Worm Breeder's Gazette 14(4): 15 (October 1, 1996)

These abstracts should not be cited in bibliographies. Material contained herein should be treated as personal communication and should be cited as such only with the consent of the author.

JADE: a network access to the worm data

Danielle Thierry-Mieg1, Jean Thierry-Mieg1, Lincoln D. Stein2

1 CRBM CNRS, Montpellier, France, mieg@kaa.crbm.cnrs-mop.fr
2 Whitehead Institute/MIT, Boston, USA, lstein@genome.wi.mit.edu

As more and more data is being collected on the worm, and this
increase will hopefully keep growing, we thought it might be nice for
people to be able to access all the information stored in acedb or in
other servers from their PC or Mac or Unix station through the
network, without having to import the new releases and the entire
database at their own site.

A major breakthrough came in this year, with the advent of the Java
language, which guarantees portability of the displays on any platform
on which a small Java interpreter is loaded. In practice, you need
Netscape 2.0 or above. In this vein, we started the development of
Jade, a communication layer, connecting a collection of independent
displays written in Java to a central browser and to a collection of
database servers.

With some work on our side, the users could expect several kinds of

- gain in disk space and guarantee to work on the latest set of data

- transparent selection of the computer type, including small cheap

- choice of the display, among a growing variety of "reusable"
displays, written in Java by people eventually outside of the acedb
community. If you have seen or written such displays, please tell us,
we will try to connect them.

- capability to get data transparently from multiple servers, where
the data can be maintained by different people, either in acedb-like
object oriented databases or even in relational databases or from
simple files. This has presently been tested only for cereals
databases, but could be set up for the worm as well, thereby
partitioning the data collation work.

A prototype of Jade, presently showing only a simplified view of acedb
with only a few displays, can be browsed through Netscape at

Another server at http://genome.wustl.edu, maintained by Ladeana
Hillier, will soon show the exact state of the Saint Louis sequencing

In the long term, it should be possible, by connecting to a single
site, to get an integrated view of many such specialized databases,
displayed in your preferred view.

We will develop it further if you demonstrate some interest, so please