[Babase] More on snames not in biograph

Susan Alberts alberts at duke.edu
Thu May 7 10:45:20 EDT 2009


Hi all,

Tabby found a file on her computer called snames not in biograph, it  
was by Daphne, and she sent it to Lacey. This was after I had already  
extracted snames not in biograph on Friday.

This new file from Daphne/Tabby provides some information and raises  
some questions.

1. There were three snames in Daphne's file that were in not in the  
file I made last Friday. These were:
UNK for Unknown
HAD for HADADA
TUR for TURKANA

Lacey, please add these to the table "snames not in biograph" in  
babase_pending.

These also need to be added to the list for the team. I will email the  
team and ask them to just write them in by hand, rather than producing  
a new version, since they may have already started working with the  
one I sent last week.

2. There was one name in the list that I had that was not in Daphne's  
list: RUF for Ruffle. No changes need to be made to any file, I am  
just noting this. But, I am puzzled by this and not sure where it came  
from. Any ideas? Jeanne? Does this really appear anywhere in the data?

3. I noticed a typo in the file that I made on Friday. Sname SON has  
the name SONY associated with it, not SON, as I wrote in the field on  
Friday. Lacey, in babase_pending can you change the name to SONY (no  
changes to the sname)?

4. Daphne's file includes a whole set of "Snames" that are listed as  
human samples for DNA extractions. There are some question/issues with  
this list.

-First, I am not sure where these came from. Why am I SSL, for  
instance? Why is Jenny JTG?  I think what needs to happen here is we  
need to look through the Tissue Inventory and see whether these  
"snames" are used, and whether my samples are really listed as SSL in  
there, etc. If not, then this list definitely needs to be expunged, as  
it is very confusing. If so, then I think we need to figure out why,  
and make some changes to samples and to the inventory. Lacey, can you  
do some work with the inventory on these?

-Second, I am not sure that this list has a proper place in babase.  
Given that it is clear in the inventory that the samples belong to  
humans (is it lacey?) do we need to do anything with these? What is  
the risk that (a) the team would choose a baboon name that began with  
one of these, (b) that we would mix up a human and a baboon sample or  
be confused about these? I think the risk is small?

-Third, they are not in the list that the team has been using, so they  
have never been banned as snames. Do we want to start now?

Thoughts?

Susan
--------------------------------------------------------
Susan Alberts, Dept of Biology, Duke University, Box 90338, Durham NC  
27708, 919-660-7272 (Ph), 919-660-7293 (Fax)






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