Skip to main content
Erschienen in: Soft Computing 18/2020

24.02.2020 | Methodologies and Application

Efficient attribute selection technique for leukaemia prediction using microarray gene data

verfasst von: D. Santhakumar, S. Logeswari

Erschienen in: Soft Computing | Ausgabe 18/2020

Einloggen

Aktivieren Sie unsere intelligente Suche, um passende Fachinhalte oder Patente zu finden.

search-config
loading …

Abstract

The recent advancements in today’s medical sciences regarding Data Analytics have made it possible for the use of efficient techniques for analysis. For prognosis, diagnosis and cancer treatment, a microarray-based gene expression profiling is considered. Informative genes causing cancer are determined through the deoxyribonucleic acid microarray technique. Dimensionality is the utmost concern while working with multi-dimensional data analysis which acts as a barrier in extracting information from a dataset which leads to costly computational complexity. Thus, an imperative task in the selection of relevant features in the analysis of cancer microarray datasets is crucial towards effective classification. This work focuses on variable selection techniques by utilizing effective correlation for attribute selection along with ant colony optimization. The criterion of a given classifier is maximized through wrapper-based attribute selection, and so it needs efficient searching techniques in finding optimal feature combinations. A new wrapper-based selection technique which uses ant lion optimization (ALO) in finding optimal feature set is proposed in this work which maximizes classification performance. The natural shooting procedure of ant lions is imitated in the proposed ALO algorithm. Support vector machine technique was utilized for the classification of chosen marker genes.

Sie haben noch keine Lizenz? Dann Informieren Sie sich jetzt über unsere Produkte:

Springer Professional "Wirtschaft+Technik"

Online-Abonnement

Mit Springer Professional "Wirtschaft+Technik" erhalten Sie Zugriff auf:

  • über 102.000 Bücher
  • über 537 Zeitschriften

aus folgenden Fachgebieten:

  • Automobil + Motoren
  • Bauwesen + Immobilien
  • Business IT + Informatik
  • Elektrotechnik + Elektronik
  • Energie + Nachhaltigkeit
  • Finance + Banking
  • Management + Führung
  • Marketing + Vertrieb
  • Maschinenbau + Werkstoffe
  • Versicherung + Risiko

Jetzt Wissensvorsprung sichern!

Springer Professional "Wirtschaft"

Online-Abonnement

Mit Springer Professional "Wirtschaft" erhalten Sie Zugriff auf:

  • über 67.000 Bücher
  • über 340 Zeitschriften

aus folgenden Fachgebieten:

  • Bauwesen + Immobilien
  • Business IT + Informatik
  • Finance + Banking
  • Management + Führung
  • Marketing + Vertrieb
  • Versicherung + Risiko




Jetzt Wissensvorsprung sichern!

Springer Professional "Technik"

Online-Abonnement

Mit Springer Professional "Technik" erhalten Sie Zugriff auf:

  • über 67.000 Bücher
  • über 390 Zeitschriften

aus folgenden Fachgebieten:

  • Automobil + Motoren
  • Bauwesen + Immobilien
  • Business IT + Informatik
  • Elektrotechnik + Elektronik
  • Energie + Nachhaltigkeit
  • Maschinenbau + Werkstoffe




 

Jetzt Wissensvorsprung sichern!

Literatur
Zurück zum Zitat Algamal Z (2017) An efficient gene selection method for high-dimensional microarray data based on sparse logistic regression. Electron J Appl Stat Anal 10(1):242–256MathSciNet Algamal Z (2017) An efficient gene selection method for high-dimensional microarray data based on sparse logistic regression. Electron J Appl Stat Anal 10(1):242–256MathSciNet
Zurück zum Zitat Alshamlan HM (2018) Co-ABC: correlation artificial bee colony algorithm for biomarker gene discovery using gene expression profile. Saudi J Biol Sci 25:895–903 Alshamlan HM (2018) Co-ABC: correlation artificial bee colony algorithm for biomarker gene discovery using gene expression profile. Saudi J Biol Sci 25:895–903
Zurück zum Zitat Ang JC, Mirzal A, Haron H, Hamed HNA (2016) Supervised, unsupervised, and semi-supervised feature selection: a review on gene selection. IEEE/ACM Trans Comput Biol Bioinform 13(5):971–989 Ang JC, Mirzal A, Haron H, Hamed HNA (2016) Supervised, unsupervised, and semi-supervised feature selection: a review on gene selection. IEEE/ACM Trans Comput Biol Bioinform 13(5):971–989
Zurück zum Zitat Aziz R, Verma CK, Srivastava N (2017) Dimension reduction methods for microarray data: a review. AIMS Bioeng 4(1):179–197 Aziz R, Verma CK, Srivastava N (2017) Dimension reduction methods for microarray data: a review. AIMS Bioeng 4(1):179–197
Zurück zum Zitat Babu M, Sarkar K (2016) A comparative study of gene selection methods for cancer classification using microarray data. In: 2016 second international conference on research in computational intelligence and communication networks (ICRCICN). IEEE, pp 204–211 Babu M, Sarkar K (2016) A comparative study of gene selection methods for cancer classification using microarray data. In: 2016 second international conference on research in computational intelligence and communication networks (ICRCICN). IEEE, pp 204–211
Zurück zum Zitat Begum S, Chakraborty D, Sarkar R (2016) Identifying cancer biomarkers from leukemia data using feature selection and supervised learning. In: 2016 IEEE first international conference on control, measurement and instrumentation (CMI). IEEE, pp 249–253 Begum S, Chakraborty D, Sarkar R (2016) Identifying cancer biomarkers from leukemia data using feature selection and supervised learning. In: 2016 IEEE first international conference on control, measurement and instrumentation (CMI). IEEE, pp 249–253
Zurück zum Zitat Bhola A, Tiwari AK (2015) Machine learning based approaches for cancer classification using gene expression data. Mach Learn Appl Int J MLAIJ 2(3/4):1–12 Bhola A, Tiwari AK (2015) Machine learning based approaches for cancer classification using gene expression data. Mach Learn Appl Int J MLAIJ 2(3/4):1–12
Zurück zum Zitat Bonilla-Huerta E, Hernández-Montiel A, Morales-Caporal R, Arjona-López M (2016) Hybrid framework using multiple-filters and an embedded approach for an efficient selection and classification of microarray data. IEEE/ACM Trans Comput Biol Bioinform (TCBB) 13(1):12–26 Bonilla-Huerta E, Hernández-Montiel A, Morales-Caporal R, Arjona-López M (2016) Hybrid framework using multiple-filters and an embedded approach for an efficient selection and classification of microarray data. IEEE/ACM Trans Comput Biol Bioinform (TCBB) 13(1):12–26
Zurück zum Zitat Chandra B, Gupta M (2011) An efficient statistical feature selection approach for classification of gene expression data. J Biomed Inform 44(4):529–535 Chandra B, Gupta M (2011) An efficient statistical feature selection approach for classification of gene expression data. J Biomed Inform 44(4):529–535
Zurück zum Zitat Chaudhari P, Agarwal H (2018) Improving feature selection using elite breeding QPSO on gene data set for cancer classification. In: Intelligent engineering informatics. Springer, Singapore, pp 209–219 Chaudhari P, Agarwal H (2018) Improving feature selection using elite breeding QPSO on gene data set for cancer classification. In: Intelligent engineering informatics. Springer, Singapore, pp 209–219
Zurück zum Zitat Dorigo M, Di Caro G (1999) Ant colony optimization: a new meta-heuristic. In: Proceedings of the 1999 congress on evolutionary computation-CEC99 (Cat. no. 99TH8406), vol 2. IEEE, pp 1470–1477 Dorigo M, Di Caro G (1999) Ant colony optimization: a new meta-heuristic. In: Proceedings of the 1999 congress on evolutionary computation-CEC99 (Cat. no. 99TH8406), vol 2. IEEE, pp 1470–1477
Zurück zum Zitat Gao X, Liu X (2018) A novel effective diagnosis model based on optimized least squares support machine for gene microarray. Appl Soft Comput 66:50–59 Gao X, Liu X (2018) A novel effective diagnosis model based on optimized least squares support machine for gene microarray. Appl Soft Comput 66:50–59
Zurück zum Zitat Golub TR, Slonim DK, Tamayo P, Huard C, Gaasenbeek M, Mesirov JP, Coller H, Loh ML, Downing JR, Caligiuri MA, Bloomfield CD, Lander ES (1999) Molecular classification of cancer: class discovery and class prediction by gene monitoring. Science 286:531–537 Golub TR, Slonim DK, Tamayo P, Huard C, Gaasenbeek M, Mesirov JP, Coller H, Loh ML, Downing JR, Caligiuri MA, Bloomfield CD, Lander ES (1999) Molecular classification of cancer: class discovery and class prediction by gene monitoring. Science 286:531–537
Zurück zum Zitat Guo S, Guo D, Chen L, Jiang Q (2017) A L1-regularized feature selection method for local dimension reduction on microarray data. Comput Biol Chem 67:92–101 Guo S, Guo D, Chen L, Jiang Q (2017) A L1-regularized feature selection method for local dimension reduction on microarray data. Comput Biol Chem 67:92–101
Zurück zum Zitat Han F, Yang S, Guan J (2015) An effective hybrid approach of gene selection and classification for microarray data based on clustering and particle swarm optimisation. Int J Data Min Bioinform 13(2):103–121 Han F, Yang S, Guan J (2015) An effective hybrid approach of gene selection and classification for microarray data based on clustering and particle swarm optimisation. Int J Data Min Bioinform 13(2):103–121
Zurück zum Zitat Jain I, Jain VK, Jain R (2018) Correlation feature selection based improved-binary particle swarm optimization for gene selection and cancer classification. Appl Soft Comput 62:203–215 Jain I, Jain VK, Jain R (2018) Correlation feature selection based improved-binary particle swarm optimization for gene selection and cancer classification. Appl Soft Comput 62:203–215
Zurück zum Zitat Lu H, Chen J, Yan K, Jin Q, Xue Y, Gao Z (2017) A hybrid feature selection algorithm for gene expression data classification. Neurocomputing 256:56–62 Lu H, Chen J, Yan K, Jin Q, Xue Y, Gao Z (2017) A hybrid feature selection algorithm for gene expression data classification. Neurocomputing 256:56–62
Zurück zum Zitat Lv J, Peng Q, Chen X, Sun Z (2016) A multi-objective heuristic algorithm for gene expression microarray data classification. Expert Syst Appl 59:13–19 Lv J, Peng Q, Chen X, Sun Z (2016) A multi-objective heuristic algorithm for gene expression microarray data classification. Expert Syst Appl 59:13–19
Zurück zum Zitat Mafarja MM, Mirjalili S (2019) Hybrid binary ant lion optimizer with rough set and approximate entropy reducts for feature selection. Soft Comput 23:6249–6265 Mafarja MM, Mirjalili S (2019) Hybrid binary ant lion optimizer with rough set and approximate entropy reducts for feature selection. Soft Comput 23:6249–6265
Zurück zum Zitat Mafarja M, Eleyan D, Abdullah S, Mirjalili S (2017) S-shaped vs V-shaped transfer functions for ant lion optimization algorithm in feature selection problem. In: Proceedings of the international conference on future networks and distributed systems. ACM, p 14 Mafarja M, Eleyan D, Abdullah S, Mirjalili S (2017) S-shaped vs V-shaped transfer functions for ant lion optimization algorithm in feature selection problem. In: Proceedings of the international conference on future networks and distributed systems. ACM, p 14
Zurück zum Zitat Mirjalili S (2015) The ant lion optimizer. Adv Eng Softw 83:80–98 Mirjalili S (2015) The ant lion optimizer. Adv Eng Softw 83:80–98
Zurück zum Zitat Pan L, Liu G, Lin F, Zhong S, Xia H, Sun X, Liang H (2017) Machine learning applications for prediction of relapse in childhood acute lymphoblastic leukemia. Sci Rep 7(1):7402 Pan L, Liu G, Lin F, Zhong S, Xia H, Sun X, Liang H (2017) Machine learning applications for prediction of relapse in childhood acute lymphoblastic leukemia. Sci Rep 7(1):7402
Zurück zum Zitat Pyingkodi M, Thangarajan R (2018) Informative gene selection for cancer classification with microarray data using a metaheuristic framework. Asian Pac J Cancer Prevent APJCP 19(2):561–564 Pyingkodi M, Thangarajan R (2018) Informative gene selection for cancer classification with microarray data using a metaheuristic framework. Asian Pac J Cancer Prevent APJCP 19(2):561–564
Zurück zum Zitat Rasmy MH, El-Beltagy M, Saleh M, Mostafa B (2012) A hybridized approach for feature selection using ant colony optimization and ant-miner for classification. In: 2012 8th international conference on informatics and systems (INFOS). IEEE, pp. BIO-211 Rasmy MH, El-Beltagy M, Saleh M, Mostafa B (2012) A hybridized approach for feature selection using ant colony optimization and ant-miner for classification. In: 2012 8th international conference on informatics and systems (INFOS). IEEE, pp. BIO-211
Zurück zum Zitat Sara VJ, Belina S, Kalaiselvi K (2019) Ant colony optimization (ACO) based feature selection and extreme learning machine (ELM) for chronic kidney disease detection. Int J Adv Stud Sci Res 4(1) Sara VJ, Belina S, Kalaiselvi K (2019) Ant colony optimization (ACO) based feature selection and extreme learning machine (ELM) for chronic kidney disease detection. Int J Adv Stud Sci Res 4(1)
Zurück zum Zitat Sharbaf FV, Mosafer S, Moattar MH (2016) A hybrid gene selection approach for microarray data classification using cellular learning automata and ant colony optimization. Genomics 107(6):231–238 Sharbaf FV, Mosafer S, Moattar MH (2016) A hybrid gene selection approach for microarray data classification using cellular learning automata and ant colony optimization. Genomics 107(6):231–238
Zurück zum Zitat Vanitha CDA, Devaraj D, Venkatesulu M (2015) Gene expression data classification using support vector machine and mutual information-based gene selection. Procedia Comput Sci 47:13–21 Vanitha CDA, Devaraj D, Venkatesulu M (2015) Gene expression data classification using support vector machine and mutual information-based gene selection. Procedia Comput Sci 47:13–21
Zurück zum Zitat Yao D, Yang J, Zhan X, Zhan X, Xie Z (2015) A novel random forests-based feature selection method for microarray expression data analysis. Int J Data Min Bioinform 13(1):84–101 Yao D, Yang J, Zhan X, Zhan X, Xie Z (2015) A novel random forests-based feature selection method for microarray expression data analysis. Int J Data Min Bioinform 13(1):84–101
Zurück zum Zitat Zawbaa HM, Emary E, Parv B (2015) Feature selection based on antlion optimization algorithm. In: 2015 third world conference on complex systems (WCCS). IEEE, pp 1–7 Zawbaa HM, Emary E, Parv B (2015) Feature selection based on antlion optimization algorithm. In: 2015 third world conference on complex systems (WCCS). IEEE, pp 1–7
Metadaten
Titel
Efficient attribute selection technique for leukaemia prediction using microarray gene data
verfasst von
D. Santhakumar
S. Logeswari
Publikationsdatum
24.02.2020
Verlag
Springer Berlin Heidelberg
Erschienen in
Soft Computing / Ausgabe 18/2020
Print ISSN: 1432-7643
Elektronische ISSN: 1433-7479
DOI
https://doi.org/10.1007/s00500-020-04793-z

Weitere Artikel der Ausgabe 18/2020

Soft Computing 18/2020 Zur Ausgabe