Java applet for presentation of knowledges on genetic
networks.
The essential progress in study of the molecular mechanisms
of organisms individual development results in discovery of
a hundreds genes, which sole function consist in the control
and regulation of other genes activity. These genes comprise
so called "genetic networks".
As the genes networks consist of tens of genes involved in
complex regulatory interactions it is necessary to develop a
special tools for their graphical presentation.
We develop Java applet for graphical presentation of information on
gap genetic network in fruit fly Drosophila melanogaster.
Our program (http://www.csa.ru/Inst/gorb_dep/inbios/genet/Graph/genes.html)
represents genes as rectangles. The interacting genes are connected
by arrows. Clicking on gene leads to its activation and bringing out
its relations with other genes. Red arrows connect gene with upstream
genes of network, blue arrows - with downstream genes. Filled and hollow arrows reflect the
mode of gene action - activation and repression correspondingly.
It is possible to drag genes for better visualization of links
between them.
In parallel to emphasizing the links clicking on gene activates
the appearance of lists of upstream and downstream genes in pop-up menu windows. These genes are linked
to GeNet database (http://www.csa.ru/Inst/gorb_dep/inbios/genet/genet.htm) entries, containing the information about
them. Thus the selection of the gene from the menu calls out the information about it.
Special filters permit selective visualization of the
interaction of genes controlling different parts of the embryo body.
The applet source code is available.
We highly appreciate any suggestions and comments.
Maria Samsonova
Bioinformation Systems Laboratory
Institute of High-Performance Computing
and Databases
St.Petersburg, Russia
e-mail samson at fn.csa.ruhttp://www.csa.ru/Inst/gorb_dep/inbios/lab.htm
\subsection {Development of tools for presentation of knowledge on gene
networks}
The essential progress in
study of the molecular mechanisms of organisms individual
development results in discovery of a hundreds genes, which sole function
consist in the control and regulation of other genes
activity. These genes comprise so called "genes networks".
Gene networks
serve to orchestrate the genome activity during embryo
development.
As the genes networks consist of tens of genes involved in
complex regulatory interactions it is necessary to develop a
special tools for their graphical presentation. We design such
a tool using Java programming language.
Our program (http://www.csa.ru/Inst/gorb\_dep/inbios/genet/Graph/genes.html)
represents genes as rectangles (fig.1). The
interacting genes are connected by arrows. Clicking on
gene leads to its activation and bringing out its relations
with other genes. Red arrows connect gene with upstream genes of network, blue
arrows - with downstream genes. Filled and hollow arrows reflect the
mode of gene action - activation and repression correspondingly. It
is possible to
drag genes for better visualization of links between them.
In parallel to emphasizing the links clicking on gene activates
the appearance of lists of upstream and
downstream genes in pop-up menu windows. These genes are linked
to GeNet database entries, containing the information about
them. Thus the selection of the gene from the menu calls
out the information about it.
Special filters permit selective visualization of the
interaction of genes controlling different parts of the embryo body.
