derandomization method, thus shrinks the gap in the analysis of the approximation ratio of this algorithm. In addition, this paper shows the tight lower bound (2 o(1))lnn (1) of the approximation ratio of set cover greedy algorithm for the weighted redundant test set with redundancy n 1.

    Reference
    [1]Garey MR,Johnson DS.Computers and Intractability:A Guide to the Theory of NP-Completeness.San Francisco:W.H.Freeman,1979.71-72.
    [2]Moret BME,Shipiro HD.On minimizing a set of tests.SIAM Journal on Scientific and Statistical Computing 1985,6(4):983-1003.
    [3]Berman P,DasGupta B,Kao M.Tight approximability results for test set problems in bioinformatics.Journal of Computer and System Sciences,2005,71 (2):145-162.
    [4]De Bontridder KMJ,Halldorsson BV,Halldorsson MM,Hurkens CA J,Lenstra JK,Ravi R,Stougie L.Approximation algorithm for the test cover problems.Mathematical Programming-B,2003,98(1-3):477-491.
    [5]DasGupta B,Konwar K,Mandoiu I,Shvartsman A.Highly scalable algorithms for robust string barcoding.Int'l Journal of Bioinformatics Research and Applications,2005,1 (2):145-161.
    [6]Halldorsson BV.Algorithms for biological sequence problems[Ph.D.Thesis].Pittsburgh:Carnegie Mellon University,2001.
    [7]Young NE.Greedy algorithms by derandomizing unknown distributioms.Technical Report,T.R.1087,Ithaca:Cornell University,1994.
    [8]Borneman J,Chrobak M,Vedova GD,Figueora A,Jiang T.Probe selection algorithms with applications in the analysis of microbial communities.Bioinformatics,2001,17(Suppl.):S39-S48.
    [9]Berman P,DasGupta B,Sontag E.Randomized approximation algorithms for set mulficover problems with applications to reverse engineering of protein and gene networks.In:Proc.of the 7th Int'l Workshop on Approximation Algorithms for Combinatorial Optimization Problems (APPROX 2004).LNCS 3122,Berlin:Springer Verlag,2004.39-50.
    [10]Johnson DS.Approximation algorithms for combinatorial problems.Journal of Computer and System Sciences,1974,9256-278.
    [11]Rajagopalan S,Vazirani VV.Primal-Dual RNC approxmation algorithms for set cover and covering integer programs.SIAM Journal on Computing,1999,28(2):525-540.
    Comments
    Comments
    分享到微博
    Submit
Get Citation

崔鹏,刘红静.测试集问题的集合覆盖贪心算法的深入近似.软件学报,2006,17(7):1494-1500

Copy
Share
Article Metrics
  • Abstract:4919
  • PDF: 6119
  • HTML: 0
  • Cited by: 0
History
  • Received:October 24,2005
  • Revised:January 09,2006
You are the first2035300Visitors
Copyright: Institute of Software, Chinese Academy of Sciences Beijing ICP No. 05046678-4
Address:4# South Fourth Street, Zhong Guan Cun, Beijing 100190,Postal Code:100190
Phone:010-62562563 Fax:010-62562533 Email:jos@iscas.ac.cn
Technical Support:Beijing Qinyun Technology Development Co., Ltd.

Beijing Public Network Security No. 11040202500063