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Old 09-20-2010, 06:39 AM   #3
sridharacharya
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Location: Institute, WV

Join Date: May 2010
Posts: 24
Default Re: Regarding Unique reads, Unique alignments

malachig,

Thanks for the reply. I'll go through those discussions.

In my case, I am studying 3 types of experiments. I suppose the criteria to handle duplicate reads and handling of reads aligning to multiple places would be different for these three cases.

1. ChIP sequencing to analyze and quantify chromatin modifications

2. Whole transcriptome sequencing to quantify differential gene expression, between different conditions

3. mi-RNA sequencing . To quantify the differential expression of the micro-RNAs.

Last edited by sridharacharya; 09-20-2010 at 07:11 AM.
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