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Int J Comput Biol Drug Des. 2011;4(2):194-215. doi: 10.1504/IJCBDD.2011.041011. Epub 2011 Jun 28.

Exploratory analysis of cell-based screening data for phenotype identification in drug-siRNA study.

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Department of Computing Science, Institute of High Performance Computing, Singapore.


Most phenotype-identification methods in cell-based screening assume prior knowledge about expected phenotypes or involve intricate parameter-setting. They are useful for analysis targeting known phenotype properties; but need exists to explore, with minimum presumptions, the potentially-interesting phenotypes derivable from data. We present a method for this exploration, using clustering to eliminate phenotype-labelling requirement and GUI visualisation to facilitate parameter-setting. The steps are: outlier-removal, cell clustering and interactive visualisation for phenotypes refinement. For drug-siRNA study, we introduce an auto-merging procedure to reduce phenotype redundancy. We validated the method on two Golgi apparatus screens and showcase its contribution for better understanding of screening-images.

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