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Search: Posts Made By: chaomeizhang
Forum: General 08-02-2017, 10:30 AM
Replies: 26
Views: 13,122
Posted By chaomeizhang
Thank you Chipper. I would like to add some...

Thank you Chipper.

I would like to add some note to the explanation.

The enrichment PCR does regenerate the DNA strand which was degraded by UDG, but the adaptors on both sides of the strands...
Forum: Ion Torrent 08-02-2017, 10:15 AM
Replies: 1
Views: 1,530
Posted By chaomeizhang
Why Ion Torrent use the Taqman qPCR for sequencing lib quantification

Hi All,

To be honest, I really do not understand why Ion torrent use the Taqman for library quantification (ION LIBRARY TAQMAN™ QUANTITATION KIT). I asked several people and a FAS, they had no...
Forum: General 11-27-2013, 07:34 AM
Replies: 26
Views: 13,122
Posted By chaomeizhang
The point is that dUTP digestion of second strand...

The point is that dUTP digestion of second strand is performed before PCR amplification. The following PCR cycles use the normal dNTP, there is no way to use the dUTP digestion to get rid of the...
Forum: General 11-27-2013, 06:58 AM
Replies: 26
Views: 13,122
Posted By chaomeizhang
Appreciate... my understanding is: when...

Appreciate...

my understanding is:
when you do PCR with two primers using the first strand cDNA as template, at first cycle it will use one of the primers (complimentary to the first strand cDNA)...
Forum: General 11-26-2013, 05:57 PM
Replies: 26
Views: 13,122
Posted By chaomeizhang
Question How Final PCR amplification of first stand cDNA only amplify first strand cDNA

I read many posts about dUTP strand specific RNA-seq, nobody explained why final PCR amplification step after degradation of second strand of cDNA only amplify the first strand of cDNA. My...
Forum: Bioinformatics 08-27-2012, 08:59 AM
Replies: 10
Views: 7,658
Posted By chaomeizhang
Question I tried to use the FTP Filezilla to upload some...

I tried to use the FTP Filezilla to upload some NGS data to the galaxy. I registered as [email protected] I input as follows:
Host: main.g2.bx.psu.edu
Userame: [email protected]
Forum: General 03-14-2012, 06:21 AM
Replies: 6
Views: 3,167
Posted By chaomeizhang
batch bowtie alignment

Firstly I must say I am a new to the linus and bowtie.

My questions are
1 I did demultilexing using CASAVA, and got a bunch of fatsq.gz files, then I did unzip of all the files. Should I do the...
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