Graphical interface to the UrchiNet database
The basic elements displayed by applet Genes_Graph are genes, represented
as rectangles, and their interactions, shown as arrows.
These arrows differ in shape and colour depending on interaction type.
Red
arrows connect a gene with the upstream genes of network, and blue
arrows with downstream genes. Filled and hollow arrows reflect
the mode of gene action - activation and repression correspondingly.
The following operations can be performed on the rectangles which represent
genes:
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The gene may be dragged to a new place. This is sometimes required for
better visualization of links between genes in cases where the network
is large.
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A given gene may be selected by clicking with the mouse. Regulatory interactions
with regulators and targets of the selected gene become highlighted, and
these regulators and targets now appear in menus accessible with the UP
and DOWN buttons. These genes are linked to HTML files which contain the
information about them. Thus the selection of the gene from the choice
menu calls out the information about it, and moreover:
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If the selection is accompanied by pressing the Ctrl key the information
about the newly selected gene appears rapidly in a new browser window.
The applet window remains.
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The user may select any group of genes with the help of checkboxes. Another
possibility consists in sequential clicking on genes while pressing
Shift key. Subsequently, by pressing the PATH ONLY button it is possible
to leave in the window only the selected genes. In the case of large genetic
networks this option enables the user to examine a particular subnetwork
of interest.
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ALL button restores the display of all network genes.
VEB genes - very early blastula genes
AE - genes, expressed in the aboral ectoderm
OE - genes, expressed in the oral ectoderm
mesenchyme - genes, expressed in the mesenchyme
endoderm - genes, expressed in the endoderm