Does anybody know what can cause the disappearance of a phenotype in cell lines? I am knocking down transporter genes in various ovarian cancer cell lines and it already happened twice that a phenotype (in colony formation assays) disappeared (I had fewer colonies in the knockdowns but later there was no difference anymore). Also, one of the cell lines had in general a lot more colonies than before and they also looked a bit different. Does anyone have an advice for me? By the way, the passage numbers were only a few passages apart.
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ovarian cancer cell line: phenotype disappears
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