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BIOINFORMATIK
FORSCHUNGSGRUPPE LIFE SCIENCE INFORMATICS AN DER THD
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FORSCHUNGSGRUPPE BIOINFORMATIK

Bioinformatik / Life Science Informatics

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Welche Information steckt in uns?

Circa 3 Milliarden DNA Bausteine in jeder unserer 100 Billionen Zellen- dies ist die Information, welche wir in der biomedizinischen Forschung und in der molekularen Diagnostik auslesen um "Fehler" und damit Ursachen für unterschiedliche Erkrankungen zu erkennen. 

Bioinformatik- ein faszinierendes, aber auch anspruchsvolles Feld-  hat sich in den vergangenen Jahren außerordentlich weiterentwickelt. Die Bioinformatik befasst sich nicht nur mit genomischen Sequenzierungsdaten, sondern auch mit molekularen Strukturen, enzymatischen Aktivitäten, medizinischer und pharmakologischer Statistik, u.v.a.. Die Analyse biologischer Datensätze spielt heute eine sehr wichtige Rolle in den Naturwissenschaften, insbesondere in den Bereichen molekulare Diagnostik, Präzisions- und personalisierte Medizin.

RESEARCH

Transcriptomics of the malignant melanoma

Transcription Factor AP-1

In general, transcripton factors are proteins that bind specific DNA sequences and represent the primary regulators of gene expression at the transcriptonal level. Dysregulaton of such factors often leads to an impaired expression of specific target genes, resulting in altered function and the development of a malignant phenotype.

During the development and progression of malignant melanoma the activating protein-1 (AP-1) transcription factor family plays a key role.  Our working group aims to elucidate the molecular mechanisms of AP-1 transcription factors that promote the development of a malignant phenotype by analyzing corresponding RNA-Seq and ChIP- Seq data.

Gene expression in 3D cell culture

Cells are in thight contact and exchange in human tissues . Sometimes a few cells are leaving this context of the tissue due to deregulation leading frequently to cancerous diseases. The context of a 3D situation in vivo seems to be relevant to the general biological functions of cells.

The establishment of 3D-printed cell models represents an important topic in the field of cancer research to be able to mimic the in vivo situation of cancer cells in vitro. Using analysis of RNA-Seq data generated from 3D cell models, we ask basic scientific questions about the origin of quiescent tumor cells and cellular differentiation and what changes in gene expression underlie these cellular effects. 

Bioinformatics & Omics data

Application

Application of bioinformatic software and machine learning to analyze high-dimensional biological data (e.g. DNA, RNA, ChIP, qPCR, (medical) images and others).

Development

Development of new computational tools and algorithms to gain new insights into biological processes. Generation of Machine learning models for distinct pruposes.

Analytics

Analysis pipeline development with an emphasis on reproducible data analysis using state-of-the art workflow managers as well as Customized bioinformatic analsis. 

Laboratory Services

 

The expertise of the group from Molecular Medicine, Bioinformatics, Biotechnology, Immunology and Biochemistry can be used to address a variety of several diagnostic, analytical or bioinformatic questions. Several analytical techniques of the wet and bioinformatic lab are also available for the industry.

Services we can provide

For our Partners the entry point to our Analytics Pipeline is very personlized:

Counselation & Experimental Design

Starting with an idea it is worth to discuss the strategy for experiments. Due to complexity of techniques and statistical demands researchers are frequently overwhelmed by the needs of up-to-date OMICS analysis. We are discussing your ideas in a conifdential and open-minded setting to find the right strategies for your questions.

Sample Generation and Data Acquisition

According to your experimental strategy we help you to either generate appropriate samples or to gain the data from your samples. Depending on the technique to be used we do have several different experts in the field to generate OMICS data in the appropriate quality.

Basic Data Assessment and Analytics

Based on your OMICS data we assess the quality and dimension of your data and adjust the basic analysis accordingly. If you have simple low dimensional bulk or complex and high dimensional single cell analysis: we perform basic analysis in high standard and with unbiased look on the results.

Individual analysis approaches and reporting

Depending on your project demands we perform functional or customized analytics in detail. Before starting you have the choice how many rounds of analysis might be necessary so that after completion the initial questions should be surely answered. Incidential results or obvious results inside your data are surely reported to you in a way that one principal is always fullfilled: We’ll let the data speak for itself - unbiased!

We provide up-to-date bioanalytics in our modern wet lab. Please contact us for your individual bioanalysis.

Every cell stores its principal information in form of DNA. Therefore, we provide DNA analytics for samples of all biological domains.

RNA is representing the current transcriptomic state of a cell. Therefore, if oyu would like to analyse expression or any other transcriptional analysis we can provide the appropriate RNA analytics.

Among other things, Proteins are representing the toolbox fo cells. But they can also be used to clearly identify cells and their corresponding phentoype. Therefore, we provide everything from classical protein detection, to enzymatic analysis, immunological identification and cellular localisation.

Service by our Group

 

Are you interested in our service? Please contact us to explore potential & individual opportunities!

Contact

TEACHING

For Students:

 

"You love challenges and want to know how living organisms are programmed? Then come study with us!" We do provide 2 study programs depending on your prevous education to get you started with applied bioinformatic. 

The study program Bachelor of Digitale Biomedizin is best fitted to german-speaking students who just finished their high school diploma

The study program Master Life Science Infromatics is best fitted to english-speaking students with a B.Sc. in Informatics or Life Sciences who want to be able to apply bioinformatics to big OMICS data

For Schools

 

WORKSHOPS:

"With us, you can understand RESEARCH WORK IN THE LAB and learn interesting facts about cell biology, molecular genetics and genetic engineering. AND to understand: How is the step from laboratory work to Computer Analysis

We run regular workshops for school groups throughout the year. During these workshop days pupil can experience the complexity of Life Science research and how important computer skills are nowadays.

For Teachers

 

Members of our group are available for the continuing education of teachers in the MINT field. Regularly, teachers can apply for workshops around the topics

  • Life Science Research

  • Molecular Biology

  • Bioinformatics.

  • Genetics

  • Molecular Medicine

 

Please feel free to contact us for further information!

Contact

Bioinformatic Reserach Group

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Prof. Dr. Melanie Kappelmann-Fenzl

Professorin

K 008

0991/3615-473
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Prof. Dr. Phillipp Torkler

Professor

ITC2+ 1.11

0991/3615-5570
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Dr.rer.nat Stefan Fischer

Wissenschaftlicher Mitarbeiter

K 008

0991/3615-347
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Sabrina Auer, M.Sc.

Mitarbeiterin

K 009

0991/3615-8394
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Zubeir El Ahmad, M.Sc.

Wissenschaftlicher Mitarbeiter

K 004

0991/3615-5549

Kontakt

Translational Biomedicine LAB

The Bioinforamtic Group  has an up-to-date laboratory for molecular cell biology. Inside our Lab cells can be cultivated as well as DNA, RNA and proteins can be isolated, modified, measured and detected. This laboratory is used as a teaching laboratory in current courses in bioinformatics. Current scientific work is also carried out in this laboratory.

PARTNER

University of Erlangen- Nuremberg
Institute for Biochemistry
Research Group: Biochemistry und Molecular Medicine

email: anja.bosserhoff@fau.de

c/o Universitätsklinikum Regensburg
RCI Regensburger Centrum für Interventionelle Immunologie
Research Group: Mononuclear Phagocytes & Epigenetics of Cell Differentiation Lab

email: michael.rehli@ukr.de

University Medical Center Ulm
Institute of Pathology

email: ed.mlu-kinilkinu@dlefneiram.flar

Fraunhofer Institute for Translational Medicine and Pharmacology ITMP
Immunology, Infection and Pandemic Research IIP

email: Wieser@mvp.lmu.de, Susanna.Oswald@itmp.fraunhofer.de, Alexander.Stolz@itmp.fraunhofer.de

BioVariance GmbH in Waldsassen

email: josef.scheiber@biovariance.com

SYNLAB MVZ Weiden GmbH

email:Ralph.Fingerhut@synlab.com

Perlasberger Straße 41
94469 Deggendorf

Perlasberger Straße 1
94469 Deggendorf

Abteilung Molekularpathologie

Perlasberger Straße 41
94469 Deggendorf