On 12 Feb 2007, at 14:48, Maratou, Klio wrote:
Hello Damian,
the region I have used is rat Chr10: 92448354-100633848 and the
corresponding markers are: D10Rat142 and D10Rat11.
Also region Chr8:51376772-52822796 and markers D8Rat42 and D8Arb23.
Best wishes,
Klio.
Hi Klio,
There was an error in our configuration for the rat marker end filter
so it was doing a >= 100633848 rather than <= in the SQL. This will
be fixed in the upcoming release (27th Feb) but for now use the
actual base pair values as filters.
apologies for the inconvenience
best wishes
Damian
Klio Maratou, PhD
MRC Clinical Sciences Centre
Imperial College School of Medicine
Hammersmith Hospital
Du Cane Road
London, W12 ONN
Email:[EMAIL PROTECTED]
Tel: 020 8383 4319
Fax: 020 8383 8577
From: Damian Smedley [mailto:[EMAIL PROTECTED]
Sent: Mon 12/02/2007 14:15
To: Maratou, Klio
Cc: [email protected]
Subject: Re: [mart-dev] FW: query output inconsistency
On Mon, 12 Feb 2007, Maratou, Klio wrote:
>
>
> Klio Maratou, PhD
> MRC Clinical Sciences Centre
> Imperial College School of Medicine
> Hammersmith Hospital
> Du Cane Road
> London, W12 ONN
> Email:[EMAIL PROTECTED]
> Tel: 020 8383 4319
> Fax: 020 8383 8577
>
> ________________________________
>
> From: Maratou, Klio
> Sent: Mon 12/02/2007 11:00
> To: [EMAIL PROTECTED]
> Subject: query output inconsistency
>
>
> I have a question about an inconsistency that I found when I
query the biomart Rattus norvegicus genes (RGSC3.4) dataset. If
under Filters I use the chromosome number along with base start and
end positions to query biomart, then I get a specific number of
genes that are in this genomic interval. However, if I repeat this
query using marker names for start and end, then I get a different
number of genes for the same genomic interval. The sequence start
and end positions that I use are based on the sequence positions
of the markers.
> Why is there a difference in the output?
Hi Klio,
can you give me an example of a marker pair you are using and the
corresponding sequence region you are using so I can go ahead and
debug
the problem
best wishes
Damian
> Best wishes,
> Klio Maratou
>
> Klio Maratou, PhD
> MRC Clinical Sciences Centre
> Imperial College School of Medicine
> Hammersmith Hospital
> Du Cane Road
> London, W12 ONN
> Email:[EMAIL PROTECTED]
> Tel: 020 8383 4319
> Fax: 020 8383 8577
>
