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Masterarbeit im Fachbereich Onkologie

[english below] Wir bieten ein spannendes Projekt an der Schnittstelle von Zellbiologie und Medizin im Bereich Pankreaskarzinomforschung an. Das duktale Adenokarzinom des Pankreas (PDAC) ist durch ein fibroblastenreiches desmoplastisches Stroma gekennzeichnet, dass eine kritische Rolle bei der Progression und Therapieresistenz des PDAC spielt. Dieses Projekt wird sich auf die Interaktion zwischen CAF (Tumor-assoziierte Fibroblasten) und PDAC-Zellen im humanen Zellkultursystem konzentrieren und aufklären, wie die CAFs die Aggressivität von PDAC-Zellen durch verschiedene Mechanismen fördert und neue Therapiekonzepte abgeleitet werden.

We offer an exciting project at the interface of cell biology and medicine in pancreatic cancer. Pancreatic ductal adenocarcinoma (PDAC) is characterized by a fibroblast-rich desmoplastic stroma which plays a critical role in the progression and therapeutic resistance of PDAC. The stroma is composed of extracellular matrix proteins, mainly deposited by the cancer-associated-fibroblasts (CAFs) and various types of immune cells. Cancer-associated fibroblasts display a high degree of interconvertible states including quiescent, inflammatory and myofibroblastic phenotypes. However, the mechanisms by which this plasticity is achieved are poorly understood.

This project will focus on the CAF – PDAC cell interaction in the human cell culture system and will elucidate how CAF plasticity promotes PDAC cell aggressiveness through multiple mechanism.

Our spectrum of methods we can offer

  • Cell culture
  • Working with primary human and murine cell lines (organoids)
  • Drug screens
  • Co-Culture systems
  • Manipulation of human und murine cell lines (CRISPR Cas9, etc.)
  • Broad spectrum of molecular biology (ELISA, Western Blot, PCR, Cloning of Plasmids)
  • Flow cytometry
  • Orthotopic Implantation (mouse models)
  • Imaging (MRT, PET)


For further details please contact Dr. Karin Feldmann (karin.feldmann[ät]tum.de; AG Reichert | Klinik und Poliklinik für Innere Medizin II, Klinikum rechts der Isar, TUM)

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Master Thesis NMR & Batteries

Interested to work on an interdisciplinary project at the interface of new NMR technologies and batteries?

Recent experiments have shown that defects in diamond can be used as quantum sensors for detecting NMR (nuclear magnetic resonance) signals from tiny volumes down to a single molecule!

This new technology will be used here for NMR spectroscopy to probe batteries in situ. In particular, we would like to monitor ion diffusion in batteries on the microscopic scale, which is of central importance for their function. Pulsed-field-gradient (PFG) NMR is a common method used for measuring atomic and molecular diffusion. However, it cannot detect low diffusion coefficients such as they occur in batteries due to limited available magnetic gradient strength7. In contrast, the microscopic NMR detection volume of NVs will allow the application of several orders of magnitude high magnetic field gradients over the sample volume. This will not only make it possible to measure very low diffusion coefficients but also to monitor unprecedented ultrashort diffusion length on the nanometer range. This will result in the determination of ion diffusion coefficients at interfaces, which cannot be obtained with current methods.

Tasks: Design and fabricate diamond sensor with integrated gradient coils for probing batteries.

Techniques: 3D-printing, electronics, NV-quantum sensing, NMR, chemistry

Skills: Ideally some knowledge of batteries and/or NMR spectroscopy.

Contact dominik.bucher[ät]tum.de

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Master Thesis NMR & Catalysis

Interest to work at an interdisciplinary project at the interface of new NMR technologies and chemistry/catalysis?

Recent experiments have shown that defects in diamond, in particular nitrogen-vacancy (NV) centers, can be used as quantum sensors for detecting nuclear magnetic resonance (NMR) signals from tiny volumes down to a single molecule!

NV-NMR is paving the way for high-sensitivity real-time monitoring of chemical reactions on surfaces at the nanoscale in a totally non-invasive and non-destructive way. A natural application of such a new tool is the study of heterogeneous photocatalytic systems, where light-driven reactions take place on the surface and where very often the formation of short-lived radical species is crucial for the functioning of the catalytic cycle.

In this interdisciplinary project at the interface of Quantum sensing, Electron Paramagnetic Resonance (EPR) spectroscopy, chemistry and catalysis you will use NV-shallow-implanted diamond chips as sensing platforms on which to perform photocatalytic reactions to be monitored in real-time at room temperature. For the purpose you will implement NV-based-relaxometry experiments based on laser/LED light excitation as well as on spin-manipulation by microwave fields. This will enable the measurement of the relaxation times of the NV-electron spins being perturbed by the interacting intermediates during the catalytic process. This will allow to get crucial insight on the overall heterogeneous catalysis mechanism at the nanoscale.

Tasks: Putting into operation an optimized setup for NV-based experiment

Techniques: NV-NMR, Chemistry.

Skills: Ideally knowledge of NMR/EPR spectroscopies, physical chemistry and spectroscopy, inorganic chemistry and catalysis.

Contact dominik.bucher[ät]tum.de
The lab is located at the TUM Chemistry department (Physical Chemistry). For more information: www.bucherlab.org

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Master Thesis NMR & Life Sciences

Interested to work on an interdisciplinary project at the interface of new NMR technologies and life science?

Recent experiments have shown that defects in diamond, in particular nitrogen-vacancy (NV) centers, can be used as quantum sensors for detecting nuclear magnetic resonance (NMR) signals from tiny volumes down to a single molecule!

NV-NMR is paving the way for NMR analysis on the single-cell level enabling us to study metabolites and metabolic states of single living cells in a non-invasive and non-destructive way. To achieve this highly ambitious goal and due to the inherently low sensitivity of NMR, we employ so-called hyperpolarization schemes resulting in an exceptional enhancement of the NMR signal. A promising technique for breaking the sensitivity limitations of NMR is hyperpolarization of nuclear spins by parahydrogen induced polarization (PHIP). In these schemes the transfer of the non-thermal singlet spin order of parahydrogen to the target substrate leads to several orders of magnitude NMR signal amplification. This can be achieved either by direct hydrogenation of the thermally polarized precursor or by transiently binding parahydrogen and substrate to an organometallic catalyst. The latter scheme is known as signal amplification by reversible exchange (SABRE).

In this highly interdisciplinary Project at the interface of (quantum)physics, chemistry and biology you will put a cryostat for the production of parahydrogen into operation and use the PHIP or SABRE scheme for the hyperpolarization of interesting metabolites. Furthermore, you will learn how to use diamonds to detect nuclear magnetic resonances and record NV-NMR spectra of your hyperpolarized substrates. At last you will monitor the metabolism of single cells.

Tasks: Putting into operation a cryostat for the production parahydrogen, perform PHIP on a microfluidic chip

Techniques: NV-NMR, PHIP Hyperpolarization, Chemistry, Cell biology, Microtechnology

Skills: Ideally knowledge in NMR or hyperpolarization, chemistry and (bio)physics.

Contact dominik.bucher[ät]tum.de
The lab is located at the TUM Chemistry department (Physical Chemistry). For more information: www.bucherlab.org

Link: http://www.bucherlab.org

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Master Thesis Oncology

We offer an exciting project at the interface of cell biology and medicine in an international research consortium, teamed up in the SFB 1312. The overarching goal of this collaborative research consortium is to gain a holistic mechanistic understanding of Pancreatic ductal adenocarcinoma, to explain why it resists conventional and targeted therapies and thereby pave the way to novel effective treatments for this devastating disease.

Research Area: Understanding the molecular underpinnings of cellular plasticity in organogenesis, regeneration, and cancer initiation and dissemination. Generation of novel in vitro culture systems (e.g. organoids) from GI cancer patients to determine prognosis, treatment response and resistance mechanisms.

We are looking for a highly motivated master student who is interested in applying biochemical and cell culture methods to identify drivers of the immunosuppressive tumor microenvironment in PDAC and to development specific therapies. We are particularly searching for candidates that have a strong background in protein biochemistry and tumor biology (experience in (confocal) fluorescence microscopy and/or working in cell culture would be advantageous). Please note that this particular project will be a minimum of 6 months, applications for shorter internships (minimum duration: 2 months) will be considered on a case-by case basis.

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Masterarbeit experimentelle Radiologie

Untersuchung des Therapieansprechens maligner Pankreastumore mit Hilfe der Gesamtkörper-Magnet-Resonanz spektroskopischer Bildgebung (MRSI)

Wir suchen zwei motivierte selbständige Studenten/-innen mit hohem Interesse an experimentellen metabolen Bildgebung und der Bereitschaft 9 Monate vollen Einsatz zu zeigen. Wir bitten interessante Masterarbeiten in einem der aktuellsten Feld der Pankreaskrebsforschung, sorgfältige Betreuung, klar aufgestelltes Projektplan und viele Möglichkeiten zur Selbstentwicklung.

Rationale: Das Pankreaskarzinom zeigt überaus schlechtes Ansprechen auf die vorhandenen Therapien aufgrund einer hohen metabolen/strukturellen Heterogenität dieser Erkrankung. Unter diesen Umständen ist eine frühzeitige Prädiktion des Tumoransprechens, oder das Fehlen dieser, ausgesprochen wichtig für die gezielte Behandlung der Patienten. Dabei stellen bildgebende Untersuchungen des Tumormetabolismus, z.B. mit Hilfe der MRSI mit hyperpolarisiertem [13C]Pyruvat, eines der aktuellsten Forschungsgebiete für Pankreaskrebs dar.

Unsere Arbeitsgruppe verfügt über eine große Anzahl sehr gut charakterisierter und klinisch relevanter Mausmodelle, die für die oben beschriebenen Untersuchungen besonders geeignet sind. Zudem sind die fortschrittlichsten 3D-Ganzkörper MRSI Methoden etabliert und im Verlauf bereits getestet. Das Ziel dieser Arbeiten wäre die schnell eintretende Veränderung im Tumormetabolismus unter den klinisch relevanten Therapien (FOLFIRINOX und Gemcitabine/Abraxane) zu untersuchen.

Bei Interesse senden Sie bitte ein Anschreiben mit Lebenslauf und Zeugnissen an:

Dr. rer. nat. Irina Heid (Irina.Heid@tum.de) Institut für diagnostische und interventionelle Radiologie, Klinikum rechts der Isar der TUM

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Master thesis proteomics

in collaboration with the IMP Protein Chemistry group of Karl Mechtle

Our Groups.

As a shared thesis project of the PreOmics GmbH in Martinsried near Munich and the IMP Protein Chemistry Facility in Vienna, the proposed thesis provides the opportunity to experience and work in two exceptional working environments:

PreOmics GmbH, founded in 2016, is an innovative manufacturer of life science tools for the field of mass spectrometry. The PreOmics R+D team continuously aspires to develop innovative technologies and tools to revolutionize sample preparation for mass spectrometry applications. PreOmics is ranking 47 in Top 100 Growth Champions in Germany and 2nd for Chemistry and Pharma according to a survey by FOCUS-BUSINESS and Statista.

The IMP Protein Chemistry group of Karl Mechtler are dedicated experts in mass spectrometry-based proteomics. Working with state-of-the-art instruments, they constantly aim to develop new and powerful methods to increase sensitivity in protein identification, accuracy and precision of protein quantification or post-translational modification detection.

The Project.

We are looking for a highly motivated MSc student in the field of proteomics – focusing on homogenization efficiency of low quantity tissue and plant samples for LC-MS-based proteomics applications.

Aim of the present thesis project is to improve and optimize the homogenization and protein extraction efficiency of tissue and plant lysis using novel lysis technologies in comparison to classical homogenization methods. Based on a new patent-pending technology, the thesis will focus on the overall protein extraction and sample preparation workflow of tissue and plant samples with particular focus on low-quantity samples for the subsequent mass spectrometry-based proteomic analysis. Particular focus of the project will be on the analysis of low-quantity samples and increasing sensitivity in protein identification.

The proposed project is scheduled to be completed within one year. Nine months of the thesis are performed at the PreOmics GmbH (Martinsried near Munich, Germany) focusing on the improvement and optimization of the overall sample preparation workflow while working in close collaboration with Karl Mechtler. In the final stage of the work, three months will be held in Vienna to complete the project and acquire final data for a potential publication and the introduction of the optimized workflows at the Mechtler lab.

The Candidate.

The successful candidate should hold a BSc degree in the fields of chemistry, biochemistry, pharmaceutics, biology, or a related field. Advanced knowledge in liquid chromatography mass spectrometry as well as hands-on experience in sample preparation methods especially lysis and tissue homogenization are a prerequisite. Basic knowledge in data analysis including database searches and software for quantitative proteomics is desirable.

We are looking for a highly motivated candidate that is curious and interested in acquiring new skills as well as excited about working with and on new inventive technologies. Our ideal candidate should also have distinct team working abilities and an independent working mentality. Excellent written or spoken English language skills are a must, German skills will be an advantage.

Your application should include a motivation letter, your CV and the contact details of at least one reference. Please apply via our application form at https://preomics-gmbh-jobs.personio.de/job/283521#apply

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