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  • JPC
    replied
    Ah sorry, getting my threads mixed up!

    Leave a comment:


  • Zaag
    replied
    Originally posted by bioits View Post
    6 lanes total? The number doesn't sound right to me.
    1 slide = 3 lanes

    Leave a comment:


  • JPC
    replied
    Originally posted by bioits View Post
    6 lanes total? The number doesn't sound right to me.
    It's a little lower than you might like but we've seen runs like this. It equates to around 150,000 reads per panel doesn't it?

    Leave a comment:


  • bioits
    replied
    Originally posted by Zaag View Post
    Got 650 million reads from a slide.
    6 lanes total? The number doesn't sound right to me.

    Leave a comment:


  • bioits
    replied
    Originally posted by JackQuist View Post
    The actual sequencing on Wildfire is chemically the same as 5500xl provided they haven't moved the buffer locations on deck (that's easy to check).
    It should work.
    Buffer D is different and even for those that are same, total volume in most of the bottles are different too since WF doesn't use that much buffer.

    Leave a comment:


  • Zaag
    replied
    Got 650 million reads from a slide.

    Leave a comment:


  • JackQuist
    replied
    Originally posted by Brunda View Post
    Hi, I need your help please.

    I accidentaly ordered run cycle buffers and buffer D for solid wildfire, although we do have 5500xl only. Do you think i can use these buffers, or throw them away?
    thanks.

    The actual sequencing on Wildfire is chemically the same as 5500xl provided they haven't moved the buffer locations on deck (that's easy to check).
    It should work.

    Leave a comment:


  • Brunda
    replied
    Hi, I need your help please.

    I accidentaly ordered run cycle buffers and buffer D for solid wildfire, although we do have 5500xl only. Do you think i can use these buffers, or throw them away?
    thanks.

    Leave a comment:


  • JPC
    replied
    This doesn't sound practical to me, the amplification of the WF protocol happens on the slide (as with the Illumina range) so it won't be portable to the ion chip....could you imagine using the GA protocol to make libraries for the Ion?

    My understanding is that there will be an emulsionPCR free strategy on the ion, they are calling 'Avalanche' but I don't think there is a release data yet.

    Leave a comment:


  • Nik
    replied
    Hi,

    I will be in AGBT looking at this from a different angle. Perhaps someone has link/more information please.

    I run a genomics facility for CR-UK and we have GA's, HiSeq and an Ion torrent to do validation sequencing and for that it's a good little tool. The down fall is the emulation PCR. Now when something goes wrong it is pretty much back to that. It’s expensive and time consuming.

    Now, if you haven't worked out what I want to do yet, I want to use the wildfire library production and its non-emulation PCR and run on my Ion torrent but I can't find any details. As academia I do not have to worry about the issues companies have with IP. So, I want to give it a go. Can anyone send me links to papers, information or help on this I will buy you a drink as AGBT.

    All the best

    Nik

    Leave a comment:


  • Zaag
    replied
    Originally posted by Chipper View Post
    How many raw reads did you get per lane?
    450 million and 400 million Total reads from the multiplex report. I think this can be higher if we find the optimal amount to load on the slide.
    Originally posted by SeqTruth View Post
    Can anyone tell me if Wildfire will work with standard SOLiD libraries, or even better, what the Wildfire adapter sequences are?
    You can PCR the Wildfire adapters to a 5500 library so that you can run it on the wildfire. I don't know the sequence.

    Leave a comment:


  • SeqTruth
    replied
    Library/adapter compatibility

    Can anyone tell me if Wildfire will work with standard SOLiD libraries, or even better, what the Wildfire adapter sequences are?

    Leave a comment:


  • Chipper
    replied
    How many raw reads did you get per lane?

    Leave a comment:


  • Zaag
    replied
    lane1: 240 million 0 mismatch barcode reads; 80% aligned to reference (hg19)
    lane2: 200 million 0 mismatch barcode reads, 71% aligned to reference (hg19)

    both lanes contained the same sample, only the amount we loaded at the slides to form colonies was higher in lane2

    Leave a comment:


  • Zaag
    replied
    We have one now, I'll be running an old sample this week. I will post the results.

    Leave a comment:

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