Towards better outliers detection for gene expression datasets

Proceedings - International Conference on Biocomputation, Bioinformatics, and Biomedical Technologies, BIOTECHNO 2008

Volumn , Issue , 2008, Pages 149-154

  Kashef, R ^a   Kamel, M S ^a  

^a UNIVERSITY OF WATERLOO   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

BIOCOMPUTATION; BIOMEDICAL TECHNOLOGIES; CLUSTERING QUALITY; CLUSTERING SOLUTIONS; DATA-SETS; EXTERNAL-; GENE EXPRESSION DATASETS; INTERNAL QUALITY; INTERNATIONAL CONFERENCES; K-MEANS; K-MEANS ALGORITHMS; OUTLIERS DETECTION; PARTITIONING AROUND MEDOIDS;

ALGORITHMS; ARCHITECTURAL ACOUSTICS; ASSOCIATIVE STORAGE; BIOACTIVITY; BIOCOMMUNICATIONS; BIOINFORMATICS; FLOW OF SOLIDS; GENE EXPRESSION; INFORMATION SCIENCE; PNEUMATIC DRIVES; PULSE AMPLITUDE MODULATION; TECHNOLOGY;

CLUSTERING ALGORITHMS;

EID: 52249088263     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: 10.1109/BIOTECHNO.2008.29     Document Type: Conference Paper

References (24)

1. J. Hartigan, Clustering Algorithms, Wiley Series in Probability and Mathematical Statistics, 1975.
2. A. Jain, M. Murty and P. Fiynn." Data Clustering: A Review". ACM computing surveys, Vol.31,pp:264-323, 1999.
3. A. Ben-Dor, R. Shamir, and Z. Yakhini, "Clustering gene expression patterns", Journal of Computational Biology, 6(3/4):281-297, 1999.
4. R. Shamir, and R. Sharan, "Algorithmic Approaches to Clustering Oene Expression Data", in Current Topics in Computational Biology, MIT Press, pp: 269-299, 2002.
5. E. Hartuv, and R. Shamir, "A clustering algorithm based on graph connectivity". Information Processing Letters, 76(200) pp:175-181, 2000.
6. J. Hartigan and M. Wong. "A k-means Clustering Algorithm", Applied Statistics, Vol. 28, pp: 100-108, 1979.
7. S. Savaresi and D. Boley. "On the Performance of Bisecting K-means and PDDP". In Proc. of the 1st SIAM Int. Conf. on Data Mining, pp: 1-14, 2001.
8. L. Kaufmann and P. Rousseeuw, Finding groups in data, Wiley, 1990.
9. R. Kashef, M. S. Kamel, "Cooperative Partitional-Divisive Clustering and Its Application in Gene Expression Analysis", Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering BIBE 2007.,pp: 116-122, 2007.
10. N. A. Yousri, MA. Ismail and M.S. Kamel, "Discovering Connected Patterns in Oene Expression Arrays", IEEE Symposium on Computational intelligence and Bioinformatics and Computational Biology (CIBCB), pp: 113-120, 2007.
11. Y. Lu, S. Lu, F. Fotouhi, Y. Deng, and S. Brown, "Incremental Genetic K-means Algorithm and its Application in Oene Expression Data Analysis", BMC Bioinformatics, 5(172), 2004.
12. Z. He, X. Xu and S. Deng, "Discovering cluster-based local outliers", Pattern Recognition Letters Volume 24, Issues 9-10, , pp: 1641-1650, 2003.
13. Z. He, X. Xu, and S. Deng,."Squeezer: An efficient algorithm for clustering categorical data". J. Comput. Sci. Technol. 17 5, pp: 611-624. 2002.
14. M. Knorr, and R.Ng.,"Algorithms for Mining Distance-Based Outliers in Large Datasets", Very Large Data Bases Conference Proceedings, pp: 24-27, 1998.
15. M. Breunig, H. Kriegel, R. Ng, J. Sander, "LOF: Identifying Densitybased Local Outliers", Proc. ACM SIOMOD 2000. Int. Conf. On Management of Data, 2000.
16. K. Yamanishi, J. Takeuchi, O. Williams and P. Milne, "OnLine Unsupervised Outlier Detection Using Finite Mixtures with Discounting Learning Algorithms". In Proceedings of the International Conference on Knowledge Discovery and Data Mining, Volume 8, Issue 3, pp: 275 - 300, 2004.
17. U. Maulik, S. Bandyopadhyay, "Performance Evaluation of Some Clustering Algorithms and Validity Indices", IEEE Transactions on Pattern Analysis and Machine Intelligence, Vol.24, No.12, pp: 1650-1654, 2002.
18. S. Monti, P. Tamayo, J. Mesirov, and T. Oolub, "Consensus Clustering: A resampling-based method for class discovery and visualization of gene expression microarray data", Kluwer Academic Publishers,2003.
19. S. Tavazoie, J. Hughes, M. Campbell, R. Cho and O. Church. "Systematic determination of genetic network architecture. Nature Genetics" 22: pp: 281-285, 1999.
20. www.sciencemag.org/feature/data/984559.sh..
21. M. West, C. Blanchette, H. Dressman, E. Huang, S. Ishida, R. Spang, H. Zuzan, J. Olson, J.Marks, and J. Nevins."Predicting the clinical status of human breast cancer by using gene expression profiles" Proc Natl Acad Sci USA 98 pp: 11462 - 11467, 2001.
22. T. Golub, D. Slonim, P. Tamayo, C. Huard, M. Gaasenbeek, J. Mesirov, H. Coller, M. Loh, J. Downing, M.A. Caligiuri, C. Bloomfield, and E. Lander, "Molecular Classification of Cancer: Class Discovery and Class Prediction by Gene Expression Monitoring", in Science Vol. 286. no. 5439, pp: 531-537, 1999.
23. P. Tamayo, D. Slonim, J. Mesirov, Q. Zhu, S. Kitareewan, E. Dmitrovsky, E. S. Lander, and T. Golub. "Interpreting patterns of gene expression with self-organizing maps: Methods and application to hematopoietic differentiation". PNAS, 96:pp:2907-2912, 1999.
24. M. Eisen, P. Spellman, P. Brown, and D. Botstein, "Cluster Analysis and Display of Genome-wide Expression Patterns", Proceedings of the National Academy of Sciences of the United States of America, Volume 95, Issue 25, pp: 14863-14868, 1998.