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Old 10-10-2017, 12:44 PM   #21
kcchan
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Quote:
Originally Posted by Markiyan View Post
This is really important for RNAseq & CHIPseq applications, where we want to keep the cross-talk bellow 10^-6...
How did you come up with that 10^-6 figure? In an RNASeq or CHIPseq experiment that's only about 20-30 reads.
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Old 10-11-2017, 12:29 PM   #22
Brian Bushnell
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Originally Posted by pmiguel View Post
Did you see much phiX index hopping? Searching the "undetermined" fastq for index hops involving one of i7/i5 GGGGGGGG/TCGTAGTG I tentatively identified a fair number. Of course they may just be the result of signal bleed.

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Phillip
I have not looked into that yet. Actually, I don't even know if we are spiking PhiX into our Novaseq runs, but that rate is worth examining, after I find out whether there is actually any PhiX present.
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Old 10-11-2017, 03:57 PM   #23
luc
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I am not sure that index hopping onto PhiX reads would be a good measure. As far as I remember the Illumina PhiX adapter sequences are quite different from TruSeq or Nextera sequences.
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Old 10-13-2017, 07:40 AM   #24
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I am not sure that index hopping onto PhiX reads would be a good measure. As far as I remember the Illumina PhiX adapter sequences are quite different from TruSeq or Nextera sequences.
Well, not as different as you might think. Please see the attachment.

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Old 10-18-2017, 10:19 AM   #25
austinso
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For those with NovaSeqs, are you allowed to say how much the consumables are? Based on what people are charging for a lane, it looks like about $40K per run...
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Old 10-18-2017, 10:59 AM   #26
gringer
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I was told by an Illumina rep at Queenstown Research week about a month ago that NovaSeq run cost would be similar to HiSeq, but produce about double the output.
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