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Search: Posts Made By: hanco
Forum: Ion Torrent 04-16-2017, 04:53 PM
Replies: 2
Views: 2,739
Posted By hanco
Hi Philllip, I thought perhaps the quality...

Hi Philllip,

I thought perhaps the quality of DNA that I used to make the libraries already damaged from the beginning or my technical error.
Anyway, thank you so much for your answer.

Hanco
Forum: Ion Torrent 04-14-2017, 12:31 AM
Replies: 2
Views: 2,739
Posted By hanco
Low Concentration Library

Hi,

I made libraries using Colon and Lung Cancer Research Panel and quantify them using qPCR. I was wondering why some of the libraries have less concentration than the others. I made libraries...
Forum: Ion Torrent 02-16-2017, 04:28 PM
Replies: 1
Views: 2,783
Posted By hanco
Colon and Lung Cancer Research Panel vs. Cancer Hotspot Panel

Hi,

I plan to detect mutations from DNA derived from lung cancer FFPE sample with Ion PGM Ampliseq. I usually use Cancer Hotspot Panel v2. It works well, but sometimes I don't get a good result or...
Forum: Ion Torrent 10-19-2015, 05:21 PM
Replies: 0
Views: 1,984
Posted By hanco
Setting Up Variant Frequencies in TVC

Hi everybody,

Currently, I am using Ion PGM Ampliseq Cancer Panel Hotspot v2 and Torrent Variant Caller.
Usually I have only few number of coverage, for example 30 of 200base reads. Sometimes...
Forum: Ion Torrent 10-19-2015, 04:36 PM
Replies: 6
Views: 5,188
Posted By hanco
Yes, I thought so too. That is why I get so...

Yes, I thought so too. That is why I get so confused. These number all automatically set when I chose "somatic" mode.
I suppose I should make another thread to discuss about this.

Anyway, thank...
Forum: Ion Torrent 10-19-2015, 02:22 AM
Replies: 6
Views: 5,188
Posted By hanco
Yes, actually my question relates to variant...

Yes, actually my question relates to variant calling.

I am using Ion PGM Ampliseq Cancer Panel Hotspot v2 and Torrent Variant Caller.
Usually I have only few number of coverage, like I mentioned...
Forum: Ion Torrent 10-19-2015, 01:14 AM
Replies: 6
Views: 5,188
Posted By hanco
Thank you so much for your clear explanation. ...

Thank you so much for your clear explanation.

I have another question.
So can I decide whether I have a good data based on coverage?
For example, I have 200bp region covered by 30 200base read,...
Forum: Ion Torrent 10-18-2015, 06:26 PM
Replies: 6
Views: 5,188
Posted By hanco
Difference between coverage, depth of coverage and targeted coverage

Hi everybody,

I have a question about coverage, depth of coverage and targeted coverage.
What is the difference between those three?

If the targeted coverage, for example, is X25000, does it...
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