Query expansion using an immune-inspired biclustering algorithm

Natural Computing

Volumn 9, Issue 3, 2010, Pages 579-602

  De Castro, Pablo A D ^a   De França, Fabrício O ^a   Ferreira, Hamilton M ^a   Coelho, Guilherme Palermo ^a   Von Zuben, Fernando J ^a  

^a UNIVERSITY OF CAMPINAS   (Brazil)

Author keywords

Artificial immune systems; Biclustering; Information retrieval; Query expansion

Indexed keywords

ALGORITHM; AUTOMATION; CONTROLLED STUDY; DATA BASE; DATA EXTRACTION; DATA MINING; DOCUMENTATION; IMMUNE SYSTEM; INFORMATION RETRIEVAL; INFORMATION STORAGE; METHODOLOGY; REVIEW;

EID: 77955920250     PISSN: 15677818     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11047-009-9127-y     Document Type: Review

References (32)

1. GL Ada GJV Nossal 1987 The clonal selection theory Sci Am 257 50 57 10.1038/scientificamerican0887-62
2. Agrawal R, Gehrke J, Gunopulus D, Raghavan P (1998) Automatic subspace clustering of high dimensional data for data mining applications. In: Proceedings of the ACM/SIGMOD international conference on management of data, pp 94-105
3. AA Alizadeh MB Eisen RE Davis C Ma IS Lossos A Rosenwald JC Boldrick H Sabet T Tran X Yu JI Powell L Yang GE Marti T Moore J Hudson Jr L Lu DB Lewis R Tibshirani G Sherlock WC Chan TC Greiner DD Weisenburger JO Armitage R Warnke R Levy W Wilson MR Grever JC Byrd D Botstein PO Brown LM Staudt 2000 Distinct types of diffuse large B-cell lymphoma identified by gene expression profiling Nature 403 503 510 10.1038/35000501 10.1038/35000501
4. Castro PAD, de França FO, Ferreira HM, Von Zuben FJ (2007a) Applying Biclustering to Perform Collaborative Filtering. In: Proc. of the 7th International Conference on Intelligent Systems Design and Applications (ISDA), p 421-426, Brazil
5. Castro PAD, de França FO, Ferreira HM, Von Zuben FJ (2007b) Evaluating the Performance of a Biclustering Algorithm Applied to Collaborative Filtering-A Comparative Analysis. In: Proc. of the 7th International Conference on Hybrid Intelligent Systems (HIS), p 65-70, Germany
6. Castro PAD, de França FO, Ferreira HM, Von Zuben FJ (2007c) Applying biclustering to text mining: an immune-inspired approach. In: Proceedings of the 6th international conference on artificial immune systems (ICARIS), Brazil, pp 83-94
7. Cheng Y, Church GM (2000) Biclustering of expression data. In: Proceedings of the 8th international conference on intelligent systems for molecular biology, pp 93-103
8. R Cho M Campbell E Winzeler L Steinmetz A Conway L Wodicka T Wolfsberg A Gabrielian D Landsman D Lockhart R Davis 1998 A genome-wide transcriptional analysis of the mitotic cell cycle Mol Cell 2 65 73 10.1016/S1097-2765(00)80114- 8 10.1016/S1097-2765(00)80114-8
9. Coelho GP, de França FO, Von Zuben FJ (2008) A multi-objective multipopulation approach for biclustering. In: Proceedings of 7th international conference on artificial immune systems (ICARIS), vol 5132, pp 71-82
10. Croft WB, Cook R, Wilder D (1995) Providing government information on the Internet: experiences with THOMAS. In: Proceedings of the 2nd international conference on the theory and practice of digital libraries, pp 19-24
11. de Castro LN, Timmis J (2002) Artificial immune systems: a new computational intelligence approach. Springer Verlag, London
12. de Castro LN, Von Zuben FJ (2001) aiNet: an artificial immune network for data analysis. In: Data mining: a heuristic approach, pp 231-259
13. LN de Castro FJ Von Zuben 2002 Learning and optimization using the clonal selection principle IEEE Trans Evol Comput 6 3 239 251 10.1109/TEVC.2002. 1011539 10.1109/TEVC.2002.1011539
14. K Deb A Pratap S Agarwal T Meyarivan 2002 A fast and elitist multiobjective genetic algorithm: NSGA-II IEEE Trans Evol Comput 6 2 182 197 10.1109/4235.996017 10.1109/4235.996017
15. Dhillon IS (2001) Co-clustering documents and words using bipartite spectral graph partitioning. In: Proceedings of the 7th international conference on knowledge discovery and data mining, pp 269-274
16. Divina F, Aguilar-Ruiz JS (2007). A multi-objective approach to discover biclusters in microarray data. In: Proceedings of the genetic and evolutionary computation conference (GECCO'07), London, UK,pp 385-392
17. Feldman R, Sanger J (2006) The Text Mining Handbook. Cambridge University Press
18. Giráldez R, Divina F, Pontes B, Aguilar-Ruiz JS (2007). Evolutionary search of biclusters by minimal intrafluctuation. In Proceedings of the IEEE international fuzzy systems conference (FUZZ-IEEE 2007), London, UK, pp 1-6
19. JA Hartigan 1972 Direct clustering of a data matrix J Am Stat Assoc 67 337 123 129 10.2307/2284710 10.2307/2284710 JASA
20. NK Jerne 1974 Towards a network theory of the immune system Ann Immunol (Inst Pasteur) 125C 373 389
21. KS Jones 1972 A statistical interpretation of term specificity and its application in retrieval J Doc 28 1 11 21 10.1108/eb026526 10.1108/eb026526
22. Lang K (1995) Newsweeder: learning to filter netnews. In: Proceedings of the twelfth international conference on machine learning, pp 331-339
23. SC Madeira AL Oliveira 2004 Biclustering algorithms for biological data analysis: a survey IEEE/ACM Trans Comput Biol Bioinform 1 24 25 10.1109/TCBB.2004.2 10.1109/TCBB.2004.2
24. Manning CD, Raghavan P, Schütze H (2008) Introduction to information retrieval. Cambridge University Press, Cambridge
25. Maulik U, Mukhopadhyay A, Bandyopadhyay S, Zhang MQ, Zhang X (2008). Multiobjective fuzzy biclustering in microarray data: method and a new performance measure. In: Proceedings of the 2008 IEEE congress on evolutionary computation (CEC 2008), Hong Kong, China, pp 1536-1543
26. S Mitra H Banka 2006 Multi-objective evolutionary biclustering of gene expression data Pattern Recognit 39 2464 2477 10.1016/j.patcog.2006.03.003 1103.68775 10.1016/j.patcog.2006.03.003
27. Mitra S, Banka H, Pal SK (2006). A more framework for biclustering of microarray data. In: Proceedings of the 18th international conference on pattern recognition (ICPR'06), Hong Kong, China, pp 1154-1157
28. Q Sheng Y Moreau B De Moor 2003 Biclustering microarray data by Gibbs sampling Bioinformatics 19 2 196 205 10.1093/bioinformatics/btg1078 10.1093/bioinformatics/btg1078
29. Symeonidis P, Nanopoulos A, Papadopoulos A, Manolopoulos Y (2007). Nearestbiclusters collaborative filtering with constant values. In: Advances in web mining and web usage analysis, vol 4811, Lecture notes in computer science. Springer-Verlag, Philadelphia, pp 36-55
30. Tanay A, Sharan R, Shamir R (2005) Biclustering algorithms: a survey. In: Aluru S (ed) Handbook of computational molecular biology. Chapman & Hall/CRC Computer and Information Science Series, Boca Raton, FL
31. Tang C, Zhang L, Zhang I, Ramanathan M (2001) Interrelated two-way clustering: an unsupervised approach for gene expression data analysis. In: Proceedings of the 2nd IEEE international symposium on bioinformatics and bioengineering, pp 41-48
32. Zeimpekis D, Gallopoulos E (2005) TMG: a MATLAB toolbox for generating term-document matrices from text collections. In: Kogan J, Nicholas C, Teboulle M (eds) Grouping multidimensional data: recent advances in clustering. Springer, Berlin, pp 187-210