COMBat: Visualizing co-occurrence of annotation terms

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TitleCOMBat: Visualizing co-occurrence of annotation terms
Publication TypeConference Paper
Year of Publication2013
Authorsvan Brakel, RBJ, Fiers, MWEJ, Francke, C, Westenberg, MA, van de Wetering, H
Conference Name2013 IEEE Symposium on Biological Data Visualization (BioVis)2013 IEEE Symposium on Biological Data Visualization (BioVis)
Conference LocationAtlanta, GA, USA
Accession Number13898666
KeywordsBiology, cellular biophysics, computing, filtering theory, genetics, Genomics

We propose a visual analysis approach that employs a matrix-based visualization technique to explore relations between annotation terms in biological data sets. Our flexible framework provides various ways to form combinations of data elements, which results in a co-occurrence matrix. Each cell in this matrix stores a list of items associated with the combination of the corresponding row and column element. By re-arranging the rows and columns of this matrix, and color-coding the cell contents, patterns become visible. Our prototype tool COMBat allows users to construct a new matrix on the fly by selecting subsets of items of interest, or filtering out uninteresting ones, and it provides various additional interaction techniques. We illustrate our approach with a few case studies concerning the identification of functional links between the presence of particular genes or genomic sequences and particular cellular processes.