C. elegans genome database ACEDB available via WAIS

Mike Cherry 726-5955 CHERRY at Frodo.MGH.Harvard.EDU
Sun Oct 18 09:40:28 EST 1992


All information from the nematode Caenorhabditis genome database ACEDB
release 1-12 is now available via a WAIS server from Massachusetts
General Hospital.

ACEDB was created and is maintained by Richard Durbin
(rd at mrc-lmb.cam.ac.uk) of the MRC-LMB in Cambridge, England and Jean
Thierry-Mieg (mieg at crim.crim.fr) in Montpellier, France.  ACEDB
includes an extensive list of strains, alleles, genes, recombination
mapping information, cosmid and YAC physical map, bibliography of C.
elegans literature, cosmid and cDNA DNA sequences plus much more.  The
UNIX workstation versions of ACEDB are availble via anonymous ftp from
ncbi.nlm.nih.gov (130.14.20.1) in the repository directory. Inquires
about the ACEDB software or the ACEDB database should be directed to
Richard or Jean.

The C. elegans physical map has been converted to text pictures for
the WAIS database.  Genetic Map and DNA sequence graphic displays that
are available with the ACEDB workstation software are not provided by
the WAIS server.  However the underlying information used to create
these graphic displays are provided by the WAIS server. I have
modified the WAIS indexing so that non-alphanumeric characters can be
used in searching.  For example you can search for the clone
"CR#L2-1".

The ACEDB WAIS database is also available through a Gopher server that
provides access to the Arabidopsis thaliana database AAtDB.

WAIS and Gopher use special client software on an Internet connected
computer to access the remote information server. Client software is
available for most types of personal and workstation computers, as
well as, mainframes. The WAIS software for Macintosh, Unix and NeXT is
available via Anonymous FTP from think.com. DOS, SunView and VMS
clients are available from samba.oit.unc.edu. A IBM RS6000 client are
available from ans.net. Gopher clients are available from
boombox.micro.umn.edu.  An excelent Macintosh client written by Don
Gilbert is called GopherApp and available from ftp.bio.indiana.edu in
the /util/gopher/gopherapp directory.

For a WAIS client just point to the host weeds.mgh.harvard.edu and the
database named is ACEDB. For a Gopher client just point to the host
weeds.mgh.harvard.edu.

A public account with access to the Arabidopsis Gopher server (which
includes the ACEDB WAIS) is provided by the Department of Molecular
Biology at Massachusetts General Hospital.  If the appropriate WAIS or
Gopher software cannot be obtained for your networked computer this
special account on ochre.mgh.harvard.edu will give you access. Simply
use the command "telnet ochre.mgh.harvard.edu" to connect with MGH,
username "gopher" and the password "thaliana". This public account
should provide a useful service to the large amount of biological
information that is becoming available via WAIS and Gopher. Sorry
there is no public modem access to this account. I recommend that you
obtain the client software for your computer so that files can be
retrieved and printed on your local system. The public gopher account
on Ochre does not allow files to be retrieved or printed.

A public access WAIS server that allows files to be retrieved and then
mailed is provided by Thinking Machines. Telnet to quake.think.com and
login with the username "wais".

Here is the specific information on the ACEDB servers:

WAIS:

(:source
   :version              3
   :ip-name              "weeds.mgh.harvard.edu"
   :ip-address           "132.183.190.21"
   :tcp-port             210
   :database-name        "ACEDB"
   :cost                 0.00
   :cost-unit            :free
   :maintainer           "curator at frodo.mgh.harvard.edu"
)


Gopher:

Name=ACEDB, A Caenorhabditis elegans Database
Type=7
Port=70
Path=7/.index/ACEDB
Host=weeds.mgh.harvard.edu


If you have questions or need more information about AAtDB or the
ACEDB WAIS server please do not hesitate to contact me.

Mike Cherry
cherry at frodo.mgh.harvard.edu



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