Research Phase and Master's Thesis in the M.Sc. Biomedical Engineering and Medical Physics

During the last year of the Master's program Biomedical Engineering and Medical Physics you will have the unique opportunity to work on exciting research topics. During this so-called research phase, you can choose from an extensive number of thesis supervisors and current projects.

Aliaksandr Bandarenka and a Master's student in his group discuss about their research. Foto: TUM.PH/Eckert. The research phase constitutes one thematic block, culminating in the dissertation of the Master's thesis.

Research Phase

The build-up of the research phase

To the scope of the one year research phase (60 ECTS) belong firstly, the development of the necessary special knowledge within a cutting-edge research line and secondly, the acquisition of the corresponding experimental or theoretical skills, that are necessary for the realization of the research project within the frame of the Master's thesis. Each of these steps conforms a module, the Master's seminar and the Master's work experience. Both modules belong intrinsically together and account in total for 30 ECTS. Subsequently, the independent research project can be carried out as part of the Master's thesis, which corresponding module comprises 30 ECTS. The research phase is completed with the Master's colloquium, the defense of the Master's thesis, within this module.

During the research phase, the fulfilment of an independent scientific work is tighly connected with the acquisition of additional skills, such as project management, team work as well as the depiction and presentation of scientific results.

Module	Description	Credits (CP)	PL/SL*
Master's seminar	Literature research and specialization	15	S
Master's work experience	Methodology and project planning	15	S
Master's thesis		30	P
Sum		60

*: P="Prüfungsleistung", graded exam,
S="Studienleistung", non graded exam (pass/fail)

Finding a topic

To find a topic, please contact the possible thesis supervisors yourself.

The thesis supervisors have the possibility to advertise topics (supervisors see "Access for supervisors" on the right). However, not all possible topics are advertised here, so it is advisable to ask the thesis supervisors directly. Other topics may also arise during the discussion.

Furthermore, it is advisable to start searching for a suitable topic early, about one semester in advance. In a personal interview, you can quickly see whether a topic appeals to you and whether you feel comfortable in the group. We discourage you from simple e-mail exchange, as it is usually not successful.

Who can be my supervisor?

Filtering in the offers for possible theses

Offers of Master’s thesis topics

	Topic	Supervisor
	AI in Physics: Convolutional neural networks for dark-field X-ray CT reconstruction	Pfeiffer
	Research group Biomedical Physics Description Grating-based X-ray dark-field imaging uses scattering of X-rays to create an image of an object, rather than conventional X-ray attenuation. The combination of X-ray scattering with imaging allows us to map information about structures that are much smaller than the resolution of the imaging system over a large field of view. X-ray dark-field imaging can be combined with computed tomography (CT) to create three-dimensional images of the scattering distribution inside an object. DF-CT was recently implemented for the first time into a clinical CT here at TUM (https://www.bioengineering.tum.de/en/news/details/new-technology-for-clinical-ct-scans). The goal of this project is to use convolutional neural networks (CNNs) to remove sampling artefacts in DF-CT images. Due to the unavailability of training data from the DF-CT machine, a technologically similar experimental setup and apply transfer learning will be used. The student will acquire, process and prepare training data, as well as train and apply CNNs. Character of thesis work: mainly computational physics & image processing For more information, please contact: Dr. Florian Schaff (florian.schaff@tum.de), or Prof. Franz Pfeiffer (franz.pfeiffer@tum.de).
	Dark-field Chest X-ray Imaging: Advanced image processing for clinical applications	Pfeiffer
	Research group Biomedical Physics Description Dark-field radiography exploits the scattering of X-rays to visualize structures below the resolution limit. Currently, several initial clinical patient studies are underway on a worldwide first prototype we recently realized at Klinikum rechts der Isar. Within the framework of this project, the special algorithms for image post-processing of these first clinical data will be further optimized and used together with the participating radiologists for the evaluation of better direction of lung diseases. Character of thesis work: mainly computational physics & image processing For more information, please contact: Rafael Schick (rafael.schick@tum.de) or Franz Pfeiffer (franz.pfeiffer@tum.de). Contact person Rafael Christian Schick
	Dark-field Chest X-ray Imaging: Development of registration algorithms for the analysis of functional lung images	Pfeiffer
	Research group Biomedical Physics Description Dark-field radiography exploits the scattering of X-rays to reveal structures in lung tissue that cannot be visualized with conventional imaging. Currently, several initial clinical patient studies are underway on a worldwide first prototype we recently realized at Klinikum rechts der Isar. Within the scope of this project, special registration algorithms are to be developed that can register thorax images in inhalation and exhalation and allow local differences between ventilation states (for example in certain lung diseases).Character of thesis work: mainly computational physics & image processing For more information, please contact: Rafael Schick (rafael.schick@tum.de) or Franz Pfeiffer (franz.pfeiffer@tum.de). Contact person Rafael Christian Schick
	Dark-field Chest X-ray Imaging: Evaluation of Beam Hardening (topic is not available any more)	Pfeiffer
	Research group Biomedical Physics Description Dark-field radiography is a novel X-ray imaging technique that is being tested for the first time in clinical patient studies. We recently completed the world's first prototype at the TUM Klinikum rechts der Isar. As part of this project, an experimental and numerical (Monte-Carlo) investigation of the beam hardening effects especially in the dark-field image signal channel is aimed at. The work will be performed in close collaboration with the TUM Klinikum rechts der Isar. Character of thesis work: experimental physics (50%) & computational physics (50%). For more information, please contact: Henriette Bast (henriette.bast@tum.de) or Franz Pfeiffer (franz.pfeiffer@tum.de). Contact person Henriette Bast
	Dark-field Chest X-ray Imaging: Monte Carlo based simulation of Compton scattering	Pfeiffer
	Research group Biomedical Physics Description Dark-field radiography is a novel X-ray imaging technique that is being tested for the first time in clinical patient studies on a worldwide first prototype recently completed by us at the TUM Klinikum rechts der Isar. Within the scope of this project, Monte Carlo based Compton simulations will be developed, which will allow an exact modelling of the Compton scattering and thus a better correction of the image artifacts. Character of thesis work: experimental physics (50%) & computational physics (50%). For more information, please contact: Henriette Bast (henriette.bast@tum.de) or Franz Pfeiffer (franz.pfeiffer@tum.de). Contact person Henriette Bast
	Dark-field X-ray microCT: Pre-clinical research on improved lung disease detection	Pfeiffer
	Research group Biomedical Physics Description Dark-field computed tomography uses the wave property of X-rays to provide complementary contrasts in X-ray imaging. In this project, an existing prototype for dark-field CT in mice will be used to explore the use of dark-field contrast in pre-clinical research for improved detection of lung diseases in collaboration with the Helmholtz Center for Health. In addition to experimental work to support the conduct of the preclinical studies, algorithmic research to reduce image noise and dose is planned. Character of thesis work: experimental medical physics (60%) & image processing (40%). For more information, please contact: Benedikt Guenther (benedikt.guenther@mytum.de), Simon Zandarco (simon.zandarco@tum.de) or Franz Pfeiffer (franz.pfeiffer@tum.de). Contact person Benedikt Günther Simon Zandarco
	High frequency fluid flow sculpting in microfluidic devices	Destgeer
	Research group Assistant Professorship of Control and Manipulation of Microscale Living Objects (Prof. Destgeer) Description Microfluidic devices are miniaturized platforms with a great potential of manipulating small volume of fluids in a well-controlled manner, which can be utilized for wide range of biomedical applications. In our research group, we have been developing microfluidic devices for droplet generation, and acoustofluidics platforms with potential applications in point-of-care testing and lab on a chip systems. This project will be focused on improving the performance of microfluidic devices for the fabrication of droplets through high frequency control of fluid flow. We are looking for highly motivated candidates to conduct a master thesis in our research group. The candidate will be designing, simulating, and testing a microfluidic platform. The candidate should be interested to design, simulate, and work in a lab environment. A prior knowledge in CAD and FEA software (e.g. AutoCAD/ SolidWorks and COMSOL) will be highly appreciated, but not required. Contact: ghulam.destgeer@tum.de or usman.akhtar@tum.de
	Mikrofluidische Untersuchung der Integrin-Kondensat-Assemblierung	Bausch
	Research group Cellular Biophysics
	Nanodosimetrie in der Bestrahlungsplanung für die Ionentherapie	Wilkens
	Research group Associate Professorship of Medical Radiation Physics (Prof. Wilkens) Description Radiation therapy for cancer patients with ions (for example carbon) is biologically more effective compared to conventional therapy with photons. However, reasons for the higher effectiveness are not yet fully understood. Nanodosimetry is a promising technique for discovering the underlying mechanisms of the higher potential to kill tumor cells. Nanodosimetry counts ionizations in volumes of the size of a DNA segment. The distribution of ionization cluster sizes might explain the occurrence of DNA damage and contribute to the understanding of biological effectiveness. In the case of carbon ion therapy, several fragments are present and cells are exposed to a mixed radiation field. Therefore, the nanodosimetric track structure characteristics have to be determined for each fragment species. In this work, you will perform Monte Carlo simulations of clinical setups and track structure simulations for the nanodosimetric characteristics of the clinical beam (TOPAS). The overall goal is the implementation of the nanodosimetric results in a research treatment planning system and the investigation of calculated treatments plans regarding their distribution of nanodosimetric parameters. Character of thesis work: 100 % computational. You will closely work together with your supervisor at Klinikum rechts der Isar. Contact: Frauke Alexander, Frauke.alexander@tum.de, 089-4140-9428 Contact person Frauke Alexander
	Spectral photon counting X-ray detectors: Characterisation of detector performance (topic is not available any more)	Pfeiffer
	Research group Biomedical Physics Description Hybrid pixel photon-counting detectors have been developed in the past in high-energy physics and are currently used in various medical imaging applications. They offer higher spatial resolution and additional energy resolution and therefore have significant potential for future improvements in radiography and CT. This work will investigate some basic physical properties of the detectors and, in particular, explore the response of such detectors to oblique radiation, which is very important for some spectral imaging applications. The project is carried out in close collaboration with external partners from industry. Character of the work: experimental physics (70%) & image processing (30%). For more information, please contact: Daniel Berthe (daniel.berthe@tum.de) or Franz Pfeiffer (franz.pfeiffer@tum.de) Contact person Daniel Berthe

Registering the research phase

The registration to all modules belonging to the research phase is done at once in the Dean's Office (Dekanat), normally at the beginning of the third Master's semester. When doing this, the certificate of mentor counseling has to be included. After agreeing on a topic with the future supervisor, students can print out the registration form in the student access.

After six months the Master's thesis should begin. Passing the Master's seminar and the Master's training will be recorded in TUMonline and you are officially alowed to start the thesis.

Handing in the thesis and getting the grade

Before handing in the Master's thesis, you must fill in the final titel of the thesis in the database (student access) and upload an electronic copy (PDF-file). Afterwards, you have to hand in two printed versions in the Dean's Office (Dekanat). You have to hand in the thesis at the latest on the deadline, please keep this on mind.

Extension of the deadline is only possible for good reasons. See FAQ on Thesis extension.

The Master's thesis will be evaluated by the supervisor and a second examiner. The second examiner is appointed by the examination board on suggestion of the supervisor (at the earliest after official registration of Master’s thesis).

The supervisor and the second examiner will also grade the Master's colloquium, which completes the research phase.

Re-enrollment during the research phase

For any examination you must be enrolled as a student of TUM. Hence you need to re-enroll for one semester more e.g. if you hand in your Master’s thesis or your Master’s colloquium takes place after the current semester ends.

With a due date for your thesis or a scheduled date for the colloquium e.g. in October, you should not forget to re-enroll for the winter semester and the corresponding deadline would be August 15.

Organization of the colloquium

The Master’s colloquium is organised and conducted by the supervisor together with the second examiner. The Master’s colloquium takes approximately 60 minutes, consisting of a 30 minutes talk and 30 minutes examination. Naturally, the inclusion of the colloquium in a group seminar is possible.

Completing your Master studies

At the end of the semester in which you reach the necessary 120 ECTS in your Master's degree program and passed all required exams you will be exmatriculated (according to §13(1) enrolment rules of TUM). In most cases the Master's colloquium will be the last exam to reach this point.

Taking further exams and final documents

You are principally allowed to take further exams after reaching the 120 ECTS, i.e. to replace previous results in the catalog of the focus areas with better results. Therefore it is generally not possible that the final documents are generated before you are exmatriculated. In case you need the final documents (or even preliminary documents) earlier, you have to request for it explicitly. See the Remarks on end of studies and final documents for further information.

Deriving the final grade

The final grade is the ECTS-weighted average of the graded exams.

Module	CP	ca. %
PH2001 Biomedical Physics 1	5	6,25
PH2002 Biomedical Physics 2	5	6,25
Fokus area	40	50
Master’s Thesis	30	37,5
Summe	80	100