Hello, I am cell biologist.
I succeeded in differentiating stem cells.
I want to test whether the cells are differentiated correctly or not by using microarray. (There is gold standard cell line.)
And now, I have three groups of microarray data.
Group1: Before differentiation Group2: After differentiation Group3: Gold standard cell line.
Is there a good way to evaluate whether cells are differentiated correctly (gold standard) ? (MDS plot shows that group2 and group3 are similar.)
thank you.
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written
by
sosal •
1 answer
If you've done multidimensional scaling (MDS) then you already have a measure of similarity between your groups. If you need to quantify the similarity, either use the similarity/distance measure you used as input to MDS or use the distance in the MDS projection.
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