title: Exploratory analysis of cell-based screening data for phenotype identification in drug-siRNA study.
abstract: 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.
authors.affiliation: Department of Computing Science, Institute of High Performance Computing, Singapore. tjhiwc@ihpc.a-star.edu.sg
authors.forename: William-Chandra
authors.initials: WC
authors.lastname: Tjhi
authors.forename: Kee Khoon
authors.initials: KK
authors.lastname: Lee
authors.forename: Terence
authors.initials: T
authors.lastname: Hung
authors.forename: Ivor Wai-Hung
authors.initials: IW
authors.lastname: Tsang
authors.forename: Yew Soon
authors.initials: YS
authors.lastname: Ong
authors.forename: Frederic
authors.initials: F
authors.lastname: Bard
authors.forename: Victor
authors.initials: V
authors.lastname: Racine
mesh_terms: D016000:Cluster Analysis; D003627:Data Interpretation, Statistical; D016208:Databases, Factual; D004353:Drug Evaluation, Preclinical / Q000706:statistics & numerical data*; D006056:Golgi Apparatus / Q000187:drug effects / Q000235:genetics; D006367:HeLa Cells; D006801:Humans; D010641:Phenotype; D034741:RNA, Small Interfering / Q000235:genetics*; D049490:Systems Biology / Q000706:statistics & numerical data; D014584:User-Computer Interface
chemical_list: D034741:RNA, Small Interfering