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sequence updating service

Mario Garcia sbioi000 at cib.csic.es
Tue May 16 07:00:18 EST 2000


>Since I've seen no answers come across the list, I have to assume that 
>there are no free update services.
>
>My experience has been that if you want it "free", you have to do it 
>yourself via sets of scripts to ftp the sequences down from the original 
>source, and run the conversion and formatting software. You get to pay 
>either in time (your own) or in money ($$ to the GCG company). We prefer 
>the $$ solution.
>
>Chad
>
>
>At 01:53 PM 4/13/2000 +0200, Mario Garcia wrote:
>>Dear folks,
>>I'm trying to find any free alerting service, by e-mail or web-based,
>>that
>>sends periodically updates of selected protein and nucleic acid
>>sequences
>>newly included in GenBank, EMBL, and SwissProt databanks.
>>Thanks a lot in advance for any advice.
>>


Dear Chad,
You are pointing to services for updating sequence databases but my
question was addressed for alerting services offering news of
recent sequences and papers of particular interest. Anyway, all
replies I received on this subject are below.
Regards,
---------------------------------------------------------------------------
    Mario Garcia de Lacoba, PhD.       Phone   : +341 915611800 (ext.4334)
                                       Fax     : +341 915627518
Centro de Investigaciones Biologicas   E-mail  : mario at cib.csic.es
              C.S.I.C.
          c/ Velazquez, 144                 BIOINFORMATIC UNIT
         28006-Madrid. SPAIN.      
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Date: Thu, 13 Apr 2000 23:50:17 +1000
From: Bruno Gaeta <Bruno.Gaeta at eBioinformatics.com>
To: Mario Garcia <sbioi000 at cib.csic.es>
Subject: Re: GCG-Users sequence updating service

BioNavigator (http://www.bionavigator.com) does this for Genbank, using its
Notify function. It is a commercial service but blast searches and
text/keyword searches are free and can be set to be repeated weekly on
Genbank at no cost.
Cheers,
Bruno

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Date: Thu, 13 Apr 2000 16:15:52 +0200
From: Bertram.Weiss at schering.de
To: Mario Garcia <sbioi000 at cib.csic.es>
Subject: Antwort: sequence updating service

MIPS institute (Munich)
@ EMBL (servidor de peer bork) (Heidelberg)
@ Weizmann Institute (Israel)

Bertram
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Date: Fri, 14 Apr 2000 16:52:39 -0400
From: Bill_A_Nussbaumer at ms.bd.com
To: Mario Garcia <sbioi000 at cib.csic.es>
Subject: Re: GCG-Users sequence updating service

Try the software at this site and see if it does what you need:

http://www.pubcrawler.ie/

Also see the section on "other free alerting services".

Hope this helps,

Bill
-----------------------------------------------------------------------
Date: Fri, 14 Apr 2000 07:55:24 +0200
From: Doug Brutlag <brutlag at stanford.edu>
To: Mario Garcia <sbioi000 at cib.csic.es>, info-gcg at hgmp.mrc.ac.uk
Subject: Re: sequence updating service

Dear Mario,

DoubleTwist.com provides a daily sequence update service. Given a set 
of query sequences (DNA or protein) DoubleTwist compares your queries 
against about 20 public and proprietary databases (DNA, protein, 
ESTs, structures, motifs, domains, patented sequences etc.) including 
the ones you mentioned, using many different search algorithms and 
returns significant hits to you daily.

This free service accepts up to 10 query sequences. I use it to 
retrieve specific classes of oncogenes and other regulatory proteins 
daily.

The alerting is by email but the data is retrieved via the Web.

Sincerely,

Doug Brutlag

http://doubletwist.com/

Disclaimer: I serve as the Acting Chief Scientific Officer of 
DoubleTwist.com part time.
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