Estimating attributes: analysis and extensions of RELIEF
ECML-94 Proceedings of the European conference on machine learning on Machine Learning
An Information-Theoretic Definition of Similarity
ICML '98 Proceedings of the Fifteenth International Conference on Machine Learning
Conceptual Graph Matching for Semantic Search
ICCS '02 Proceedings of the 10th International Conference on Conceptual Structures: Integration and Interfaces
An Approach for Semantic Search by Matching RDF Graphs
Proceedings of the Fifteenth International Florida Artificial Intelligence Research Society Conference
Cancer classification using gene expression data
Information Systems - Special issue: Data management in bioinformatics
Chi2: Feature Selection and Discretization of Numeric Attributes
TAI '95 Proceedings of the Seventh International Conference on Tools with Artificial Intelligence
Verbs semantics and lexical selection
ACL '94 Proceedings of the 32nd annual meeting on Association for Computational Linguistics
Data Mining: Practical Machine Learning Tools and Techniques, Second Edition (Morgan Kaufmann Series in Data Management Systems)
Measuring semantic similarity between Gene Ontology terms
Data & Knowledge Engineering
Proceedings of the 2007 ACM symposium on Applied computing
Methodological Review: Towards knowledge-based gene expression data mining
Journal of Biomedical Informatics
A review of feature selection techniques in bioinformatics
Bioinformatics
Using information content to evaluate semantic similarity in a taxonomy
IJCAI'95 Proceedings of the 14th international joint conference on Artificial intelligence - Volume 1
Using measures of semantic relatedness for word sense disambiguation
CICLing'03 Proceedings of the 4th international conference on Computational linguistics and intelligent text processing
A new test system for stability measurement of marker gene selection in DNA microarray data analysis
PCI'05 Proceedings of the 10th Panhellenic conference on Advances in Informatics
Measuring semantic similarity between geospatial conceptual regions
GeoS'05 Proceedings of the First international conference on GeoSpatial Semantics
Journal of Biomedical Informatics
Derivation of an artificial gene to improve classification accuracy upon gene selection
Computational Biology and Chemistry
Journal of Biomedical Informatics
Expert Systems with Applications: An International Journal
Improved Feature Selection by Incorporating Gene Similarity into the LASSO
International Journal of Knowledge Discovery in Bioinformatics
Journal of Biomedical Informatics
Review: Knowledge discovery in medicine: Current issue and future trend
Expert Systems with Applications: An International Journal
Hi-index | 0.00 |
Marker gene selection has been an important research topic in the classification analysis of gene expression data. Current methods try to reduce the ''curse of dimensionality'' by using statistical intra-feature set calculations, or classifiers that are based on the given dataset. In this paper, we present SoFoCles, an interactive tool that enables semantic feature filtering in microarray classification problems with the use of external, well-defined knowledge retrieved from the Gene Ontology. The notion of semantic similarity is used to derive genes that are involved in the same biological path during the microarray experiment, by enriching a feature set that has been initially produced with legacy methods. Among its other functionalities, SoFoCles offers a large repository of semantic similarity methods that are used in order to derive feature sets and marker genes. The structure and functionality of the tool are discussed in detail, as well as its ability to improve classification accuracy. Through experimental evaluation, SoFoCles is shown to outperform other classification schemes in terms of classification accuracy in two real datasets using different semantic similarity computation approaches.