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Forum: Bioinformatics 11-04-2018, 08:52 PM
Replies: 1
Views: 671
Posted By Buckethead84
Amplicon Somatic Mutation Caller

Hi everyone,

I'm relatively new to bioinformatics, and I am trying to use some deep amplicon sequencing data from the MiSeq to validate somatic mutations identified from either WES or other...
Forum: Illumina/Solexa 09-14-2018, 03:03 AM
Replies: 3
Views: 1,422
Posted By Buckethead84
I think you'll need the dsDNA assay kit since...

I think you'll need the dsDNA assay kit since these are libraries. It's fairly straightforward and you can just follow the manufacturer's protocol. Nothing particularly special needs to be done for...
Forum: Sample Prep / Library Generation 07-30-2018, 08:36 AM
Replies: 1
Views: 1,423
Posted By Buckethead84
Overamplified library question

Hi all,

We've recently run into an issue where a member of our lab accidentally added an extra cycle to the final amplification step of the library prep protocol. As many of you know, this results...
Forum: Ion Torrent 06-05-2018, 08:30 PM
Replies: 37
Views: 49,227
Posted By Buckethead84
Hi Hiro, This seems like an interesting...

Hi Hiro,

This seems like an interesting approach. Perhaps you could comment on a couple of things to help make me understand the logic behind your approach.

Only the primers contain uracil and...
Forum: Ion Torrent 10-03-2017, 01:43 PM
Replies: 37
Views: 49,227
Posted By Buckethead84
Hi, Has anyone gotten this protocol to work?...

Hi,

Has anyone gotten this protocol to work? I have a protocol that uses Phusion U MM (thanks to epistatic) that appears to work, but I haven't tried it without the end repair reaction yet. Do you...
Forum: Sample Prep / Library Generation 09-08-2017, 01:28 PM
Replies: 1
Views: 2,269
Posted By Buckethead84
QIAseq 1-Step Amplicon Library kit-reviews?

Hello all,

Has anyone used the QIAseq 1-step amplicon library kit previously and have any critiques of it? It seems to work very fast by incorporating the most of the steps of library preps into...
Forum: Ion Torrent 08-10-2017, 06:16 PM
Replies: 0
Views: 2,714
Posted By Buckethead84
AmpliSeq Design

Could someone explain to me how AmpliSeq for Ion Torrent works? I understand how it's a multiplex PCR, but I've heard that it uses uracil containing primers that they aid in the sensitivity and...
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