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Old 06-28-2010, 10:34 AM   #1
sanush
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Default Ribosomal removal problem

Hi all
We have been using ABI's Ribominus kit for the ribosomal removal for RNA seq experiment. After ribominus treatment we check it on the bioanalyzer and usually the ribosomal contamination will be around .5 to .8%. The ribominus treatment has worked good so far for human and mouse species, but currently we are facing problem with C. Elegans. The ribominus contamination after 1st ribominus treatment was around 4% to 5%. So we did a 2nd ribominus treatment and it is even worse the 2nd time (7% to 8%).

Any advice on alternate ribosomal RNA removal kit for C. Elegans species.

Thanks in advance
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Old 06-28-2010, 11:16 AM   #2
ECO
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Human/Mouse kit or new Eukaryotic kit?
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Old 06-28-2010, 11:44 AM   #3
sanush
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Quote:
Originally Posted by ECO View Post
Human/Mouse kit or new Eukaryotic kit?
Thanks

The ribo depletion was done using ribominus eukaryotic kit..any suggestion for alternate kit
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Old 06-30-2010, 06:03 AM   #4
scooter
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Looks like there is a new product ad in the vendors forum.

http://seqanswers.com/forums/showthread.php?t=5754
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Old 01-23-2012, 06:08 AM   #5
mercier
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Default Recovery

Quote:
Originally Posted by sanush View Post
Hi all
We have been using ABI's Ribominus kit for the ribosomal removal for RNA seq experiment. After ribominus treatment we check it on the bioanalyzer and usually the ribosomal contamination will be around .5 to .8%. The ribominus treatment has worked good so far for human and mouse species, but currently we are facing problem with C. Elegans. The ribominus contamination after 1st ribominus treatment was around 4% to 5%. So we did a 2nd ribominus treatment and it is even worse the 2nd time (7% to 8%).

Any advice on alternate ribosomal RNA removal kit for C. Elegans species.

Thanks in advance
Hello,
When you say that the ribominus worked good it was for the quality but for the recovery...
I test it two times with 10 µg each time and didnt succeed to reciver more than 250 ng... with also 4-5% of rRNA (normally this kit say 1% left...)

Have you the same quantity?

Thank's a lot in advance
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