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<div class="moz-text-html" lang="x-unicode"> I N V I T A T I O N<br>
<font face="sans-serif"> </font><br>
<font face="sans-serif">===============================================<br>
<br>
to the Research Seminar 'Computer Graphics, Image Processing,
and Visualization'<br>
<br>
</font><font face="sans-serif"> on<font face="sans-serif">
Wednesday, August 31st, 2016, at 1:15 PM,<br>
in Room P-701 in the Paulinum, Augustusplatz.</font><br>
</font><br>
<font face="sans-serif">===============================================</font><br>
<br>
There will be two talks. The first one is given by<br>
<br>
Nicole Hinzmann<br>
Department of Computer Science<br>
Leipzig University<br>
<br>
and is entitled<br>
<br>
"Masakari - A graphical user interface for Chromatin
Segmentation".<br>
<br>
Abstract:<br>
<br>
Epigentics is the study of heritable changes of the phenotype
which are not<br>
encoded in the genome. One research field of epigenetics is
about the modifi-<br>
cations at histones. To analyze the co-occurrence and the
evolution of these<br>
histone modifications, computer-assisted methods are mandatory
due to the<br>
large amount of data involved. Masakari is a tool for
chromatin segmentation.<br>
It is implemented in Java 8 and uses a
client-server-architecture. The client<br>
provides an clearly structured interface representing
interesting information<br>
about the data, and supporting different analysis. The server
performs the<br>
necessary computations of the segmentation itself and
statistics on the seg-<br>
mentation result. So it is possible to work with Masakari on
clients with low<br>
computing power. Using Masakari the user can index one genome,
create a<br>
data driven segmentation for a set of histone modifications
and calculate the<br>
corresponding segmentation codes for histone modifications,
compare them<br>
with additional histone modifications in the same or a
different cell type, and<br>
search for motifs in the segments.<font face="sans-serif"><br>
<br>
</font><font face="sans-serif"><font face="sans-serif">===============================================<br>
</font><br>
The second talk is given by<br>
<br>
</font> Alrik Hausdorf<br>
Department of Computer Science<br>
Leipzig University<br>
<br>
and is entitled<br>
<br>
"Masakari - Algorithms for Segmenting Chromatin"<br>
<font face="sans-serif"><font face="sans-serif"><br>
Abstract:<br>
<br>
The analysis of differences in the chromatin state between
different cell types or<br>
individuals is one of the central tasks in the field of
epigenetics. A chromatin<br>
state consists of information of the genomic localization
of several histone<br>
marks in one cell type or individual. Each mark is
measured in one experiment.<br>
After analysis of all experiments, the user has one list
of genomic locations<br>
of the measured histone mark for each experiment. To
analyze the changes<br>
in the data set, a tool is needed for combine these lists.
Masakari is a tool<br>
for computing segments, i.e. the longest sequential parts
having the same<br>
combination of modifications. Additionally to the bare
calculation of the<br>
segmented data, Masakari supports comparing different
chromatin states based<br>
on the segments and computing motif coverage of each
segment. In this thesis<br>
the Masakari program and its extensions are described.
Different analyses for<br>
better understanding the computed data and extracting
additional information<br>
from the segmentation were added to the exiting
segmentation process. The<br>
motif coverage computation was accelerated by creating a
threaded version. To<br>
use the computed data of Masakari within other programs,
Masakari provides<br>
different export and import functionalities. Moreover
Masakari helps the user<br>
to understand the input data and the segmentation result.<br>
<br>
</font><font face="sans-serif"><font face="sans-serif">===============================================<br>
</font></font><br>
On behalf of Professor Scheuermann all those interested are
cordially invited to attend.<br>
<br>
Yours sincerely,</font><br>
Tom Liebmann </div>
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