Tag Archives: RegionH

Postdoc in Brain-circuit Conduction Volocity Mapping

Are you curious to understand how fast brain regions communicate with each other and how the speed of communication is degraded by brain diseases? Are you curious to study disease-induced changes in the microstructure of myelinated axons and their electrophysical functional correlates? Are you eager to work in a dynamic multi-disciplinary research environment with a focus on structural brain imaging? If yes, you should send us your application.

The Danish Research Centre for Magnetic Resonance (DRCMR) at Copenhagen University Hospital Hvidovre (Denmark) is seeking a 3-year postdoc in brain circuit conduction velocity mapping. The postdoc position is supported by European Research Council consolidator grant “CoM-BraiN” – Conduction velocity mapping in the brain network in health and disease – where the aim is to use an MRI scanner to non-invasively map the conduction velocity of neuronal transmissions in the brain network between brain regions.

Your tasks:

  • To establish translational animal models (rodents) of neurodegenerative and demyelination diseases mimicking those in humans
  • To use optogenetic techniques to ablate and stimulate specific neuronal populations in the brain network
  • To measure and analyze the functional readout of brain stimulations using electrophysiology
  • To image the microstructural neuronal changes in the animal models. Here you can use classical EM and immunohistochemistry but also 3D imaging techniques such as x-ray synchrotron imaging and light-sheet fluorescence microscopy to obtain 3D insights into anatomy.
  • To be fully integrated with the team of preclinical researchers and to prepare the animals for MRI scanning

Your profile:

You should be a motivated international-minded team player and have:

  • A PhD degree in Neuroscience or corresponding qualifications within circuit or degeneration neuroscience
  • Worked with animals and have established/used animal models
  • Documented practical skills in animal handling, stereotaxic surgeries, and anaesthesia
  • Worked with tissue preparation for IHC and microscopic imaging used in your scientific publications
  • Interest in combining different imaging and functional measurements, e.g. histology and MRI.
  • Fluency in English writing and scientific communication
  • Independent working and thinking but also integrate with and contribute to the research team.

Furthermore, having worked with viral injections and/or single-cell or LFP electrophysiological recordings is an advantage.

About us:

The project will be carried out at the Danish Research Centre for Magnetic Resonance (DRCMR) which is a leading research centre for biomedical MRI in Europe (www.drcmr.dk). Our mission is to triangulate MR physics and basic physiology from preclinical to clinical research. Approximately 75 researchers from a diverse range of disciplines are currently pursuing basic and clinically applied MR research and its validation with a focus on structural, functional, and metabolic MRI of the human brain and its disorders. The DRCMR is embedded in the Center for Functional and Diagnostic Imaging and Research, a large diagnostic imaging department including all biomedical imaging modalities at the Copenhagen University Hospital Hvidovre.

The DRCMR has a state-of-the-art MR-research infrastructure enabling translational research, which includes a pre-clinical 7T Bruker MR scanner, six whole-body MR scanners (one 7T, three 3T and two 1.5T scanners) and a High-Performance Computer cluster for neuroimaging. The DRCMR has pre-clinical labs, a neuropsychology laboratory, an EEG laboratory, and two laboratories for non-invasive brain stimulation.

Our preclinical labs perform basic research in functional, microstructure and plasticity imaging which is centered around the 7T Bruker BioSpec MRI system. The MRI scanner is fully equipped with powerful gradients and a cryo-coil system for rodent imaging. The preclinical labs include a GMO2 classified virus lab and are fully equipped with stereotaxic surgery equipment, and electrophysiology facilities. Our cross-disciplinary research team is designing and validating new types of diffusion MRI and quantitative MRI imaging technologies to non-invasively disentangle the microstructure of brain network and function. Here, it is key to have a true interest in how the microanatomy of the normal and diseased brain can look like and how it impacts brain function. It is our vision to improve the future non-invasive imaging technologies for better patient diagnosis.

Your position:

The candidate will be employed for a postdoc period of 36 months with the possibility of an extra year of extension at the Danish Research Centre for Magnetic Resonance where he/she will be part of the Microstructure and Plasticity Group (drcmr.dk/map) and the Preclinical Method group, both led by Associate Professor Tim B. Dyrby.

Salary and Terms of Employment

Salary, pension and terms of employment are by the agreement between the Danish Regions (Danske Regioner) and the relevant professional organization. The salary depends on background education and seniority. Further, supplements can be negotiated. Note that candidates coming from abroad may be eligible for tax reductions. The position is open for candidates of all nationalities. We expect you to start on December 1st, 2022 or soon thereafter.

We see diversity as a strength and encourage all persons regardless of gender, age, ethnicity, disabilities or religion to apply.

Applications should include a cover letter, CV and list of publications together with the names of three references. Applications must be submitted online through the RegionH job portal.

Application deadline: September 5, 2022 at 23:59 CET)

For further information regarding the position please contact Associate Professor Tim B. Dyrby
Email: Tim.Bjoern.Dyrby@regionh.dk

Facts

Job type

Postdoc

Workplace

Hvidovre Hospital

Work hours

37 hours

Job number

243019

Application due

05-09-2022

Contact us

Tim Bjørn Dyrby
Seniorforsker
E-mail
38626542


Read the job description at the hospital´s homepage

Apply

​​​

Post expires on Monday September 5th, 2022

Postdoctoral Researcher in Cognitive Computational Modeling of Functional Magnetic Resonance Imaging Data

The Danish Research Centre for Magnetic Resonance (DRCMR) has an open research opportunity for a highly motivated postdoctoral scientist to conduct cutting-edge research at the intersection of cognitive neuroscience, clinical neuroscience, and magnetic resonance imaging.

Join us as we start on a project testing the predictions of a novel theory of dopamine signaling in the human brain and its implications for Parkinson’s disease.

We are looking for a candidate with strong computational modeling skills in the context of MRI of the human brain. The position is part of a project with the aim to map the dopaminergic system with functional MRI and to measure how it changes in patients with Parkinson’s disease. You will mainly be involved in the data acquisition and data analysis part of the project, further developing and applying a computational technique for topographic mapping in fMRI data. You will have the opportunity to collaborate with psychologists, MDs, physiologists, basic and clinical neuroscientists.

About us:

The Danish Research Centre for Magnetic Resonance (DRCMR) is one of the leading research centers for biomedical MRI in Europe (www.drcmr.dk). Our mission is to triangulate MR physics, basic physiology, and clinical research. Approximately 70 researchers from a diverse range of disciplines are currently pursuing basic and clinically applied MR, electrophysiology, and brain stimulation research with a focus on structural, functional, and metabolic MRI of the human brain and its disorders.

MRI is the scientific focus area of the DRCMR. We are currently developing a novel analysis approach to generate topographic maps of cognitive computational variables with fMRI data in order to gain much richer insights into human cognition than commonly used fMRI analysis approaches. We aim to use this technique to gain novel insights into the effects of neurodegeneration of the dopaminergic system on brain function, cognition and behavior in Parkinson´s disease.

The DRCMR is part of the Center for Functional and Diagnostic Imaging and Research, a large diagnostic imaging department that covers all biomedical imaging modalities at Copenhagen University Hospital Hvidovre.

The position:

You will be employed as a postdoc for a two-year period at the Danish Research Centre for Magnetic Resonance with good possibilities of extension. You will join the Movement Disorders group led by Research Fellow David Meder. The project entails close collaborations with other researchers in the Clinical Precision Imaging research area and the Cognitive & Computational Neuroscience research area.

As a postdoc you will have close interaction with DRCMR-researchers from a great variety of disciplines and with collaborators as well as clinicians. We act in concert, and you are never alone with your tasks.  

Your daily tasks will vary according to the flow of the projects, but will mainly be centered around:

  • conducting MRI experiments with healthy participants and patients with Parkinson’s disease
  • analyzing MRI and behavioral data, including the application of our topographic mapping technique
  • engaging in teaching, knowledge dissemination, and publication of results in international, recognized scientific journals

The ideal candidate

  • You hold a PhD degree in Neuroscience or a related field.
  • You are an expert in computational modeling and/or fMRI data analysis.
  • You enjoy being part of a multidisciplinary and international research team and integrating technological innovations into your neuroscience research.
  • You have experience in conducting experiments with human subjects—preferably including patients.
  • Additional expertise in Bayesian modeling or Bayesian statistics is a major advantage.
  • You have excellent written and interpersonal communication skills.

The project will be supervised by Research Fellow David Meder in close collaboration with Prof. Hartwig Siebner and senior researcher Oliver Hulme.

Starting date: is expected to be October 2022.

Salary and Terms of Employment

You will be employed as a postdoc for a period of 24 months with good possibilities of extension. Salary, pension and terms of employment are in accordance with the agreement between the Danish Regions (Danske Regioner) and the relevant professional organization. The salary depends on background education and seniority. Further, supplements can be negotiated. Note that candidates coming from abroad may be eligible for tax reductions. The position is open for candidates of all nationalities.

We see diversity as strength and encourage all persons regardless of gender, age, ethnicity, disabilities or religion to apply.

Applications should include a cover letter, references, list of publications and CV (optionally narrative CV, see e.g. https://royalsociety.org/topics-policy/projects/research-culture/tools-for-support/resume-for-researchers/). Applications must be submitted on-line through the RegionH job portal.

Application deadline: 31st August, 2022 at 08:00 (CET)

For further information regarding the position please contact Research Fellow David Meder
Direct line:  +45 3862 0633; Email: david.meder@regionh.dk

Facts

Job type

Postdoc

Workplace

Hvidovre Hospital

Work hours

37

Job number

243022

Application due

31-08-2022

Contact us

David Meder
Postdoc
E-mail

Read the job description at the hospital´s homepage

Apply

Post expires on Wednesday August 31st, 2022

PhD fellowship in Computer Science: PhD Project in real-time radiation dose plan optimization using deep learning for risk based dose planning

Department of Oncology, Rigshospitalet and

Department of Computer Science, Faculty of SCIENCE, University of Copenhagen

The Section for Radiation Therapy at Rigshospitalet and Department of Computer Science at University of Copenhagen invites applicants for a PhD fellowship in real-time radiation dose plan optimization using deep learning for risk based dose planning which is part of a larger project financed by the Danish Cancer Society.

Start date is (expected to be) 1st of September 2022 or as soon as possible thereafter.

The project

The project has two main parts.

  1. Develop dose optimization tools based on deep learning

Deep learning based dose optimization is a new area with relatively limited prior work that has mostly focused on replicating existing clinical dose distributions. This project aims to rethink how dose optimization can be done with deep learning by integrating knowledge from machine learning, image processing, and the physics of radiation therapy to develop methods capable of optimizing dose criteria directly instead of just replicating them. This involves development of new network architectures with machine parameters as direct output and optimization criteria that measure the quality of a given plan. The working hypothesis is that deep learning will be able to deliver better plans in a shorter amount of time than current physically based optimization systems in use today.

  1. Develop risk based dose planning tools

Dose planning is a process where dose to cancer and normal tissue is distributed by considering a range of predefined constraints, such as min, max and mean dose to given relevant structures such as the target tumor and organs at risk. These are criteria that have been determined in relatively simple studies of side effects and recurrences, but do not always consider the total risk of late effects in a given patient well. This part of the project aims to use the above dose optimization tools, to compute a large number of plans with different side effect profiles and present the most relevant to the treating physician. The target is an improved and more individualized radiation treatment. Modeling the space of relevant solutions is a computational challenge that has to be addressed in order for the physician not to be presented with too many similar or irrelevant solutions.

See https://doi.org/10.1259/bjr.20210303 for some of our prior work on the subject.

Who are we looking for?

We are looking for candidates within the field(s) of computer science, physics, mathematics or related fields. To be eligible to apply for these positions, applicants need to have or be about to obtain an MSc degree in one of these fields (education level options are discussed further below). In addition, the ideal candidate might have

  • solid programming experience
  • experience in image analysis and machine learning / deep learning
  • knowledge of the physics of radiation and radiation treatment
  • have a wish to apply advanced computer science and machine learning techniques in medicine
  • be creative, solution oriented and able to work both independently and in research teams
  • Relevant publications
  • Relevant work experience
  • Other relevant professional activities
  • Good language skills, the group is international and fluency in spoken and written English is a requirement

Our group and research- and what do we offer?

The project will be carried out at and is part of an existing cross-disciplinary collaboration between the Radiotherapy Research group at the Department of Oncology, Rigshospitalet and at the Image Analysis, Computational Modelling, and Geometry (IMAGE) section at the Department of Computer Science, University of Copenhagen aiming to combine state of the art image analysis and machine learning tools, expertise, and computational resources with state of the art radiation therapy equipment, knowhow, and large clinical databases recording treatment data and outcomes from one of the largest European radiotherapy departments. Both involved research groups are relatively large, diverse and internationally renowned, each consisting of more than 20 PhDs and Postdocs.

The project will be co-supervised by Professors Ivan Richter Vogelius and Lena Specht from the Department of Oncology at Rigshospitalet, Assistant Professor Jens Petersen from the Department of Computer Science and the Principal supervisor is Associate Professor, Sune Darkner, Department of Computer Science, University of Copenhagen.

The PhD programme

You can undertake the PhD programme as

A three year full-time study within the framework of the regular PhD programme (5+3 scheme), if you already have an education equivalent to a relevant Danish master’s degree.

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Getting into a position on the regular PhD programme

Qualifications needed for the regular programme
To be eligible for the regular PhD programme, you must have completed a degree programme, equivalent to a Danish master’s degree (180 ECTS/3 FTE BSc + 120 ECTS/2 FTE MSc) related to the subject area of the project, e.g. Computer Science, Physics, Mathematics, or similar. For information of eligibility of completed programmes, see General assessments for specific countries and Assessment database.

Terms of employment in the regular programme
Employment as a PhD fellow is full time and for a maximum of 3 years.

Employment is conditional upon your successful enrolment as a PhD student at the PhD School at the Faculty of SCIENCE, University of Copenhagen. This requires submission and acceptance of an application for the specific project formulated by the applicant.

The terms of employment and salary are in accordance with the agreement between the Ministry of Finance and The Danish Confederation of Professional Associations on Academics in the State (AC). The position is covered by the Protocol on Job Structure.

Responsibilities and tasks in the PhD programme

  • Carry through an independent research project under supervision
  • Complete PhD courses corresponding to approx. 30 ECTS / ½ FTE
  • Participate in active research environments, including a stay at another research institution, preferably abroad
  • Teaching and knowledge dissemination activities
  • Write scientific papers aimed at high-impact journals
  • Write and defend a PhD thesis on the basis of your project

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Application and Assessment Procedure

Your application including all attachments must be in English and submitted electronically by clicking APPLY NOW below.

Please include

  1. Motivated letter of application (max. one page)
  2. Your motivation for applying for the PhD project.
  3. Curriculum vitae including information about your education, experience, language skills and other skills relevant for the position
  4. Original diplomas for Bachelor of Science or Master of Science and transcript of records in the original language, including an authorized English translation if issued in another language than English or Danish. If not completed, a certified/signed copy of a recent transcript of records or a written statement from the institution or supervisor is accepted.
  5. Publication list (if possible)
  6. Reference letters (if available)

Application deadline:

*The deadline for applications is 15th of August 2022.

We reserve the right not to consider material received after the deadline, and not to consider applications that do not live up to the abovementioned requirements.

The further process
After the deadline, a number of applicants will be selected for an interview. Interviews with selected candidates are expected to be held ultimo August.

Questions
For specific information about the PhD fellowship, please contact one of the supervisors, Assistant Professor and computer scientist, Jens Petersen, phup@di.ku.dk, direct phone: +45 60687733 or Ivan Richter Vogelius, Medical physicist, Department of Clinical Oncology, ivan.richter.vogelius@regionh.dk, +45 35459885.

General information about PhD study at the Faculty of SCIENCE is available at the PhD School’s website: https://www.science.ku.dk/phd/.

Facts

Job type

PhD

Workplace

Rigshospitalet – Blegdamsvej

Work hours

37 timer

Job number

241871

Application due

15-08-2022

Contact us

Ivan Richter Vogelius
E-mail

Read the job description at the university homepage

Apply

Post expires on Monday August 15th, 2022

Postdoctoral position in influence of brain tumor microenvironment, Copenhagen, Denmark

A position as postdoctoral fellow is available for a translational project on meningioma microenvironment. The translational project combines work at two complementary pathology/immunology laboratories with clinical research based at the department of Neurosurgery, Copenhagen University Hospital.
The laboratories are the Bartholin Institute affiliated with Department of Pathology, Copenhagen University Hospital, and the Vilhardt lab at the Department of Molecular and Cellular Medicine, University of Copenhagen.
The desired start date is 1 September 2022. The position is available from 1 September 2022 and is offered for three years.


Our group and the position
The selected candidate will be part of the meningioma group at the personalized neurosurgery research center (www.PERNS.dk). The project comprises direct translation from clinical neurosurgery to experimental pathology at the Kristensen lab (Professor, consultant neuropathologist Bjarne Winther Kristensens research group (www.bric.ku.dk/research-groups/Research/kristensen-group) and cell biology/immunology in the Vilhardt lab (Associate professor Frederik Vilhardt group; icmm.ku.dk/english/research-groups/vilhardt-group/).
A main interest in the group is how neuroinflammation and the tumor microenvironment influence meningioma aggressiveness, tumor-brain crosstalk and therapy response. We use both patient-derived tissue and experimental in vitro and in vivo models in our research. The postdoc project will focus on crosstalk between tumor cells and microenvironment with both spatial transcriptomics, single cell sequencing and experimental in vitro and in vivo models including pre-clinical meningioma models. The Bartholin laboratory has the newest and most advanced laboratory instruments for these purposes while the Vilhardt lab is equipped for morphological and mechanistic research on biology of microglia and macrophages.


We seek an outstanding and self-motived new colleague with a PhD degree in immunology or cancer biology, who can independently carry out research projects. The future colleague will also actively contribute to other research projects in the group and co-supervise PhD students as well as MSc and MD students.


The ideal candidate has experience with at least some of the following:
• Single cell sequencing and/or spatial transcriptomic techniques
• Molecular techniques like PCR and sequencing
• Advanced data analysis and bioinformatics
• Cell/tissue culturing
• Isolation of cells from tissues
• In vitro models of cell-cell interactions
• Cancer cell immortalization and establishment of cell lines
• Experimental in vivo models
• CRISPR/Cas9 genome editing
• Immunohistochemical staining methods including multiplexing and image analysis
• Assisting in grant writing
• Training of students and guests
• Teaching activities

Your education and background:
• A PhD degree in immunology, meningioma and cancer biology or related topic
• At least one submitted or accepted first authorship in a relevant journal
• Excellent collaborative skills
• A positive and motivating attitude making you an excellent role model
• Diligence and intellectual flexibility as required for an academic position
• An open and positive mind that actively contributes to the infrastructure and the success of the research team

For further information please contact Professor Tiit Mathiesen (tiit.illimar.mathiesen@regionh.dk), Professor Bjarne Winther Kristensen (bjarne.winther.kristensen.01@regionh.dk) and Associate professor Frederik Vilhardt (vilhardt@sund.ku.dk).

Application, salary etc.
The successful applicant will be employed in accordance with the agreement between the Ministry of Finance and AC (the Danish Confederation of Professional Associations).

The application must include the following:
• A letter of motivation
• A curriculum vitae including information on previous employment
• A full list of publications stating the scientific publications on which the applicant wishes to rely

Incomplete applications and applications received after the deadline will neither be considered nor evaluated.

To qualify you must have obtained a PhD or equivalent. Applications will be assessed by an independent expert assessor/committee. Applicants will be informed of their assessment by the university.

Rigshospitalet wishes our staff to reflect the diversity of society and thus welcomes applications from all qualified candidates regardless of personal background.


Application deadline: 15 August 2022
 

An excellent research environment
PERNS (www.PERNS.dk) is the research structure for the department of neurosurgery with clinical and translational research with participation of departments of neuroradiology, nuclear medicine, pathology and experimental laboratories. We have biweekly research meetings and organize workshops/courses in our main research areas 3-5 times / year. Meningioma projects are supported by a strategic Lundbeck foundation Professors grant.
The Bartholin Institute is localized in the Copenhagen Biocenter, University of Copenhagen together with BRIC and the Finsen laboratory where 28 research groups share core facilities and work on research projects relevant for cancer, diabetes, neurological and metabolic diseases (www.bric.ku.dk).


The Morphogenesis and Differentiation Programme at the Department of Cellular and Molecular Medicine (ICMM) at Copenhagen University presents a dynamic environment with many PhDs and Postdocs, many within the fields of either breast cancer or the study of cancer pathways in drosophila. Weekly seminars, a yearly 2-day seminar for the ICMM as such, and vivid interactions with other researchers in the free science environment at Faculty of Health Sciences. The Vilhardt group currently includes one full time technician, one PhD student, and several graduate students, and in addition has many external collaborations.The Kristensen group is part of BRIC, which organizes weekly journal and data clubs, seminars with invited speakers and has an excellent PhD programme, MoMeD and Postdoc Career Programme. Moreover BRIC is part of the European alliance, EU-life consisting of 13 excellent life science research institutions eu-life.eu/.

About Department of Neurosurgery
The Department of Neurosurgery, Rigshospitalet is a part of The Neurocenter. It is the largest neurosurgical department in Northern Europe with 3000 annual cranial operations, serving the populations of Sjaelland, Faerø islands and Greenland, which allows for a unique access to patient data, observation before and after surgery and access to tissues. The Head of department, Morten Ziebell, has the responsibility to lead the department which comprises approximately 200 staff, including 2 professors, 20 consultants, residents, nurses and researchers. Tiit Mathiesen is responsible for research and Helle Bak Wilhjelm is research coordinator.

Department of Cellular and Molecular Medicine
The Dept. of Cellular and Molecular Medicine (ICMM) is located at the Faculty of Health Sciences within short walking distance from either Rigshospitalet, BRIC and Bartholin Institute. ICMMcurrently comprises five research programs, three high profile Research Centers, as well as a number of internationally renowned research groups organized into 35 different groups (www.icmm.ku.dk). The programs span from molecular ageing of the brain over morphogenesis and differentiation (including cancer), to medical genetics and glycomics.
The vision of the institute is to uncover new mechanistic insight as guidelines for translational medicine and the development of novel therapies. The scientists at ICMM are involved in high quality research based undergraduate and graduate teaching programs at the University of Copenhagen.
The ICMM as a whole, and the Morphogenesis and Differentiation programme in particular, offers a creative and ambitious scientific environment with many different nationalities such that English is the working language.

About Department of Pathology
The Department of Pathology, Rigshospitalet is a part of The Centre of Diagnostic Investigation, and as the only pathology department in the country has diagnostics in all subspecialties of pathology. The department handles both main functions, regional functions and highly specialized functions. The diagnostic work is performed in close collaboration with equally highly specialized clinical departments.

The Head of Department and the Senior Chief Biomedical Laboratory Scientist have the responsibility to lead the department and the approx. 200 staff members, that is made up of 2 professors, 29 senior consultants, 12 consultants and 9 trainees. In addition, 5 molecular biologists, 1 biochemist, 1
civil engineer, 1 Msc are employed in the department. There are currently 7 PhD students and senior researchers affiliated.

About Centre of Diagnostic Investigation
The Centre of Diagnostic Investigation is a collection of eight highly specialised departments with approx. 1.600 staff members and an annual turnover of 1 Mia. Dkr. The core services are diagnostics and patient treatment, education and research. The Centre of Diagnostic Investigation supports patient treatment each year by producing more than 10 mio. laboratory analyses, more than 650.000 imaging-based diagnoses and it has more than 1 mio. contacts to both patients and donors.

The 33 professors and other research staff publish more and 500 scientific articles in international renowned journals. Besides The Department of Pathology, the Centre of Diagnostic Investigation consists of Department of Diagnostic Radiology, Department of Clinical Biochemistry, Department of Clinical Genetics, Department of Clinical Immunology – Blood Bank and Tissue Typing Laboratory, Department of Clinical Microbiology, Department of Clinical Physiology, Nuclear Medicine and PET, Medical Research Library and DEKS (Danish Institute for External Quality Assurance for Laboratories in the health sector).

Fakta

Jobtype

Postdoc

Arbejdssted

Rigshospitalet – Blegdamsvej

Arbejdstid

Fuldtid

Jobnummer

242056

Ansøgningsfrist

15-08-2022

Kontakt os

Tiit Illimar Mathiesen
Professor
E-mail

Read the job description at the university homepage

Apply

Post expires on Monday August 15th, 2022