Visualization strategies to aid interpretation of high-dimensional genotoxicity data.

Autor: Dertinger SD; Litron Laboratories, Rochester, New York, USA., Briggs E; Litron Laboratories, Rochester, New York, USA., Hussien Y; Institute of Life Sciences, Swansea University, Swansea, UK., Bryce SM; Litron Laboratories, Rochester, New York, USA., Avlasevich SL; Litron Laboratories, Rochester, New York, USA., Conrad A; Litron Laboratories, Rochester, New York, USA., Johnson GE; Institute of Life Sciences, Swansea University, Swansea, UK., Williams A; Environmental Health Science and Research Bureau, Health Canada, Ottawa, Canada., Bemis JC; Litron Laboratories, Rochester, New York, USA.
Jazyk: angličtina
Zdroj: Environmental and molecular mutagenesis [Environ Mol Mutagen] 2024 Jun; Vol. 65 (5), pp. 156-178. Date of Electronic Publication: 2024 May 17.
DOI: 10.1002/em.22604
Abstrakt: This article describes a range of high-dimensional data visualization strategies that we have explored for their ability to complement machine learning algorithm predictions derived from MultiFlow® assay results. For this exercise, we focused on seven biomarker responses resulting from the exposure of TK6 cells to each of 126 diverse chemicals over a range of concentrations. Obviously, challenges associated with visualizing seven biomarker responses were further complicated whenever there was a desire to represent the entire 126 chemical data set as opposed to results from a single chemical. Scatter plots, spider plots, parallel coordinate plots, hierarchical clustering, principal component analysis, toxicological prioritization index, multidimensional scaling, t-distributed stochastic neighbor embedding, and uniform manifold approximation and projection are each considered in turn. Our report provides a comparative analysis of these techniques. In an era where multiplexed assays and machine learning algorithms are becoming the norm, stakeholders should find some of these visualization strategies useful for efficiently and effectively interpreting their high-dimensional data.
(© 2024 His Majesty the King in Right of Canada and The Authors. Environmental and Molecular Mutagenesis published by Wiley Periodicals LLC on behalf of Environmental Mutagenesis and Genomics Society. Reproduced with the permission of the Minister of Health Canada.)
Databáze: MEDLINE
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