huge duplicates or high expression

yuliu

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Join Date: Jul 2012

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#1

huge duplicates or high expression

08-16-2013, 12:56 PM

Hi,

In my analysis, I found more than 10,000 paired-end reads aligned in same region. all of 10,000 reads start from same position, and its pair end at another same position. How can I distinguish it is duplicate or true expression? Any idea will be appreciated.

best
Yu
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SNPsaurus

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Join Date: May 2013

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#2

08-16-2013, 02:34 PM

It it was high expression, you would expect many reads that start and stop at different parts of the transcript. Since your paired-end reads indicate the same DNA fragment was sequenced each time, duplication is what is happening.

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