A Novel Three-Stage Filter-Wrapper Framework for miRNA Subset Selection in Cancer Classification
Journal Title: Informatics - Year 2018, Vol 5, Issue 1
Abstract
Micro-Ribonucleic Acids (miRNAs) are small non-coding Ribonucleic Acid (RNA) molecules that play an important role in the cancer growth. There are a lot of miRNAs in the human body and not all of them are responsible for cancer growth. Therefore, there is a need to propose the novel miRNA subset selection algorithms to remove irrelevant and redundant miRNAs and find miRNAs responsible for cancer development. This paper tries to propose a novel three-stage miRNAs subset selection framework for increasing the cancer classification accuracy. In the first stage, multiple filter algorithms are used for ranking the miRNAs according to their relevance with the class label, and then generating a miRNA pool obtained based on the top-ranked miRNAs of each filter algorithm. In the second stage, we first rank the miRNAs of the miRNA pool by multiple filter algorithms and then this ranking is used to weight the probability of selecting each miRNA. In the third stage, Competitive Swarm Optimization (CSO) tries to find an optimal subset from the weighed miRNAs of the miRNA pool, which give us the most information about the cancer patients. It should be noted that the balance between exploration and exploitation in the proposed algorithm is accomplished by a zero-order Fuzzy Inference System (FIS). Experiments on several miRNA cancer datasets indicate that the proposed three-stage framework has a great performance in terms of both the low error rate of the cancer classification and minimizing the number of miRNAs.
Authors and Affiliations
Mohammad Bagher Dowlatshahi, Vali Derhami and Hossein Nezamabadi-pour
Keywords
Related Articles
- EP ID EP44118
- DOI https://doi.org/10.3390/informatics5010013
- Views 252
- Downloads 0
Human–Information Interaction—A Special Issue of the Journal of Informatics
Every day, people from different professions and disciplines need to use information to make decisions, plan courses of action, discover patterns in big data, solve problems, analyze situations, make sense of phenomena...
Identifying Opportunities to Integrate Digital Professionalism into Curriculum: A Comparison of Social Media Use by Health Profession Students at an Australian University in 2013 and 2016
Social media has become ubiquitous to modern life. Consequently, embedding digital professionalism into undergraduate health profession courses is now imperative and augmenting learning and teaching with mobile technol...
Creating a Multimodal Translation Tool and Testing Machine Translation Integration Using Touch and Voice
Commercial software tools for translation have, until now, been based on the traditional input modes of keyboard and mouse, latterly with a small amount of speech recognition input becoming popular. In order to test wh...
Interactive Graph Layout of a Million Nodes
Sensemaking of large graphs, specifically those with millions of nodes, is a crucial task in many fields. Automatic graph layout algorithms, augmented with real-time human-in-the-loop interaction, can potentially suppo...
Health Literacy for the General Public: Making a Case for Non-Trivial Visualizations
Health literacy is concerned with the degree to which individuals can access and understand information to make health decisions. The multifaceted nature of health data presents challenges for individuals seeking to im...