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Forum: Metagenomics 03-04-2016, 08:09 PM
Replies: 9
Views: 6,481
Posted By peterwang
Bumping this old thread, which I came across in...

Bumping this old thread, which I came across in reading about artifactual PCR recombination that may occur in generating amplicon libraries.

I will add another paper that was helpful for framing...
Forum: Sample Prep / Library Generation 11-18-2015, 02:40 PM
Replies: 9
Views: 7,808
Posted By peterwang
Still some life in this old thread! I got the...

Still some life in this old thread!
I got the following as a PM, thought I would post reply to the board.



Yes, we had oligos synthesized just with desalting, no other purification, and that...
Forum: Sample Prep / Library Generation 11-18-2015, 02:24 PM
Replies: 9
Views: 7,808
Posted By peterwang
to jbergenstrahle: The oligos we used are...

to jbergenstrahle:

The oligos we used are from the Adiconis paper in Nature Methods, in an Excel file as Supplementary Table 6:...
Forum: Sample Prep / Library Generation 05-31-2015, 11:54 PM
Replies: 9
Views: 7,808
Posted By peterwang
This is just an update in case others come across...

This is just an update in case others come across this thread in a search.
The homebrew RNase H depletion method (using the protocol and oligos from the Adiconis paper) has worked well for us.
...
Forum: Sample Prep / Library Generation 06-22-2014, 10:40 AM
Replies: 9
Views: 7,808
Posted By peterwang
Hi konglongjidan: We did custom-order the...

Hi konglongjidan:

We did custom-order the oligo set from Adiaconis and tried out the RNaseH depletion method (made in-house, as crude unpurified; note that several oligos contain inosine in place...
Forum: Sample Prep / Library Generation 04-15-2014, 09:52 AM
Replies: 9
Views: 7,808
Posted By peterwang
commercial oligo set for RNaseH depletion of human rRNA?

We are interested to try depletion of rRNA from human samples by the RNase H method of Morlan (recommended in the survey of methods by Adiconis):

Morlan JD, Qu K, Sinicropi DV. Selective depletion...
Forum: Sample Prep / Library Generation 08-18-2010, 01:26 PM
Replies: 49
Views: 70,166
Posted By peterwang
@ squeak: I agree with you, I still let XP...

@ squeak:
I agree with you, I still let XP beads dry completely; not sure it's necessary, but it seems sensible to evaporate off the last traces of EtOH.

@ der eiskern:
The capacity of beads is...
Forum: Sample Prep / Library Generation 06-04-2010, 06:59 PM
Replies: 49
Views: 70,166
Posted By peterwang
I found some answers in a Powerpoint/PDF on the...

I found some answers in a Powerpoint/PDF on the Beckman-Coulter AMPure website (attached, see pages 5 & 6).

AMPure XP beads have two magnetite layers vs. only one layer in AMPure beads; so they...
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