The dependence network shows statistical correlations between rearrangements.
Positive correlations (i.e. the rearrangements occured more often together than
expected from their marginal distribution) are shown as blue lines, while
negative correlations (i.e. the rearrangements occured less often together than
expected from their marginal distribution) are shown as red lines; the thicker
the line, the more (statistically) reliable is the correlation.
Further statistical data are shown in tables: the frequency of the events, the
frequency of combinations of events (
Correlation Coefficient Phi,
Pearson's contingency coefficient,
Attributable Risk, and the
chi-square value indicating significance of correlation.
Enter the file containing the data and its data format, the style of data
pre-processing, the maximum number of cases to be analysed, the number of
rearrangements to be displayed, and the threashold for significance.
Possible data formats are the format of the Mitelman database, or a very simple
custom format just containing a case identifier and the karyotype spearated
from it by a tabulator or other separator per line; that format is also used
for CGH data. For more information, see the "
on Data Formats."
If you are not familiar with getting data from the Mitelman database, please
have a look at the HowTo " Retrieving
data from the Mitelman database". Please note that some data in the
Mitelman database do use an older version of the ISCN. Such data may still be
compatible with ISCN 1995 and then be analysed correctly, but some data may be
no more compatible and thus not be parsed correctly.
Data can be processed "as is", or they can be translated into the SCCN or into
Cytoband data; here, you can also select the virtual banding resolution of the
For more info on the Dependence Network, you may also have a look at the
description of its desk top version and the
calculation of the data. Parameters
Format (Banding Analysis)
Custom Format (CGH) For Custom Format Only:
Has Header Line Data Processing:
or process to
at a resolution of
2 Digits 1
Chromosomal Arm Number of cases:
The maximum number of cases is limited for technical reasons (duration of
calculation) to the default value given below. You may use an even lower value.
Note that useful results can hardly be obtained with less than 100 cases.
Other drawing parameters:
Number of Rearrangements to be shown:
Minimum chi-square for correlations to be shown: