With the data explosion in biology visualisation techniques are of paramount importance for further progress. In this paper, we review traditional visualisation by clustering and dendrogram, which are prevailent in biology. We discuss its shortcomings and develop an alternative approach: Space Explorer 1 . In detail, we first present a framework to characterise the visualisation process. We ide...

Generalization hierarchies are frequently used in computer science, statistics, biology, bioinformatics, and other areas when less specific values are needed for data analysis. Generalization is also one of the most used disclosure control technique for anonymizing data. For numerical attributes, generalization is performed either by using existing predefined generalization hierarchies or a hie...

This paper presents an approach for a multilevel knowledge base system for evidence-based medicine. A sequence of events called patient trial is extracted from computer patient records. These events describe one flow of therapy for a concrete disease. Each event is represented by state and time. We introduce a measure between states, which is used to calculate the best alignment between differe...

In phylogenetic analysis, median networks have been proposed as an improvement over tree representations. This paper argues that concept lattices represent a further improvement over median networks because FCA provides a detailed formal description and there are a number of existing software solutions for creating lattices. The purpose of this paper is to raise awareness in the FCA community f...

Clustering in bioinformatics is a fundamental process involving computational issues that are far from being resolved. In our work, we propose a new approach to this problem and show preliminary comparisons to current leading methods in the field.

1 Division of Clinical Epidemiology, The First Hospital of Jilin University, 71Xinmin Street, Changchun, Jilin, China, 130021 2 School of Mathematics, Jilin University, 2699 Qianjin Street, Changchun, Jilin, China, 130012 3 Department of Biostatistics, Markey Cancer Center, The University of Kentucky, 800 Rose St., Lexington, KY, 40536, 1518 Clifton Road NE, Atlanta, GA, 30322 Department of Bio...

Clustering method is one of the most important tools in statistics. In a graph theory model, clustering is the process of finding all dense subgraphs. In this paper, a new clustering method is introduced. One of the most significant differences between the new method and other existing methods is that this new method constructs a much smaller hierarchical tree, which clearly highlights meaningf...

Phylogenetic analysis may be considered to be a highly reliable and important bioinformatics tool. The importance of phylogenetic analysis lies in its simple manifestation and easy handling of data. The simple tree representation of the evolution makes the phylogenetic analysis easier to comprehend and represent as well. The varied applications of phylogenetics in different fields of biology ma...

Biological sequence comparison is a key step in inferring the relatedness of various organisms and the functional similarity of their components. Thanks to the Next Generation Sequencing efforts, an abundance of sequence data is now available to be processed for a range of bioinformatics applications. Embedding a biological sequence – over a nucleotide or amino acid alphabet – in a lower dimens...

Alexander MAKARENKO †, Anatoliy POLIARUSH † and Igor TETKO ‡ † Institute of Applied System Analysis, National Technical University of Ukraine (KPI), 37 Peremogy Ave., Kyiv, Ukraine E-mail: [email protected], [email protected] ‡ Institute of Bioorganic and Petroleum Chemistry of NAS of Ukraine, Kyiv, Ukraine; Institute for Bioinformatics, Ingolstraedter Lanstrasse 1, D-85764, Neuherb...