Hi Peggy:
We have seen that problem, or at least one very similar. After much
troubleshooting, it seemed that there was a 1 capillary offset. For
example, the instrument took sample from H12, and thought it was loading it
in cap 96, but actually loaded into capillary 95. The file name generated
for that sample, indicates that it is sample F12_95. Sample F12 ends up
with a file name D12_94, sample G12 ends up with file name
E12_87...terribly confusing. Running a new spatial corrected the problem.
Does this make sense of your data?
Lynn
>Hello all:
>
>I am having curious problems with my 3700 and was wondering if anyone else
>has experienced the same things.
>
>I am in a core facility, so we run samples for many different people on the
>same 96 well plate. I noticed on a recent plate that the contig maps were
>showing mismatches. It seems that samples the software is calling one thing
>are actually something else. In other words, the sequence from what it
>calls well A2 is actually from another well, but I have no idea which well.
>I have no way of knowing or figuring out what should be where.
>
>We confirmed that there is a problem by taking the same plate to another
>3700 in another facility, where it's results were fine and everything made
>sense and matched up.
>
>I then ran two staggered Pgem control plates. One plate had pgem in rows A,
>C, E and G with the other rows blank. The second plate had pgem in 1, 3, 5,
>7, 9, and 11, with the others blank. This plate also confirms that there is
>a problem somewhere because there was sequence in places where there
>shouldn't have been and vice-versa. It doesn't seem to be a problem with
>the actual loading, based on the results from these staggered plates. It
>just makes no sense at all!
>
>I currently have the 1-800 ABI Tech support looking at the problem, but
>have not heard back from them. Has anyone else experienced this strange,
>aggravating problem??
>
>Many thanks,
>Peggy
>
>
>Peggy Grow
>Biopolymers Facility
>Howard Hughes Medical Institute
>Harvard Medical School
>Warren Alpert Building, rm. 341
>200 Longwood Avenue
>Boston, Massachusetts 02115
>
>phone: 617/432-7481
Lynn Petukhova
Assistant Director
Genotyping Core Facility
Starr Center for Human Genetics
The Rockefeller University
1230 York Avenue, Box 241
New York, NY 10021
phone: (212) 327-7181
fax: (212) 327-7182
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