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Forum: Sample Prep / Library Generation 01-24-2014, 05:33 AM
Replies: 0
Views: 1,521
Posted By chiaraf
Unhappy Ovation Ultralow Methyl-Seq Library Systems and Miseq sequencing

Hi everyone!!
I hope that someone can help me to solve my sequencing problem.
We prepared 2 libreries with the Ovation Ultralow Methyl-Seq Library Systems and we tried to sequence them on the Miseq...
Forum: Sample Prep / Library Generation 12-19-2013, 10:25 PM
Replies: 6
Views: 3,409
Posted By chiaraf
Many thanks for your help!!!!:):):):) Ciao ...

Many thanks for your help!!!!:):):):)
Ciao
Chiara
Forum: Sample Prep / Library Generation 11-30-2013, 11:29 PM
Replies: 20
Views: 14,114
Posted By chiaraf
With truseqRNA I often see these libreries traces...

With truseqRNA I often see these libreries traces but I always sequence them with no problem.
That's what Illumina suggests:

How to fix bubble products
To confirm this phenotype re-anneal the...
Forum: Sample Prep / Library Generation 11-12-2013, 01:09 PM
Replies: 6
Views: 3,409
Posted By chiaraf
TruseqDNA and Nimblegen capture

Dear community,
I ask your help to understand if someone can give me an idea of what's the best thing to do.
In the next months I need to do some custom exome capture with nimblegene kit.
Before...
Forum: Sample Prep / Library Generation 06-07-2013, 06:39 AM
Replies: 13
Views: 24,497
Posted By chiaraf
Hi! I routinely sequence libreries with a mean...

Hi!
I routinely sequence libreries with a mean fragment size of 450 bp for a 100PE for DNA and libreries witha mean fragment size of 350-400 for a 100PE for RNA seq.
Forum: Sample Prep / Library Generation 06-05-2013, 07:49 AM
Replies: 10
Views: 2,174
Posted By chiaraf
Dear microgirl123, you're right ...probably I...

Dear microgirl123,
you're right ...probably I oversonicating..
Many thanks for your help!!
Chiara
Forum: Sample Prep / Library Generation 06-05-2013, 07:27 AM
Replies: 10
Views: 2,174
Posted By chiaraf
Smile Hi microgirl123, I used the following protocol:...

Hi microgirl123,
I used the following protocol:
Peak IP 175
Duty factor 10%
Cycles / burst 200
Treament Time 120 sec
Temperature 7C
Water level 12
Sample Volume 50 ul
This is the protocol...
Forum: Sample Prep / Library Generation 06-04-2013, 04:09 AM
Replies: 10
Views: 2,174
Posted By chiaraf
last week I fragmented the cDNA with Covaris and...

last week I fragmented the cDNA with Covaris and then I started to prepare libreries with the truseqDNA...libreries are fine but have a mean fragment size of 250 bp with adapter...
I'll have the...
Forum: Sample Prep / Library Generation 05-27-2013, 06:52 AM
Replies: 10
Views: 2,174
Posted By chiaraf
cDNA as starting material for TruseqDNA

Hi,
I hope that someone can help me!
I'd like to do whole genome reseq from cDNA double strand using the truseqDNA kit from Illumina.
Do I need to change the protocol for Covaris fragmentations...
Forum: Sample Prep / Library Generation 02-26-2013, 02:25 AM
Replies: 0
Views: 1,914
Posted By chiaraf
.csv sample sheet for Caporaso protocol -16s Amplicon Sequencing

Hello!
I'm performing a metagenomics study for bacterial detection in soils.
I'm ready to run the 16S PCR/library but I need to change the .csv sample sheet.
The workflow to create the sample...
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