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Forum: Sample Prep / Library Generation 09-24-2012, 08:55 AM
Replies: 6
Views: 2,810
Posted By Turnerac0987
I just bought the M220 and I'm very impressed...

I just bought the M220 and I'm very impressed with it so far. The cheaper price is what attracted me to it since it would have been very hard for our lab to afford the S series. The other advantage...
Forum: Bioinformatics 02-08-2012, 02:04 PM
Replies: 11
Views: 8,262
Posted By Turnerac0987
I'm pretty new to analyzing NextGen data and this...

I'm pretty new to analyzing NextGen data and this thread has been really helpful with figuring out my pileup output file. However, while I know what every column means, the results in my columns are...
Forum: Sample Prep / Library Generation 10-31-2011, 09:02 AM
Replies: 7
Views: 4,501
Posted By Turnerac0987
Update: After doing some more tests, I'm pretty...

Update: After doing some more tests, I'm pretty sure that I'm not in fact losing *all* my DNA, just most of it. I tested some PCR product that started at 400ng/ul. After doing purification, the...
Forum: Sample Prep / Library Generation 10-27-2011, 07:12 AM
Replies: 7
Views: 4,501
Posted By Turnerac0987
Sorry for this late response. Here is some more...

Sorry for this late response. Here is some more information on my samples. My lab sent 16 DNA samples to Raindance to be amplified with a targeted library. The samples they sent back were analyzed on...
Forum: Sample Prep / Library Generation 10-25-2011, 10:49 AM
Replies: 7
Views: 4,501
Posted By Turnerac0987
NO yield after purification using Qiagen kits - Please help!

Hey everyone,

I've been trying to start a library prep for Next generation sequencing, but I haven't been able to get past the first purification step using a QIAquick MinElute Purification kit.
...
Forum: Bioinformatics 10-07-2011, 06:58 AM
Replies: 6
Views: 1,209
Posted By Turnerac0987
Thanks for all the help guys! I have a much...

Thanks for all the help guys! I have a much better understanding of how to calculate coverage and number of reads. Looks like single read will be more than enough for aligning to a reference to find...
Forum: Bioinformatics 10-06-2011, 09:42 AM
Replies: 6
Views: 1,209
Posted By Turnerac0987
Will single-read be enough coverage?

I apologize if this question has already been asked, but I couldn't find the exact info I was looking for, so I decided to just ask my specific question directly.

I'm trying to set up a run on a...
Forum: Sample Prep / Library Generation 10-04-2011, 01:03 PM
Replies: 5
Views: 10,424
Posted By Turnerac0987
In my old lab we never did the gel size selection...

In my old lab we never did the gel size selection step. For our framentation step we used Nextera Enzyme, and before that we used Covaris shearing. I guess those methods gave us small enough...
Forum: Sample Prep / Library Generation 09-26-2011, 06:30 AM
Replies: 22
Views: 4,873
Posted By Turnerac0987
Update: I contacted Bioo Scientific and they...

Update:
I contacted Bioo Scientific and they were very helpful in explaining the difference between the kits. In case anyone else wants to know, here is what they said.

"The primary difference...
Forum: Sample Prep / Library Generation 09-23-2011, 06:01 AM
Replies: 22
Views: 4,873
Posted By Turnerac0987
Thanks for your reply! I'm glad someone has had a...

Thanks for your reply! I'm glad someone has had a good experience with them since they are so much cheaper than Illumina kits.

And yes, I've seen on their website that they have 96 barcodes.
...
Forum: Sample Prep / Library Generation 09-22-2011, 06:28 AM
Replies: 22
Views: 4,873
Posted By Turnerac0987
Bioo Scientific kits

Hey everyone,

I was wondering if anyone had any experience using Bioo Scientific's DNA sequencing kits?
How do they compare with Illumina's TruSeq DNA Sample prep kits? Do the final results look...
Forum: Illumina/Solexa 09-20-2011, 01:08 PM
Replies: 6
Views: 5,307
Posted By Turnerac0987
That's actually a question I've been wondering...

That's actually a question I've been wondering too. Did you ever get any info on that? Can anyone else give any insight?
Forum: Illumina/Solexa 08-25-2011, 11:46 AM
Replies: 2
Views: 2,215
Posted By Turnerac0987
The concentrations in lanes 3 and 6 were the same...

The concentrations in lanes 3 and 6 were the same as all the other lanes.

At first we (and Illumnia) thought that this was an overclustering problem. However, on closer examination, we realized...
Forum: Illumina/Solexa 08-24-2011, 11:50 AM
Replies: 2
Views: 2,215
Posted By Turnerac0987
Exclamation Two lane failures and low cluster density - expired reagents?

Hello everyone!

I am currently in the middle of running a 72bp paired end, multiplexed run on a GAIIx. So far, the run is stopped after the first index read, so it's halfway through.

After...
Forum: Introductions 08-23-2011, 08:27 AM
Replies: 373
Views: 42,785
Posted By Turnerac0987
Hello everyone!

My name is Angela and I just started working as a Molecular Biologist at the National Institutes of Health. My lab is trying to use next generation sequencing technologies (Illumina GAIIx and maybe...
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