Large-scale regulatory network analysis from microarray data: modified Bayesian network learning and association rule mining

Authors:
Zan Huang;Jiexun Li;Hua Su;George S. Watts;Hsinchun Chen
Affiliations:
Department of Supply Chain and Information Systems, Smeal College of Business, The Pennsylvania State University, University Park, PA 16802, United States;Department of Management Information Systems, Eller College of Business and Public Administration, The University of Arizona, Tucson, AZ 85721, United States;Department of Management Information Systems, Eller College of Business and Public Administration, The University of Arizona, Tucson, AZ 85721, United States;Arizona Cancer Center and Department of Pharmacology and Toxicology, The University of Arizona, Tucson, AZ 85724, United States;Department of Management Information Systems, Eller College of Business and Public Administration, The University of Arizona, Tucson, AZ 85721, United States
Venue:
Decision Support Systems
Year:
2007

Citing 15
Cited 12

Probabilistic reasoning in intelligent systems: networks of plausible inference

Probabilistic reasoning in intelligent systems: networks of plausible inference
Mining association rules between sets of items in large databases

SIGMOD '93 Proceedings of the 1993 ACM SIGMOD international conference on Management of data
Real-world applications of Bayesian networks

Communications of the ACM
Identifying gene regulatory networks from experimental data

RECOMB '99 Proceedings of the third annual international conference on Computational molecular biology
Learning Bayesian networks from data: an information-theory based approach

Artificial Intelligence
Linear Modeling of Genetic Networks from Experimental Data

Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology
Automated Construction of Sparse Bayesian Networks from Unstructured Probabilistic Models and Domain Information

UAI '89 Proceedings of the Fifth Annual Conference on Uncertainty in Artificial Intelligence
Handling very large numbers of association rules in the analysis of microarray data

Proceedings of the eighth ACM SIGKDD international conference on Knowledge discovery and data mining
Microarray Gene Expression Data Association Rules Mining Based On JG-Tree

DEXA '03 Proceedings of the 14th International Workshop on Database and Expert Systems Applications
Collective Mining of Bayesian Networks from Distributed Heterogeneous Data

Knowledge and Information Systems
Data mining of Bayesian networks using cooperative coevolution

Decision Support Systems
Association rule mining in peer-to-peer systems

IEEE Transactions on Systems, Man, and Cybernetics, Part B: Cybernetics
Mining fuzzy association rules in a bank-account database

IEEE Transactions on Fuzzy Systems
Approximating discrete probability distributions with dependence trees

IEEE Transactions on Information Theory
Image segmentation using association rule features

IEEE Transactions on Image Processing

Enhancing border security: Mutual information analysis to identify suspect vehicles

Decision Support Systems
A hybrid Bayesian network learning method for constructing gene networks

Computational Biology and Chemistry
Learning Bayesian networks from incomplete databases using a novel evolutionary algorithm

Decision Support Systems
Using Higher-Order Dynamic Bayesian Networks to Model Periodic Data from the Circadian Clock of Arabidopsis Thaliana

PRIB '09 Proceedings of the 4th IAPR International Conference on Pattern Recognition in Bioinformatics
Efficient mining of multilevel gene association rules from microarray and gene ontology

Information Systems Frontiers
Mining High-Correlation Association Rules for Inferring Gene Regulation Networks

DaWaK '09 Proceedings of the 11th International Conference on Data Warehousing and Knowledge Discovery
Discovery of unapparent association rules based on extracted probability

Decision Support Systems
Histogram distance-based Bayesian Network structure learning: A supervised classification specific approach

Decision Support Systems
Interpreting the web-mining results by cognitive map and association rule approach

Information Processing and Management: an International Journal
Constructing gene regulatory networks from microarray data using GA/PSO with DTW

Applied Soft Computing
Improved algorithm based on mutual information for learning Bayesian network structures in the space of equivalence classes

Multimedia Tools and Applications
Association rule mining to detect factors which contribute to heart disease in males and females

Expert Systems with Applications: An International Journal

Quantified Score

Hi-index	0.00

Visualization

Abstract

We present two algorithms for learning large-scale gene regulatory networks from microarray data: a modified information-theory-based Bayesian network algorithm and a modified association rule algorithm. Simulation-based evaluation using six datasets indicated that both algorithms outperformed their unmodified counterparts, especially when analyzing large numbers of genes. Both algorithms learned about 20% (50% if directionality and relation type were not considered) of the relations in the actual models. In our empirical evaluation based on two real datasets, domain experts evaluated subsets of learned relations with high confidence and identified 20-30% to be "interesting" or "maybe interesting" as potential experiment hypotheses.