[Annotation] ISS/ISA from Southerns?

[Rama Balakrishnan]

Reposting...
I am dealing with a similar situation like the one Julie has mentioned  
below.

Thanks,

Rama


Begin forwarded message:

> From: Julie Park <juliep at genome.stanford.edu>
> Date: April 23, 2008 3:57:22 PM PDT
> To: evidence at genome.stanford.edu
> Subject: [Evidence] ISS/ISA from Southerns?
>
> Dear evidence code group,
>
> I had a question about whether Southern analysis alone can be used as
> evidence for an annotation.
>
> In S. cerevisiae, MEL2-10 are annotated by ISS to alpha-galactosidase
> activity.  There is no sequence alignment or information (older
> literature, pre-genome sequencing), instead the authors infer  
> homology/
> sequence similarity from a Southern hybridization using a MEL1 probe.
> Southern analysis was listed in the old ISS documentation but the only
> mention of Southerns in the new documentation is under ISA in
> conjunction with a sequence alignment.
>
> Is ISS by Southern only no longer allowed or did it just get left out
> of the current documentation?
> If allowed, would I leave these annotations as ISS or would it be okay
> to ISA w/ MEL1?
>
> thanks,
> Julie
>
> ****************************************************************
> Julie Park, Ph.D., Scientific Curator
>  Saccharomyces Genome Database
>  Department of Genetics
>  Stanford University School of Medicine
>  Stanford, CA 94305-5120 USA
>  phone: (650)724-9959  fax: (650)725-1534
>  http://www.yeastgenome.org
> *****************************************************************
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