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Old 02-05-2015, 07:28 AM   #6
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Location: Purdue University, West Lafayette, Indiana

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Originally Posted by wingtec View Post
With all that said, if I am allowed to twist the question a bit.

Say, I already have some Affy microarray data and I want to better or at least confirm the array data with RNA-Seq. The Affy chip used was HG ST gene array and the experiment was done with n=3. Now we want to do also n=3 in RNA-Seq, will 20M clean read of PE2x100 have similar or better coverage than the array data?


Long, long ago, when we did SOLiD runs, an ABI applications specialist told us 5M reads was equivalent to an Affy Chip. But I don't know what that was based on.
Possibly there are comparisons in the literature?
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