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Forum: Epigenetics 08-18-2016, 12:38 AM
Replies: 0
Views: 2,686
Posted By tesa
Bowtie2 paired end --un-conc

Hi all,
As part of a normalization strategy for a ChIP-seq experiment, I am using Bowtie2 to align paired end ChiP-seq reads first to the fly genome and then take the unaligned reads and align to...
Forum: Illumina/Solexa 05-21-2008, 08:36 AM
Replies: 18
Views: 7,472
Posted By tesa
preferences

I think many people just use a genomic DNA extraction kit and let the size selection on a gel step take care of the cleanup. Gel cleanup is probably the best way to get rid of small nucleic acids...
Forum: Illumina/Solexa 05-21-2008, 08:34 AM
Replies: 18
Views: 7,472
Posted By tesa
contamination control

I think generally, because after the sonication step to make the library you have to size select from a gel, the product should be very clean of other junk that might be in a DNA prep.

For...
Forum: Introductions 05-16-2008, 08:12 AM
Replies: 0
Hi
Views: 1,460
Posted By tesa
Hi

Woopsie I put this in the wrong place...

Hi, I'm Tesa and I'm pretty new here. I work in Vancouver, BC mostly doing the experimental part of Illumina/Solexa libraries. I am also slowly learning...
Forum: Introductions 05-16-2008, 08:09 AM
Replies: 373
Views: 122,050
Posted By tesa
Hi, I'm pretty new here. I work in Vancouver, BC...

Hi, I'm pretty new here. I work in Vancouver, BC mostly doing the experimental part of Illumina/Solexa libraries. I am also slowly learning the process of analyzing short reads--mostly for my own...
Forum: Illumina/Solexa 05-01-2008, 11:36 AM
Replies: 18
Views: 7,472
Posted By tesa
We've been using an in-house developed sonicator...

We've been using an in-house developed sonicator and checking the fragments on an Agilent. For cleanup, you name it, we've used it. Some folks are using gels, I used magnetic beads for PCR...
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