Path: utzoo!utgpu!watserv1!watmath!att!linac!Firewall!caen!zaphod.mps.ohio-state.edu!wuarchive!uwm.edu!bionet!rutgers!mbcl!goldman
From: goldman@mbcl.rutgers.edu
Newsgroups: bionet.molbio.genbank
Subject: Re: Data Exchange (updates revisited)
Message-ID: <463.2846214b@mbcl.rutgers.edu>
Date: 31 May 91 14:11:23 GMT
References: <1991May29.185538.1@hmivax.humgen.upenn.edu>
Lines: 51

In article <1991May29.185538.1@hmivax.humgen.upenn.edu>, bailey@hmivax.humgen.upenn.edu writes:
> In article <9105281658.AA02439@histone.lanl.gov> on May 28, Paul Gilna writes:
> 
>>All data processed by DDBJ (with the exception of confidential data)
>>are passed to GenBank on a regular basis and incorporated
>>immediately into the on-line flatfile servers and RDBMS satellites;
>>These data are in turn propagated to EMBL and their distribution nodes.
> 
> How rapidly does this integration of data occur?  We have been updating local
> copies of nucleic acid sequence databases by FTP, and I'm curious whether
> there's a sufficient lag to justify maintaining incremental updates to GenBank
> and EMBL separately (I gather from recent discussion that there's no access at
> present to DDBJ until GenBank gets the data; correct me if I'm wrong).
> 
> If anyone is familiar with the exchange rates or has looked at information
> overlap in the updates between releases, I'd be interested to know what one can
> expect.
I don't have any hard information on this, but we also take both the genbank
and the EMBL weekly updates.  We use the GCG suite of programs, and I run
AccessionNumbers on the Genbank data, and use that so that the "new" data
from Genbank and EMBL does not have duplicate entries.  From this, I would
estimate that (per week) the number of entries that are in EMBL but not yet in
Genbank is about a fifth of the total number of entries in the Genbank "new"
data.  (I just looked at the sizes of the em_new.ref and gb_new.ref files.)
I hope this helps....
> 
> Finally, the concept of confidential data in a database is new to me.  How
> precisely does this work?  Is this unique to DDBJ, or might there be data
> quietly floating around in other databases as well?  How does one officially
> 'spot' references to confidential data?
> 
> Thanks to all.  Apologies if any of the above questions are common knowledge to
> the rest of the world.
> 
> 
> 					Charles Bailey
> 
> !-------------------------------------------------------------------------------
> !          Dept. of Human Genetics / Howard Hughes Medical Institute
> ! University of Pennsylvania School of Medicine  Rm. 430 Clinical Research Bldg.
> !     422 Curie Blvd.  Philadelphia, PA 19104 USA      Tel. (215) 898-1699
> !          Internet: bailey@hmivax.humgen.upenn.edu  (IN 128.91.200.37)
> !-------------------------------------------------------------------------------

		Adrian
-- 
Adrian Goldman                         |  Internet:  Goldman@MBCL.Rutgers.Edu
Molecular Biology Computing Laboratory |  Bitnet:    Goldman@BioVAX
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