Dept. of Systems Biology and Bioinformatics is a part of the University of Rostock, Germany Universität Rostock

Research Seminar

Current Research in Systems Biology and Bioinformatics

Seminars are presented on TUESDAYs at 13:00 in Ulmenstr. 69, Building 3 (Haus 3), Room 410(SR410). Seminars are a mix of presentations from PhD students and academic visitors. If you are willing to attend the research seminar from outside Rostock, please contact Tom Gebhardt (Tel.: 0381-498-7575; Email: tom.gebhardt@uni-rostock.de) prior to the announced seminar.

Seminars in our group are structured into two types of talks:

  • Research Presentation

Members and students of our research group present their work and the talk is strictly limited to 20 minute presentation plus 10 minute discussion. A typical structure for the presentation should follow the outline: What's the context? What's the question asked? Why is it exciting? What has been done? What are the results, conclusions and achievements.

  • Research Discussion

The aim of this kind of talk is to stir up discussions about a topic of interest, not necessarily limited to a certain project. The talk is limited to 10 minutes only with up to 30 minutes for discussion and debate.
For more information concerned by the speakers, please see here.

Summer Semester 2017

02.05.2017

Etienne Rolland
Internship progress

09.05. & 16.05.2017

t.b.a.
Are you interested in giving a talk at our research seminar? Please contact Tom Gebhardt (tom.gebhardt@uni-rostock.de).

23.05.2017

Prof. Béatrice Desvergne & Prof. Olaf Wolkenhauer
Modelling of human metabolism

30.05.2017

Etienne Rolland
Internship conclusion

06.06.2017

Tom Gebhardt
t.b.a.

13.06.2017

Faiz Khan
An integrative workflow to study large-scale biochemical networks

20.06.2017

Matti Hoch
Bachelor thesis - practice session

04.07.2017

Holger Hennig
t.b.a.

11.07.2017

Ali Salehzadeh-Yazdi
t.b.a.

18.07.2017

Shailendra Gupta
t.b.a.

25.07.2017

Markus Wolfien
t.b.a.

01.08.2017

Andrea Bagnacani
t.b.a.

Winter Semester 2016

10.10.2016

Björn Anderson (Lübeck)
"Safe and Dynamic Networking in Operating Room and Hospital"

25.10.2016

Ali Salehzadeh-Yazdi
SYSTERACT: Systematic Rebuilding of Actinomycetes for Natural Product Formation

08.11.2016

Prof. Julio Vera-González
A comprehensive network on macrophage regulations

29.11.2016

Sherry Freiesleben
t.b.a

06.12.2016

Holger Hennig
Causality vs. correlation: how to infer stem cell decision making and gene regulation from time lapse microscopy data

10.01.2017

Anton Kulaga
Gene circuits modelling with KAPPA rule based language

17.01.2017

Markus Wolfien
Customized workflow development with Galaxy

24.01.2017

Tom Theile
spatio-temporal modeling

Summer Semester 2016

There is an ICAL calendar available.

25.04.2016

Fritz Beise
Basics in layouting e-books with Adobe InDesign

02.05.2016

Shailendra Gupta
Systems Biology of E2F Signalling in Tumor Progression and Metastasis

09.05.2016

Adrien Barton
Dispositions in the Lifesciences

30.05.2016 (13:30h)

Andrea Bagnacani
The Semantic Lancet Project: a Linked Open Dataset for Scholarly Publishing

30.05.2016 (14:00h)

Tobias Plewka
Cyber-Physical-Systems - Characteristics Analysis

13.06.2016

Markus Wolfien
Next Generation Sequencing Data Analysis to Reveal Structural DNA Variations

20.06.2016

Birgit Berger
A Summary of the IdaMo Summer School

27.06.2016

Sherry Freiesleben
COLLAR - Current status of microarray gene expression analysis

04.07.2016

Holger Hennig
Label-free analysis for high-throughput imaging flow cytometry using machine learning

11.07.2016

Tom Gebhardt
Improve the visualization of differences between model versions.

18.07.2016

Suchi Smita
Investigation of toxicity profile of various combustion aerosols by integrative network approaches

25.07.2016

Vasundra Toure
Practices for drawing biological networks using the SBGN standard

08.08.2016

Andrea Bagnacani
t.b.a

Winter Semester 2015/16

29.02.2016

Steffen Möller
Title:- "eQTL: intertwining disease decomposition and drug repositioning" Expression QTL (eQTL) further annotate disease-associated genetic loci with co-observed changes in the transcriptome. With drugs selected to compensate the disturbance caused for single loci, for a genotyped patient of a multifactorial disease one may derive a recipe for a drug cocktail. This presentation reviews resources available today and emergent algorithms, exemplified on murine data for experimental autoimmune encephalomyelitis, a mouse model for neuroinflammation.

26.10.2015

Markus Wolfien
New insights into the regulation of the heart rate at the molecular and meta-level

02.11.2015

Florian Wendland
Hybrid stochastic simulation for multi-scale and multi-level models

23.11.2015

Felix Winter
Mathematical modelling of brain energy metabolism reveals Alzheimer's-specific shape alterations in the BOLD function

30.11.2015

Prof. Olaf Wolkenhauer
Muhammad Ali and the Principle of Life: Modelling Whole-Part Relationships in Living Systems

07.12.2015

Ron Henkel
Creating a Habitat for Computational Biological Models

14.12.2015

Daniel Koch
Modeling and simulation of chronic myeloid leukemia using causal Bayesian networks

11.01.2016

Tom Theile
Understanding bone tissue - How do small cells organise large structures?

18.01.2016

Steffen Moller & Mohamed Hamed
Integrative computational approaches for studying complex diseases

25.01.2016

Sherry Freiesleben
A consensus-based approach to identify networks underlying DNA damage responses using microarrays

01.02.2016

Martin Scharm
Cancelled

Summer Semester 2015

13.04.2015

Martin Scharm
M2CAT: Extracting reproducible simulation studies from model repositories using the CombineArchive Toolkit

20.04.2015

Florian Wendland
Pathway-based Prediction of Dynamics in Cancer Cell Populations

27.04.2015

Dr. Alberto de la Fuente (From Leibniz Institute for Farm Animal Biology (FBN) Dummersdorf)
Silence on the relevant literature and errors in implementation?

04.05.2015

Ulf Schmitz
An investigation of microRNA target regulation mechanisms - rehearsal for PhD defence

11.05.2015

Aakash Chavan Ravindranath
Data integration and modelling techniques to study protein and compound activity towards drug discovery

18.05.2015

Muhammad Haseeb
Mathematical Modeling of Crosstalk between Wnt Signaling and Cell Cycle Pathways

01.06.2015

Dr. Dagmar Waltemath
Notions of similarity for systems biology models

08.06.2015

Prof Dr Ralf Schnabel (Head of the Institute for GeneticsTechnical University Braunschweig)
Phainothea:Creation of form by cell focussing in the C. elegans embryo

22.06.2015

Markus Wolfien
Automated NGS data analysis and evaluation

29.06.2015

Felix Winter
Modelling metabolic markers of dementia

06.07.2015

Tom Theile
Modeling Bone-Remodeling. The Influence of Microcracks

13.07.2015

Suchi Smita
Integration of multi-omics and chemometric data to acess the impact of aerosols exposure

20.07.2015

Prof. Dr. Blagoj Ristevski (St. Kliment Ohridski University - Bitola)
Reverse Engineering of Micro-RNA Mediated and Gene Regulatory Networks and Netwoks Properties.

Winter Semester 2014/15

29.02.2016

Steffen Möller
eQTL: intertwining disease decomposition and drug repositioning

02.02.2015

Dagmar Waltemath
"Coming soon: de.NBI and SBGN-ED"

27.10.2014

Markus Wolfien
Next Generation Sequencing Data Analysis of Stem Cell Derived Cardiomyocyte Cell Types

03.11.2014

Prof. M.J. Bottema
Spatio-Temporal Structure of Cancellous Bone

10.11.2014

Dr. Johannes Wollbold
Formal concept analysis methods for systems biology: representing knowledge, analyzing and validating models

24.11.2014

01.12.2014

Tom Theile
Modeling Bone Growth Using Agent-based-Simulations - Understanding the role of Osteocytes

08.12.2014

Dr. Sonja Strunz
Gene Co-Expression Networks Reflecting the Transcriptional Responses to Radiation Exposure

5.01.2015

Raheleh Amirkhah
Prediction of miRNA targets in colorectal cancer using machine learning method

12.01.2015

Murali Chodisetti
Next-Generation Sequencing in Acute Lymphoblastic Leukemia

19.01.2015

Faiz M. Khan and Stephan Marquardt
Unraveling the regulatory core of E2F1-mediated tumor aggressiveness using integrated network analysis methods

26.01.2015

Dr. Michael Linnenbacher
HRO collection as tools for individual cancer network biology.

25.09.2014 (at 11:30 a.m, in room 410)

Dr. Johaness Wollbold
Constructing a knowledge base for the Free Radical Theory of Ageing

26.08.2014

Prof. Maureen O'Malley (University of Sydney)
What has philosophy to do with systems biology, and what has systems biology to do with philosophy?

05.05.2014

Sonja Strunz (PhD Defence Rehearsal)
Transcriptional Responses to Radiation Exposure Facilitate the Discovery of Biomarkers Functioning as Radiation Biodosimeters

24.02.2014

Markus Wolfien (Student in SEMS project)
Standardising Karr's Whole Cell Model

03.02.2014

Prof. Dr. rer. nat. Robert David (Reference and Translation Center for Cardiac Stem Cell Therapy (RTC) Rostock)
Cardiac Cell Types from Stem Cells.

16.12.2013

09.12.2013

Siavash Ghavami
Accounting for randomness in measurement and sampling of cancer cell population dynamics

25.11.2013

Dr. Katja Rateitschak
Pancreatic cancer reloaded

04.11.2013

Sherry Freiesleben
Identification of microRNA networks in multiple sclerosis

28.10.2013

Daniel Arend
Long-Term Preservation and Management of Scientific Primary Data

14.10.2013

Bingquan Bao (Master defence)
Multi-scale hybrid model of biological system used as predictors of anti-caner therapy outcoume

30.09.2013

Noman al Hassan (Master defence)
Identification and analysis of putatively cooperating microRNAs
Mustafa Baig Mirza (Master defence)
Extending the multi-valued logic approach for modeling biochemical reaction networks
Tim Kacprowski (Ernst-Moritz-Arndt-Universität Greifswald Interfakultäres Institut für Genetik und Funktionelle Genomforschung)
Ranking Molecules - from Disease Gene Prioritization to Omics Data Analyses

16.04.2013

This talk will start from 11:30 at Ulmenstraße 69, Building 1, Room 126
Peter Nonnenmann (FIAS)
Ellerman's heteromorphic adjoint functors & Wolkenhauer's tissue organization

08.04.2013

Yang Du
BiomvRCNS: copy number study and segmentation for multivariate biological data

27.05.2013

This talk will start from 13:30
Dr. Georg Homuth (Ernst-Moritz-Arndt-Universität Greifswald Interfakultäres Institut für Genetik und Funktionelle Genomforschung)
Whole-Blood Transcriptome Profiling of Population-based Cohorts Reveals Major Gene Expression Changes Correlated with Body Mass Index

06.05.2013

Sherry Freiesleben
Investigation of microRNA expression in multiple sclerosis

t.b.a.: to be announced.