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From: [e-mail] (ACEDB FAQ Curator)
Newsgroups: bionet.software.acedb,news.answers
Subject: ACEDB Genome Database Software FAQ
Followup-To: bionet.software.acedb
Date: 8 Dec 1997 17:55:58 GMT
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Summary: Frequently Asked Questions about finding and getting started with the genome database software ACEDB.
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URL: http://probe.nalusda.gov:8000/acedocs/acedbfaq.html
Archive-name: acedb-faq
Last-modified: 8 Dec 97
Version: 1.40

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ACEDB FAQ

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Curated by: Dave Matthews
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Frequently Asked Questions about ACEDB

   * Q0 : What is ACEDB?
   * Q1 : ! What is the current version of ACEDB?
   * Q1.5 : + What's new in ACEDB 4_5?
   * Q2 : Where can I get ACEDB?
   * Q3 : ! What hardware/software do I need to run ACEDB?
   * Q4 : Can ACEDB be networked?
   * Q5 : What documentation exists for ACEDB?
   * Q6 : What newsgroups and mailing lists are available for ACEDB?
   * Q7 : Is there a repository of software tools for ACEDB curators?
   * Q8 : When and where is the next ACEDB Workshop?
   * Q9 : How does ACEDB compare to commercial relational DBMS's?
   * Q10 : How should ACEDB be cited?
   * Q11 : What ACEDB databases exist?
   * Q12 : Who prepared this document & where is the current version?

Questions marked with '+' are new, those with '!' have substantially changed
answers.
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Q0: What is ACEDB?

A0:

ACEDB is an acronym for A Caenorhabditis elegans Database. It can refer to a
database and data concerning the nematode C. elegans, or to the database
software alone. This document is concerned primarily with the latter
meaning. ACEDB is being adapted by many groups to organize molecular biology
data about the genomes of diverse species.

ACEDB allows for automatic cross-referencing of items during loading and
allows for hypertextual navigation of the links using a graphical user
interface and mouse. Certain special purpose graphical displays have been
integrated into the software. These reflect the needs of molecular
biologists in constructing genetic and physical maps of genomes.

ACEDB was written and developed by Richard Durbin (MRC LMB Cambridge,
England) and Jean Thierry-Mieg (CNRS, Montpellier, France), beginning in
1989. It is written in the C programming language and uses the X11 windowing
system to provide a platform independent graphical user interface. The
source code is publicly available. Durbin & Thierry-Mieg continue to develop
the system, with contributions from other groups.

A description by Durbin & Thierry-Mieg: ACEDB does not use an underlying
relational database schema, but a system we wrote ourselves in which data
are stored in objects that belong in classes. This is nevertheless a general
database management system using caches, session control, and a powerful
query language. Typical objects are clones, genes, alleles, papers,
sequences, etc. Each object is stored as a tree, following a hierarchical
structure for the class (called the "model"). Maps are derived from data
stored in tree objects, but precomputed and stored as tables for efficiency.
The system of models allows flexibility and efficiency of storage --missing
data are not stored. A major advantage is that the models can be extended
and refined without invalidating an existing database. Comments can be added
to any node of an object.

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Q1: What is the current version of the ACEDB software?

A1:

The current Unix version is ace.4_5d/e, released 28 August 1997.

Enhancements added during the ACE97 Workshop will be incorporated in the
next release.

The very latest development version is always available at
ftp://ftp.sanger.ac.uk/pub/acedb_src/. This is unsupported and not to be
redistributed.

The Windows 95/NT version 4.5.2, 15 August 1997, corresponds to Unix
test.ace.4_5c. For current information see the WinAce Web page at
http://mendel.medgen.ubc.ca/rbrusk/winace.html.

A Macintosh version is available as version 4.1b1, August 1995.

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Q1.5: What's new in ACEDB 4_5?

A1.5:

At present, all documentation on new ace4_5 features is in the Proceedings
of the ACE97 workshop.

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Q2: Where can I get ACEDB?

A2:

Source code and Unix binaries are available in the following anonymous ftp
sites:

   * ncbi.nlm.nih.gov in repository/acedb
   * ftp.sanger.ac.uk in pub/acedb
   * lirmm.lirmm.fr in pub/acedb
   * bioinformatics.weizmann.ac.il in pub/databases/acedb

Linux binaries in ELF and a.out format, from Jeff Bryer:

   * ncbi.nlm.nih.gov in repository/acedb
   * bioinformatics.weizmann.ac.il in pub/databases/acedb

NEC EWS4800 binaries:

   * http://www.labs.nec.co.jp/freesoft/freesofte.html

Windows 95/NT 3.51, from Richard Bruskiewich:

   * ftp.sanger.ac.uk in pub/winace
   * bioinformatics.weizmann.ac.il in pub/databases/acedb
   * Documentation: http://mendel.medgen.ubc.ca/rbrusk/winace.html

MacAce, from Frank Eeckman, Cyrus Harmon and Richard Durbin:
(Note: The authors are not currently able to support MacAce. Latest version
was 4.1b1.)

   * genome.lbl.gov in pub/macace
   * ncbi.nlm.nih.gov in repository/acedb/macace
   * bioinformatics.weizmann.ac.il in pub/databases/acedb

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Q3: What hardware/software do I need to run ACEDB?

A3:

The software is available in binary (pre-compiled) format for a variety of
machines.

   * Unix:
        o Sun/SunOS 4.x
        o Sun/Solaris
        o DEC DECstation3100, 5100 etc.
        o DEC Alpha/OSF-1
        o Silicon Graphics Iris series 4, 5, 6
        o IBM RS-6000
        o PC 386/486/Pentium with Linux
        o NEC EWS4800
        o NeXT: contact Patrick Phillips at University of Texas, NeXTmail:
          [e-mail] email: [e-mail]
        o There exist, or have existed, ports onto Alliant, Hewlett-
          Packard, Convex. You may have to contact the developer responsible
          for the port to make these real.
   * Windows 95/NT
   * Macintosh (not currently supported)

The software is also available as source code, so you may be able to get it
working on any machine.

Memory requirements (from Richard Durbin, aug 97)

The amount of memory you require for ACEDB depends very much on how big the
database is (i.e. the disk space used by the database/ subdirectory). Our
rule of thumb is that one typically uses 5-10Mb plus up to 10% of the disk
space size of the database. So with a 200Mb database perhaps 25Mb memory,
and with a 500Mb database (e.g. the C. elegans one) up to 50-60Mb. In fact
for short sessions less memory is used -- it is only when all classes are
explored, or for example when parsing big files that these amounts of memory
get used.

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Q4: Can ACEDB be networked?

A4:

ACEDB Client / Server Computing (from Doug Bigwood, aug97)

There are several client/server models for ACEDB computing and several more
are in development. The start of the ACEDB client/server age began with the
inclusion of aceclient and aceserver in version 4.0. These are C - based and
use the RPC protocol for communication. These executables can be made from
the standard ACEDB distributions.

Starting in version 4.5 an xaceclient is also included with ACEDB.
Xaceclient provides remote read/write access to an aceserver while providing
the user with the same X displays that are found in xace. To use it, you
create an empty database with the appropriate models and start xaceclient.
It will automatically retrieve data from the server declared in
wspec/server.wrm (the Montpellier server in the distribution server.wrm).
The data will be saved locally and can then be viewed with a normal xace.

A perl extension which provides aceclient functionality to Perl 5.x was
developed at ACE95. The files necessary for this perl extension are now
(ACEDB 4.5 and later) included in the wrpc directory of the ACEDB directory
hierarchy. Documentation about how to extend perl is found at
http://probe.nalusda.gov:8000/ace97/perlace/perlacecl.html.

WWWAce and its successor webace were developed to provide a World Wide Web
interface for ACEDB. Webace instructions can be found at
http://probe.nal.usda.gov:8000/acedocs/webace.html, and
http://probe.nal.usda.gov:8000/ace97/webace.html and the program itself at
ftp://probe.nalusda.gov/pub/tools/webace.tar.gz.

A Java-based client called Jade allows communication via sockets to an
aceserver. Jade installation instructions and information on downloading can
be found at http://probe.nalusda.gov:8000/ace97/Jade.installation.html.

There are now development efforts underway to provide additional
client/server functionality to ACEDB including a CORBA server and
socket-based communications. These will likely be included in future
versions of ACEDB. A new C library interface to ACEDB internals will greatly
ease the development of new clients and servers that will support additional
protocols.
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Q5: What documentation exists for ACEDB?

A5:

From Sam Cartinhour:
     The ACEDB Documentation Library is a repository for documentation
concerned with "A C. elegans Data Base", the generic genome database
software designed by Richard Durbin (MRC, UK) and Jean Thierry-Mieg (CNRS,
France). The server is intended as a resource for developers, curators, and
end-users of all (not just plant) databases derived from ace. The ACEDB
documentation server is sponsored by the Plant Genome Database Project at
the National Agricultural Library (USDA).

The WWW documentation server is part of the Agricultural Genome Information
System, at http://probe.nalusda.gov:8000/acedocs/. Documents in Postscript,
wordprocessor, and other non-html formats are available by ftp at
ftp://probe.nalusda.gov/pub/acedocs/. Information in the ACEDB Documentation
Library includes:

   * Primary documents from the developers Durbin & Thierry-Mieg, ca. 1992.
        o acedb -- A C. elegans Database: I. Users' Guide
        o acedb -- A C. elegans Database: II. Installation Guide
        o acedb -- A C. elegans Database: III. Configuration Guide
        o acedb -- A C. elegans Database: Syntactic Definitions for the
          ACEDB Data Base Manager
   * Tutorials, general and specific
   * Documentation written at the ACEDB Workshops
   * A repository of curator tools
   * A selection of models.wrm files from various databases
   * SampleDB, a sample database to demonstrate some ACEDB features, 1995
   * This FAQ, in html format

Other sources of documentation:

   * The ACEDB online help, a hypertext reader for the contents of the whelp
     directory of the ACEDB software distribution.
   * Contents of the wdoc, wtools, and wscripts directories.
   * Archives of the bionet.software.acedb newsgroup (both searchable)
        o http://www.bio.net/hypermail/ACEDB/, from BIOSCI
        o http://genome-www.stanford.edu/cgi-bin/biosci_acedb, from the
          Saccharomyces Genome Database site
   * ACEDB User's Guide in Japanese, from Tohru Sano, NEC,
     [e-mail],
     http://www.cbi.or.jp/~sano/. (Postscript at http://www.labs.nec.co.jp/
     . Follow the prompts to register and "download the software".)
   * Paper publications
        o Cherry, J.M., Cartinhour, S.W., and Goodman, H.M. (1992). AAtDB,
          an Arabidopsis thaliana database. Plant Molecular Biology Reporter
          10: 308-309, 409-410.
        o Cherry, J.M. and Cartinhour, S.W. (1994). ACEDB, A tool for
          biological information. Pp. 347-356 in: Automated DNA Sequencing
          and Analysis, M. Adams, C. Fields, and C. Venter (Eds.). Academic
          Press. Online version:
          http://probe.nalusda.gov:8000/acedocs/overview.html.
        o Dunham, I., Durbin, R., Mieg, J-T & Bentley, D.R. (1994). Physical
          mapping projects and ACEDB. Pp. 111-158 in: Guide to Human Genome
          Computing. Bishop, M.J (Ed.). Academic Press.

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Q6: What newsgroups and mailing lists are available for ACEDB?

A6:

The USENET/BIOSCI conference bionet.software.acedb is dedicated to
discussions of ACEDB. The newsgroup can be accessed via a newsreader like rn
or tin, a WWW browser (news:bionet.software.acedb), or e-mail. To subscribe
to the e-mail version, send the message "subscribe acedb" to
[e-mail]. Mail sent to [e-mail] will be
distributed to all subscribers and to the electronic conference.

Articles posted to biosci.software.acedb are archived by BIOSCI at
http://www.bio.net/archives.html and by Mike Cherry at
http://genome-www.stanford.edu/cgi-bin/biosci_acedb.

There is also a separate mailing list for announcements of new releases of
the ACEDB (worm) database as well as the ACEDB software. To get on or off
this mailing list send mail to [e-mail] or [e-mail].
The BIOSCI newsgroup is on this list.

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Q7 : Is there a repository of software tools for ACEDB curators?

A7:

Not really, but there are several partial ones. The main tools available are
for converting data from other formats to .ace format.

The Agricultural Genome Information System has a growing stock of useful
tools at http://probe.nalusda.gov:8000/acedocs/conversion.html. Some
additional ones were contributed at the ACE97 Workshop and can be found in
the Proceedings, http://probe.nalusda.gov:8000/ace97/tools/.

Mike Cherry maintains an archive of tools at
ftp://genome-ftp.stanford.edu/pub/acedb_dev/utilities/

For a general tool for converting data to ACEDB format input files, Joachim
Baumann ([e-mail]) has written the Perl
program TextConvert, available at ftp.informatic.uni.stuttgart.de/pub/DART/.

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Q8: When and where is the next ACEDB Workshop?

A8:

The next ACEDB meeting is planned for summer 1998 in England.

The ACE97 Conference and Workshop was held July 27 - August 9 at Cornell
University, Ithaca, New York, USA. See the ACE97 Proceedings Page,
http://probe.nalusda.gov:8000/ace97/proceedings.html for the results.

The Proceedings from the May 1995 ACEDB Conference are available at
http://probe.nalusda.gov:8000/acedocs/ace95/. A final summary report is
available at http://probe.nalusda.gov:8000/acedocs/ace95/ace95.final.html.
Also available online are collections of snapshots taken during the
conference by Frank Eeckman and by Dave Matthews.

For pictures of the ACEDB '94 Workshop in St. Matthieu de Treviers, see the
online collections:

   * by Mike Cherry at
     http://genome-www.stanford.edu/~cherry/pics/acedb-94.pics.html ;
   * by John Morris at http://weeds.mgh.harvard.edu/ace94/ace94.image.html ;
   * and by Brad Sherman at ftp://s27w007.pswfs.gov/ACEDB/ace94pix.html

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Q9: How does ACEDB compare to commercial relational DBMS's?

A9:

From Jean Thierry-Mieg, 4/97:

Obviously, i have a biased opinion, but i would say that acedb is to be
recommended if the following criteria are met:

1) A very complex schema, that cannot be developed at once, but will need
continuous refinement in parallel with the accumulation of the data

2) The type of questions that will be asked are rather complex, with rather
fuzzy answers, that one tries to refine progressively. The acedb browsing
capacities are useful in this case and have no equivalent in a relational
dbms

______________

I would rather recommend sybase in the following case

1) Simple schema, that can be designed from the start and does not contain
too many n.n relations and does not need recursivity

2) The type of questions that will be asked is: succession of de-correlated
simple questions with simple answers

____________________

Within this context, i would then list the following goodies of acedb:

1) The ace file format, which is a powerful system to prepare and exchange
data between data curators.

2) The existence of an easy graphic browsing interface

3) The availability of a biology-layer, if the application is about genetics

4) Portability (any unix machine), mac (with some limitations), windows (in
development) and price (ace is a freeware). This implies that you can
actually redistribute the complete system, say on a CD, something impossible
with sybase.

5) Ease of use, i seriously believe that ace is much easier to configure and
use than sybase.

_____________________

Finally one should consider the following question: concurrency.

Sybase has a well designed transaction system, which will allow roll backs
and refined lockings. This is essential for an application like a booking
agency, with many users in simultaneous write access.

Ace is much simpler minded. The graphic acedb creates a global lock allowing
a single user with write access at the time, and the modifications are not
echoed to the other "read access" users in real time.

The non graphic client server system allows parallel downloading of data by
many users, it is intended for example for collection of robots sending
their independent data in parallel. This is now well tested.

A graphic client system is being developed and now runs in our hands, but is
not yet released.

--

Therefore, if you do need real time simultaneous write access with partial
locks, and roll backs, use sybase/oracle

________________

Last issue is speed and quantities of data. In principle, sybase/oracle is
unlimited, whereas acedb needs to keep around 5-10% of the data in ram. But
this apparent difference is misleading.

On a 32 Meg machine, you can run ace with around 300.000 objects with a
complex schema at high speed. With say 1M objects, you will need more memory
or the performance would totally degrade because of swapping. However, this
is really a lot of data.

On a similar machine, your sybase oracle will work with that amount or more
data only if you do not perform too many joins. This implies that you are
asking simple questions from a simple schema which was indeed our first
criterion to choose sybase. If you start asking complex questions and make
joins, acedb is actually much more powerful.

During tests run on a big dec alpha server by Otto Ritter in decembre 1995
on several million biological objects with a complex schema, acedb was about
10 times faster than sybase, both to load the data and to answer queries.

I would therefore conclude that the quantity of data is not a criterion
pushing one way or the other, it is the complexity of the schema that
matters.

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Q10: How should ACEDB be cited?

A10:

From the distribution:
We realize that we have not yet published any "real" paper on ACEDB. We
consider however that anonymous ftp servers are a form of publication. We
would appreciate if users of ACEDB could quote:
Richard Durbin and Jean Thierry Mieg (1991-). A C. elegans Database.
Documentation, code and data available from anonymous FTP servers at
lirmm.lirmm.fr, cele.mrc-lmb.cam.ac.uk and ncbi.nlm.nih.gov.

Papers involved in database development could quote more precisely:
I. Users' Guide. Included as part of the ACEDB distribution kit,
II. Installation Guide. Included as part of the ACEDB distribution
III. Configuration Guide. Included as part of the ACEDB distribution
and the preprintkit available via anonymous ftp. Jean Thierry-Mieg and
Richard Durbin (1992). Syntactic Definitions for the ACEDB Data Base
Manager. Included as part of the ACEDB distribution.

--Jean and Richard.

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Q11: What ACEDB databases exist?

A11:

In alphabetic order by Database name

[Curators, please submit changes as new paragraphs. You may include html
links.]

A repository of many of these databases is maintained by the Agricultural
Genome Information System, both for anonymous ftp at
ftp://probe.nalusda.gov/pub and for WWW access via Webace at
http://probe.nalusda.gov:8000/alldbs.html.

Database : AaeDB
Species : Aedes aegypti (yellow fever mosquito)
ACEDB_version : 4.3
WWW : http://klab.agsci.colostate.edu/
Curator : Dennis Knudson, [e-mail]
Co-Curator : Dave Severson, [e-mail]
Co-Curator : Leonard Munstermann, [e-mail]
Contact : [e-mail]
Data_updated : regularly
FAQ_updated : April 1997

Database : AalDB
Species : Aedes albopictus (Asian tiger (forest day) mosquito)
ACEDB_version : 4.3
WWW : http://klab.agsci.colostate.edu/
Curator : Dennis Knudson, [e-mail]
Co-Curator : Dave Severson, [e-mail]
Co-Curator : Leonard Munstermann, [e-mail]
Contact : [e-mail]
Data_updated : regularly
FAQ_updated : April 1997

Database : ACeDB
Species : Caenorhabditis elegans
Current version: 4-8
Curator : Jean Thierry-Mieg, [e-mail]
Curator : Richard Durbin, [e-mail]
Curator : Sylvia Martinelli, [e-mail]
Availability: Unix and Macintosh versions via anonymous ftp
FTP: USA - ncbi.nlm.nih.gov in repository/acedb
FTP: England - ftp.sanger.ac.uk in pub/acedb
FTP: France - lirmm.lirmm.fr in genome/acedb
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/other/
FAQ_updated : August 1995

Database : aCHEdb
Species : wide range of species
Subject : alpha/beta fold family of proteins database ESTHER. Sequences
phylogenetically related to cholinesterases (alpha/beta hydrolase,
carboxylesterases, lipases, adhesion molecules.)
Comment : Converted to ACEDB from the original ESTHER database.
ACEDB_version : UNIX 4.5, MacAce 4.0b4
Data_version : August 1997
Curator : Xavier Cousin - [e-mail]
Curator : Thierry Hotelier - [e-mail]
Curator : Arnaud Chatonnet - [e-mail]
Contact : [e-mail]
Availability: Unix and Macintosh versions via anonymous ftp
FTP: ftp://ftp.toulouse.inra.fr in pub/esther
WWW : http://www.ensam.inra.fr/cholinesterase
FAQ_updated : September 1997

Database : AgaDB
Species : Anopheles gambiae (malaria mosquito)
ACEDB_version : 4.3
WWW : http://klab.agsci.colostate.edu/
Curator : Dennis Knudson, [e-mail]
Co-Curator : Dave Severson, [e-mail]
Co-Curator : Leonard Munstermann, [e-mail]
Contact : [e-mail]
Data_updated : regularly
FAQ_updated : April 1997

Database : AGsDB (A Genus species Database)
Species : Aspergillus nidulans
Species : Neurospora crassa
Species : Bos taurus (cow)
Species : Homo sapiens anchor loci
Species : Gossypium hirsutum (cotton)
Species : Neurospora crassa
Species : Homologs of Aspergillus cell cycle loci for budding and fission
yeast
Curator : Leland Ellis, [e-mail]
ACeDB_version : 3.0
Subject: Contains extensions to the Human C21 Models to provide for multiple
species, and queries between species via Homologs (e.g., cell cycle loci
with links via Homologs between Aspergillus and budding C. cerevisiae) and
fission (S. pombe yeast); interacting loci via defined Interactions for each
locus Revision : AAnDB for Aspergillus nidulans and ABtDB for Bos taurus
(cow) have been folded into AGsDB, and are not being developed futher as
individual species databases.
WWW : http://keck.tamu.edu/cgi/agsdb/agsdbserver.html FTP:
ftp://keck.tamu.edu/pub/agsdb/agsdb1_0_acedb3_0_solaris2.3.tar.Z
FAQ_updated : March 1994

Database : Alfagenes
Species : Medicago sativa (alfalfa)
Curator : D. Z. Skinner, [e-mail]
Telephone : [phone]
ACEDB_version : 3.0
FTP : probe.nalusda.gov in pub/alfagenes
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
FAQ_updated : July 1995

Database : AnoDB
Species : Anopheles sp.
ACEDB_version : 4.5
WWW : http://konops.imbb.forth.gr/AnoDB/
Curator : Christos Louis, [e-mail]
Co-Curator : Pantelis Topalis, [e-mail]
Contact : [e-mail]
Data_updated : regularly
FAQ_updated : August 1997

Database : AtDB
Species : Arabidopsis thaliana
ACEDB_version : UNIX 4.3, MacAce 4.0b4
Data_version : 4-7
PI : J. Michael Cherry
Curator : David Flanders
Contact : [e-mail]
Availability : UNIX and Macintosh versions via anonymous ftp
FTP : genome-ftp.stanford.edu in arabidopsis/AtDB
FTP : ncbi.nlm.nih.gov in repository/AtDB
WWW : http://genome-www.stanford.edu
FAQ_updated : December 1996

Database : AtrDB
Species : Aedes triseriatus (Eastern tree hole mosquito)
ACEDB_version : 4.3
WWW : http://klab.agsci.colostate.edu/
Curator : Dennis Knudson, [e-mail]
Co-Curator : Dave Severson, [e-mail]
Co-Curator : Leonard Munstermann, [e-mail]
Contact : [e-mail]
Data_updated : regularly
FAQ_updated : April 1997

Database : BeanGenes
Species : Phaseolus and Vigna
Curator : Phillip E. McClean, [e-mail]
ACEDB_version : 4.1
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
FAQ_updated : September 1995

Database : BrassicaDB
Species : Brassica napus (Canola/Oilseed Rape) and its parental diploid
species
ACEDB_version : 4.3
Description : Genetic maps of Brassica napus, QTL analyses for agronomic
traits, literature references and B. napus-specific DNA sequences will be
incorporated. We aim to integrate with B. napus genetic maps developed
elsewhere and to produce a Java interface that will link BrassicaDB with the
AAtDB (Arabidopsis thaliana) database through gene orthologies that are
becoming established between these closely related plant genomes.
PI : Martin Trick, [e-mail]
Curator/Developer : Mazda Hewitt, [e-mail]
WWW : http://synteny.nott.ac.uk/brassica.html
Data_updated : Under development
FAQ_updated : August 1997

Database : ChlamyDB
Species : Chlamydomonas
Curator : Elizabeth Harris
Contact : [e-mail]
ACEDB_version : 3.0
Data_version : 1.2
Availability : Macintosh and UNIX versions via anonymous ftp
FTP : probe.nalusda.gov in pub/chlamydb
Gopher : ftp.duke.edu/11/pub/chlamy
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
FAQ_updated : August 1995

Database : CIMMYT (Wheat International Nursery Data)
Species : Triticum spp.
ACEDB_version : 4.0
Curator : Hector Sanchez, [e-mail]
FTP : probe.nalusda.gov in pub/cimmyt
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/related/
FAQ_updated : September 1995

Database : CoolGenes
Species : Cool Season Food Legumes; Pisum, Lens, Cicer, Lathyrus, Vicia faba
Curator : Fred Muehlbauer, [e-mail]
ACEDB_version : 3.0
Gopher : gopher://probe.nalusda.gov:7000/11/genome.databases/coolgenes/
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
FAQ_updated : January 1996

Database : CottonDB
Species : Gossypium hirsutum (cotton) and related species
PI : Russell J. Kohel ([e-mail]), USDA-ARS, Southern Crops
Research Laboratory, 2765 F&B Road, College Station, Texas 77845
Curator : Gerard R. Lazo, [e-mail]
Curator : Sridhar Madhavan, [e-mail]
Phone : [phone]
Fax : [phone]
ACEDB_version : 3.0
Data_version : January 1995 (version 95.1)
FTP : probe.nalusda.gov in pub/cottondb
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
Data_submission_form : http://algodon.tamu.edu/
FAQ_updated : January 1995

Database: Cruzdb
Species: Trypanosoma cruzi
PI: Wim Degrave
ACEDB_version: 4.3
Curator: Martin Aslett
Contact: Martin Aslett, [e-mail]
FTP: (when available) ftp.ebi.ac.uk/pub/databases/parasites/cruzi/
WWW: http://www.ebi.ac.uk/parasites/parasite-genome.html
Data_updated : In development
FAQ_updated : November 1996

Database : CSNDB
Focus : Cell Signaling Networks
Species : human
Curator : Takako Igarashi, [e-mail]
Curator : Tsuguchika Kaminuma, [e-mail]
Assistant_Curator : Masumi Yukawa, [e-mail]
Assistant_Curator : Shikiko Hasegawa, [e-mail]
Contact : Takako Igarashi, [e-mail]
ACeDB_version : 4.1
Data : molecular data of signal molecules, molecular data of signal
transductions, signal transduction pathways, domain structure and function
of signal molecules, and three dimensional structures of signal molecules.
Availability : CSNDB is on WWW. WWW-browser is required to attach molecular
viewer RasMol (ftp: colonsay.dcs.ed.ac.uk ) for displaying three dimensional
structure of protein.
WWW : http://geo.nihs.go.jp/csndb.html

Database : CupDB
Species : Culex pipiens
ACEDB_version : 4.3
WWW : currently unavailable via www
Curator : Dennis Knudson, [e-mail]
Co-Curator : Dave Severson, [e-mail]
Co-Curator : Leonard Munstermann, [e-mail]
Contact : [e-mail]
Data_updated : regularly
FAQ_updated : April 1997

Database : Cyanoace
Species : Cyanobacterium synechocystis sp. strain PCC6803
Developer : Nobuyuki Miyajima, [e-mail]
Comment : Converted to ACEDB from Sybase
FTP : ftp://ftp.kazusa.or.jp/pub/acedb/cyanoace/
WWW : http://www.kazusa.or.jp/cyanobase/
Remark : WWW interface uses Java enhanced clickable maps.
FAQ_updated : December 1996

Database : EthnobotDB (worldwide plant uses)
Species : wide range of plant species
ACEDB_version : 4.0
Comment : Converted to ACEDB from the original SQL database.
Curator : Stephen M. Beckstrom-Sternberg, [e-mail]
Curator : James A. Duke, [e-mail]
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/related/
FAQ_updated : June 1995

Database: FilDB
Species: Filarial nematodes
PI: Mark Blaxter
ACEDB_version: 4.3
Curator: Martin Aslett
Contact: Mark Blaxter, [e-mail]
Contact: Martin Aslett, [e-mail]
FTP: (when available) ftp.ebi.ac.uk/pub/databases/parasites/Brugia
WWW: http://helios.bto.ed.ac.uk/mbx/fgn/filgen.html
WWW: http://www.ebi.ac.uk/parasites/parasite-genome.html
Data_updated: In development
FAQ_updated : November 1996

Database : FoodplantDB (Native American Food Plants)
Species : Over 1,100 plant species
ACEDB_version : 4.0
Curator : Stephen M. Beckstrom-Sternberg, [e-mail]
Curator : James A. Duke, [e-mail]
Comment : Converted to ACEDB from ORACLE.
Comment : Data originally from a publication by Yanovsky, Elias. 1936. Food
Plants of the North American Indians. USDA Miscellaneous Publication Number
237.
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/related/
FAQ_updated : May 1995

Database : GrainGenes
Species : Wheat, barley, oats, sugarcane, relatives
Curator : David E. Matthews, [e-mail]
Curator : Gerard R. Lazo, [e-mail]
PI : Olin D. Anderson, [e-mail]
ACEDB_version : 4_3 (Unix), 4.1b1 (MacAce)
Data_version : 1.7, December 1996
Availability : UNIX and Macintosh versions via anonymous ftp
Availability : Macintosh version on CD-ROM "RiceMac / MacGrainGenes", from
Dr. Baek Hie Nahm, Korea Rice Genome Research Program, Myongji University,
Yongin, Korea.
FTP : probe.nalusda.gov in pub/graingenes
FTP : grain.jouy.inra.fr in pub/database
Gopher : greengenes.cit.cornell.edu
Gopher : grain.jouy.inra.fr
Gopher : probe.nalusda.gov:7002
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
WWW : http://wheat.pw.usda.gov/
WWW : http://grain.jouy.inra.fr
Data_updated : December 1996
FAQ_updated : December 1996

Database : IGD (Integrated Genomic Database)
Species : Homo sapiens
Subject : Chromosome 21
Availability : September 1994 by ftp, on-line server October 1994
Contact : Otto Ritter, [e-mail]
Contact : Jean Thierry-Mieg, [e-mail]
Contact : Nicole Creau-Goldberg, [e-mail]
Contact : Jean-Maurice Delabar, [e-mail]
Description : IGD (Integrated Genomic Database) aims to integrate multiple
public general molecular biology and human genome specific databases into
single logical database with unified interface to existing analysis tools.
From data produced by the 4th International Workshop on Chromosome 21
(Genomics,1993,18,735-744) and from data provided by or taken from the
following databases and data repositories: GDB, OMIM, EMBL, CEPH, Genethon,
UKProbeBank, and RLDB.

Database : IXDB (Integrated X chromosome DataBase)
Species: Homo sapiens
Subject: Chromosome X
Acedb_version : 4.1
Data: The YAC map constructed by the Max-Planck-Institut fuer Molekulare
Genetik in Berlin, with all the attached experimental data necessary to
reconstruct the map. Information on each of 9000 YAC clones mapped to the X
chromosome, and constituting the YAC collection assembled with clone sets
from 14 different laboratories worldwide.
Latest_release:March 1996
Curator: Hugues Roest Crollius, [e-mail]
Contact: Ulf Leser, [e-mail]
PI: Hans Lehrach
FTP: ftp.mpimg-berlin-dahlem.mpg.de in directory pub/lehrach/x-map
WWW: http://www.mpimg-berlin-dahlem.mpg.de/~xteam

Database: Leishdb
Species: Leishmania major, L. infantum, L. peruviana, L. donovani and others
PI: Jennie Blackwell
PI: Al Ivens
ACEDB_version: 4.3
Curator: Martin Aslett
Contact: Martin Aslett, [e-mail]
FTP: ftp.ebi.ac.uk/pub/databases/parasites/Leish
WWW: http://www.ebi.ac.uk/parasites/parasite-genome.html
WWW: http://www.ebi.ac.uk/parasites/leish/leishpage.html (in development)
Data_updated: October 1996
FAQ_updated : November 1996

Database : LIGM-DB
Curator : Veronique Giudicelli
Focus : genetic and physical mapping of loci of Immunoglobulins and Tcell
receptors
PI : Marie-Paule Lefranc
Contact : Veronique Giudicelli, LIGM IGMM UMR CNRS 9942, BP 5051 Rte de
Mende, 34000 Montpellier, [e-mail]

Database : MaizeDB
Species : Zea mays L. ssp. mays and related species
Content : Maps, raw map data, loci, probes, genetic stocks, variations,
mutant images, agronomic traits, gene products, QTL, bibliography, colleague
addresses; hardlinks to sequence and germplasm databases.
Latest_release : Oct 1996
Acedb_version : 4.1
Curator : Mary Polacco, [e-mail]
PI : Ed Coe, Jr., [e-mail]
Systems : Denis Hancock, [e-mail]
FTP : probe.nalusda.gov/pub/maizedb/macedist961001.tar.gz
WWW : http://www.agron.missouri.edu
WEBACE : http://probe.nalusda.gov:8300/
Contact : [e-mail]
Comment : Data are periodically extracted into ACEDB format from Sybase
Comment : Genera software used to maintain the Sybase database and its
gateways, except for ACEDB
Comment : ACEDB releases are announced on the MAIZE bulletin board;
http://www.bio.net/hypermail/MAIZE/
Comment : WEBACE records are hardlinked to the Sybase server where data are
curated
Funding : USDA ARS Plant Genome Research Program
FAQ_updated : Mar 7, 1997

Database : Mendel (plant wide gene names)
Species : wide range of plant species
Subject : standardized designations for sequenced genes
Comment : The purpose is to provide a common system of nomenclature for
substantially similar genes across the plant kingdom. Mendel is maintained
by the Commission on Plant Gene Nomenclature.
ACEDB_version : 4.0
Curator : Carl Price, [e-mail]
Curator : Ellen Reardon, [e-mail]
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/related/
FAQ_updated : July 1995

Database : Millet Genes
Species : Pennisetum glaucum (Pearl Millet)
ACEDB_version : 4.3
Curator : Matt Couchman, [e-mail]
PI : Katrien Devos, [e-mail]
FTP: ftp://jiio5.jic.bbsrc.ac.uk/pub/millet
WWW : http://synteny.nott.ac.uk/millet.html
WWW : http://jiio5.jic.bbsrc.ac.uk:8000/index.shtml
WWW : http://probe.nalusda.gov:8300/plant/
FAQ_updated : March 1997

DataBase : Mousedb
Species : Mus Musculus
Species : Homo Sapiens
ACEDB_version : 3.0 with extensions to define and display cytogenetic data.
Description : Mouse genome data from the published literature, including
mouse genes with phenotypic effects, chromosome anomalies, imprinted regions
and man-mouse homologies with associated pathological disorders. The maps
are consensus ones. They use data, such as the HIS and anomaly data, to show
alignments between the genetic and cytogenetic maps.
Curator : Rachael Selley, [e-mail]
PI : Mary Lyon
PI : Jo Peters
Availability : Mousedb is available publicly from the UK HGMP Resource
Centre's computing service via the INTERNET. For user id. please contact
Administration, HGMP Resource Centre, Hinxton Hall, Cambridgeshire CB10 1RQ,
UK.
Tel: [phone] Fax: [phone]
Contact : Rachael Selley, MRC Radiobiology Unit, Chilton, Didcot, Oxon OX11
ORD
FAQ_updated : July 1995

Database : MPNADB (Medicinal Plants of Native America)
Species : Over 2,100 plant species
Curator : Daniel E. Moerman, [e-mail]
Curator : Stephen M. Beckstrom-Sternberg, [e-mail] - ACEDB version

Comment : MPNADB is based on a two-volume book of the same name published in
1986 by the Museum of Anthropology of the University of Michigan. MPNADB was
first developed at the University of Michigan in DBase II.
ACEDB_version : 4.0
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/related/
FAQ_updated : June 1995

Database : MsqDB
Species : Interspecies Mosquito database
ACEDB_version : 4.3
WWW : http://klab.agsci.colostate.edu/
Curator : Dennis Knudson, [e-mail]
Co-Curator : Dave Severson, [e-mail]
Co-Curator : Leonard Munstermann, [e-mail]
Contact : [e-mail]
Data_updated : regularly
FAQ_updated : April 1997

Database : MycDB
Species : Mycobacteria
Comment : MycDB is a collation of data on the mycobacteria, causative agents
of tuberculosis and leprosy. It is centered on the mapping and sequencing
projects under way in M.leprae and M.tuberculosis.
Curator : Staffan Bergh, [e-mail]
Curator : Stewart Cole, [e-mail]
ACEDB_version : 4.3
Data_version : 4-22 (December 1996)
FTP : www.biochem.kth.se (130.237.52.64) in pub/MycDB
FTP : ftp.pasteur.fr (157.99.64.12) in pub/MycDB
FTP : bioinformatics.weizmann.ac.il (132.76.55.12) in
pub/databases/acedb/mycdb
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://www.biochem.kth.se/MycDB.html
WWW : http://probe.nalusda.gov:8300/other/
FAQ_updated : December 1996

Database : OMIA (Online Mendelian Inheritance in Animals)
Species : wide range of animal species
Subject : gene and phene (familial trait or phenotype) information
Comment : MIA is modeled after Victor McKusick's Mendelian Inheritance in
Man (MIM) database and was developed at the University of Sydney, Australia,
in Advanced Revelation.
Curator : Frank Nicholas, [e-mail]
ACEDB_version : 4.0
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/animal/
WWW : http://morgan.angis.su.oz.au/BIRX/phenes_form.html
FAQ_updated : September 1995

Database : PhytochemDB (Plant Chemicals)
Species : wide range of plant species
Subject : Consists primarily of plant chemical data, including quantity,
taxonomic occurrence, and chemical activity.
Comment : Converted to ACEDB from the original SQL database.
ACEDB_version : 4.0
Data_version : July 1994
Curator : Stephen M. Beckstrom-Sternberg, [e-mail]
Curator : James A. Duke, [e-mail]
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/related/
FAQ_updated : June 1995

Database : PomBase
Curator : Sean Walsh, [e-mail]
Curator : Marie-Adele Rajendream
PI : Bart Barrell, [e-mail]
Species : Schizosaccharomyces pombe
ACEDB_version : 4.1
FTP : ftp.sanger.ac.uk in pub/PomBase
FAQ_updated : September 1995

Database : PVP (Plant Variety Protection)
Species : Glycine max (soybeans)
Subject : Data about plant varieties that have been granted a Certificate of
Protection by the Plant Variety Protection Office.
Curator : Stephen M. Beckstrom-Sternberg, [e-mail] - ACEDB
version
ACEDB_version : 4.0
Contact: The Plant Variety Protection Office, Room. 500, National
Agriculture Library, 10301 Baltimore Blvd., Beltsville, Maryland 20705
Telephone : [phone]
Fax : [phone]
Email : Jeff Strachan, [e-mail]
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/related/
FAQ_updated : June 1995

Database : Receptor Database
Species : all
Curator : Kotoko Nakata, [e-mail]
Co-Curator : Takako Igarashi, [e-mail]
Co-Curator : Tsuguchika Kaminuma, [e-mail]
Contact : Kotoko Nakata, [e-mail]
ACeDB_version : 4.1
WWW : http://impact.nihs.go.jp/RDB.html
Data_updated : regularly
FAQ_updated : October 1997

Database : RiceGenes
Species : Oryza sativa
Curator : Edie Paul, [e-mail]
PI : Susan McCouch
ACEDB_version : 4.1
FTP : probe.nalusda.gov in pub/ricegenes
Gopher : nightshade.cit.cornell.edu
Gopher : probe.nalusda.gov:7007
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
FAQ_updated : November 1996

Database : SacchDB
Species : Saccharomyces cerevisiae
Subject : Budding (common baker's) Yeast Genome
ACEDB_version : UNIX 4.3, MacAce 4.0b4
Data_version : 4.6
Data : All Saccharomyces genes contained in the Registry of Gene Names.
Results of the completed chromosomal sequencing projects have been
integrated into the database. Physical Maps based on DNA sequencing
projects, hybridization to the Olson/Riles prime filter grids, and
restriction mapping. For the completely sequenced chromosomes the Olson
prime clones have been re-mapped (on the computer) to the DNA sequence.
Saccharomyces DNA sequences contained within GenBank are incorporated.
Literature references, most including abstracts, for the information
contained within the database. Gene protein product information obtained
from the YPD database (Garrels and Latter, CSHL) and the literature. Genetic
Maps including the underlying two point tetrad data. Including all tetrad
data reported in previous additions of the Mortimer Yeast Maps.
FTP : genome-ftp.stanford.edu in pub/yeast/SacchDB
FTP : ncbi.nlm.nih.gov in repository/SacchDB
WWW : http://genome-www.stanford.edu/
Funding : National Center for Human Genome Research, NIH
PI : David Botstein, [e-mail]
Project Manager/Curator : Mike Cherry, [e-mail]
Curator : Selena Dwight, [e-mail]
Curator : Cathy Ball, [e-mail]
Curator : Caroline Adler, [e-mail]
Curator : Yankai Jia, [e-mail]
Programmer : Gail Juvik, [e-mail]
Programmer : Shuai Weng, [e-mail]
Sys. Admin : Mark Schroeder, [e-mail]
Contact : [e-mail]
Data_Submission : [e-mail]
FAQ_updated : September 1996

Database: SchistoDB
Species: Schistosoma mansoni (plus other schistosomes)
PI: David Johnston
ACEDB_version: 4.3
Curator: Martin Aslett
Contact: Martin Aslett, [e-mail]
FTP: (when available) ftp.ebi.ac.uk/pub/databases/parasites/Schisto/
WWW: http://www.ebi.ac.uk/parasites/parasite-genome.html
Data_updated: In development
FAQ_updated : November 1996

Database : SolGenes
Subject : Solanaceae - tomato, potato, pepper
Curator : Sam Beer, [e-mail]
PI : none currently
Release : ACEDB 4.3
FTP : probe.nalusda.gov in pub/solgenes
Gopher : nightshade.cit.cornell.edu:71
Gopher : probe.nalusda.gov:7006
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
Data_updated : May 1997
FAQ_updated : May 1997

Database : SorghumDB
Species : Sorghum bicolor (L.) Moench
PI : Keith F. Schertz, [e-mail]
USDA-ARS, Dept. of Soil & Crop Sciences, Texas A&M University, College
Station, TX 77843-2474
Phone : [phone]
FAX : [phone]
Curator : Najeeb U. Siddiqui, [e-mail]
Southern Crop Improvement Facility, Crop Biotechnology Center, Texas A&M
University, College Station, TX 77843-2123
Phone : [phone]
FAX : [phone]
ACEDB_version : 3.0
Data_version : 2.0
FTP : probe.nalusda.gov in pub/sorghumdb
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
FAQ_updated : September 1995

Database : SoyBase
Species : Glycine max (Soybeans) and related species
PI : Randy Shoemaker, [e-mail]
Curator : David Grant, [e-mail]
Assistant_curator : Marica Imsamde, [e-mail]
Contact : David Grant, [e-mail]
ACEDB-Version : 3.7
FTP : probe.nalusda.gov in pub/soybase
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
WWW : http://macgrant.agron.iastate.edu
FAQ_updated : October 1995

Database : Syndb
Species : Homo sapiens, Mus musculus
Subject : STS content mapping & directed sequencing of Human Chromosomes
21,5 with Mouse for syntenic comparison
ACEDB_version : acedb v3.3 plus moulon server
FTP : genome.lbl.gov in pub/acedb/
WWW : http://genome.lbl.gov/Genome/acepage.html
Curator : Donn F. Davy, [e-mail]
Contact : Arun K. Aggarwal, [e-mail]
PI : Michael Palazzolo
PI : Chris Martin
PI : Jan-Fang Cheng, [e-mail]
FAQ_updated : October 1994

Database: ToxoDB
Species: Toxoplasma gondii
PI: David Sibley
PI: David Roos
PI: Jim Ajioka
ACEDB_version: 4.3
Curator: Martin Aslett
Contact: Martin Aslett, [e-mail]
FTP: ftp.ebi.ac.uk/pub/databases/parasites/Toxo/
WWW: http://www.ebi.ac.uk/parasites/parasite-genome.html
WWW: http://www.ebi.ac.uk/parasites/toxo/toxpage.html
Data_updated: October 1996
FAQ_updated: November 1996

Database : TreeGenes
Species : Forest trees
ACEDB_version : 4.3
Curator : Bradley K. Sherman, [e-mail]
PI : David B. Neale, [e-mail]
Contact : [e-mail]
FTP : probe.nalusda.gov in /pub/treegenes
Gopher : s27w007.pswfs.gov/
Gopher : probe.nalusda.gov:7508/
Gopher : probe.nalusda.gov:7000/11/genome.databases/
WWW : http://probe.nalusda.gov:8300/plant/
WWW : http://s27w007.pswfs.gov/
FAQ_updated : May 1996

Database: Trypbase
Species: Trypanosoma brucei
PI: Sara Melville
ACEDB_version: 4.3
Curator: Howard Cobb
Curator: Martin Aslett
Contact: Sara Melville, [e-mail]
Contact: Martin Aslett, [e-mail]
FTP: ftp.ebi.ac.uk/pub/databases/parasites/brucei
WWW: http://parsun1.path.cam.ac.uk/newtryp/toppage.htm
WWW: http://www.ebi.ac.uk/parasites/parasite-genome.html
Data_updated: October 1996
FAQ_updated: November 1996

Database : 21Bdb
Species : Homo sapiens
Subject : STS content mapping and sequencing of Human Chromosome 21
ACEDB_version : acedb.1-10 plus moulon server
Curator : Donn F. Davy, [e-mail]
Contact : Arun K. Aggarwal, [e-mail]
PI : Michael Palazzolo
PI : Chris Martin
PI : Jan-Fang Cheng, [e-mail]
FTP : ftp://genome.lbl.gov in pub/acedb/
WWW : http://genome.lbl.gov/Genome/acepage.html
FAQ_updated : April 1994

Database : 11Db
Species : Homo sapiens
Subject : Physical and Genetic mapping of Human Chromosome 11 Description :
11Db attempts to show as full a picture as possible of the genetic and
physical maps of Human Chromosome 11. It has two new displays, one which
attempts to integrate as much of the mapping data as possible using minimal
intervals, and one which displays YAC Contigs downloaded from SEGMAP
datafiles.
Contact : Benedict Arnold ([e-mail])
PI : Peter Little ([e-mail])
ACEDB_version : based on 4_1 with added map displays.
ACEDB_version : based on 3_6 with added map displays.
Data version : 1.0
Last Update : December 1995
WWW : http://chr11.bc.ic.ac.uk
FTP : ftp.cc.ic.ac.uk
Description : 11Db attempts to show as full a picture as possible of the
genetic and physical maps of Human Chromosome 11. It has two new displays,
one which attempts to integrate as much of the mapping data as possible
using minimal intervals, and one which displays YAC Contigs downloaded from
SEGMAP datafiles.

Database : 22ace
Species : Homo sapiens
Subject : Physical map of human chromosome 22, genomic sequencing and more
ACEDB_version : 4.1
Curator : Ian Dunham, [e-mail]
Curator : Gareth Maslen, [e-mail]
PI : Ian Dunham
FTP : ftp.sanger.ac.uk in pub/human/chr22/physical_map/
WWW : http://www.sanger.ac.uk/hum22/
FAQ_updated : August 1995

Database : VoxPop
Species : Populus species
Curator : Carl G. Riches, [e-mail]
PI : Reinhard F. Stettler, [e-mail]
ACEDB_version : 1.9
FTP : poplar1.cfr.washington.edu in /pub/
Gopher : poplar1.crf.washington.edu

Return to List of Questions
----------------------------------------------------------------------------

Q12:Who prepared this document & where is the current version?

A12:

This document is posted monthly to the BIOSCI newsgroup
bionet.software.acedb and to USENET conference news.answers. It is intended
to be used as an index to ACEDB databases and to information about the
database software.

The WWW version of this document is at:
http://probe.nalusda.gov:8000/acedocs/acedbfaq.html

A text version is available via anonymous ftp at machine rtfm.mit.edu as
pub/usenet/news.answers/acedb-faq. If you only have electronic mail, the FAQ
can be retrieved from [e-mail].

Curators of ACEDB databases should take note of Question 4 and keep me
apprised of changes.

Errors of commission or omission are unintentional. If I have forgotten to
give you credit please let me know. Please send comments and corrections to:
[e-mail]

This FAQ was created and maintained from 1993 - 1996 by Bradley K. Sherman.
Major contributions in getting it off the ground were made by Mike Cherry,
John McCarthy, and Doug Bigwood. Other contributors include:

   * Lisa Lorenzen
   * David Matthews
   * Edie Paul
   * Donn Davy
   * Eric De Mund
   * Sam Cartinhour

It is currently maintained by Dave Matthews.

Please cite as:
Matthews, D.E., and B.K. Sherman, ACEDB Genome Database Software FAQ,
ftp://rtfm.mit.edu/pub/usenet/news.answers/acedb-faq,
http://probe.nalusda.gov:8000/acedocs/acedbfaq.html, 1993-1997, approx. 70K
bytes.

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