Jobs

Open Positions:


PhD student positions in the Center for Computational Medicine in Cardiology of Prof. Krause and Prof. Auricchio

The Center for Computational Medicine in Cardiology (CCMC), Università della Svizzera italiana, is seeking for a highly motivated PhD student in numerical analysis and computational science to develop innovative numerical methods for simulating atrial fibrillation and therapeutic options in patient-specific models.

The project

Atrial fibrillation (AF), the most common clinically relevant heart rhythm disorder, is characterized by multiple fibrillation waves randomly propagating through the atrial wall. AF initiation and perpetuation, determined by a complex interplay of anatomy, electric substrate and ectopic activity, are difficult to evaluate in the clinical context. Consequently, the efficacy of available therapeutic options is still limited. Therefore, mathematical models of AF capable of dealing with such complexity may offer to clinicians the unique possibility to improve the management of AF.

Mathematical models for AF pose significant challenges from a computational viewpoint. Simulating electrophysiology of the heart is a space-time, multi-physics and multi-scale
problem. An incorrect or coarse discretization can have a tremendous effect on AF, possibly leading to non-physiological outcomes. AF episodes should last several seconds. Current numerical codes can only run on High-Performance Computing (HPC) infrastructure, limiting their applicability in the clinical context. Model personalization, which is fundamental for testing therapeutic outcome, includes anatomy segmentation and integration of electrophysiological clinical data in the model. In addition, simulating the therapeutic intervention is even more demanding: evaluating AF inducibility is essentially an uncertainty quantification problem (likelihood of triggering AF from a randomly chosen ectopic source).

The present project, therefore, aims at developing novel numerical methods to simulate AF, to personalize model parameters and to evaluate therapeutic options.
To this aim, we plan to exploit multi-level and multi-fidelity methods in novels ways, using grid and model hierarchies to reduce the computational burden and accelerate the numerical convergence, without compromising the physiological accuracy.

Your challenges
  1. To strengthen and extend your knowledge of cardiac physiology and patho-physiology, and to establish a strong, daily basis collaboration with practitioners from
    Cardiocentro Ticino;
  2. To further develop our atrial model and simulation software (Propag-5, Propeiko), and to optimize them to run on Piz Daint (CSCS), one of the most powerful
    supercomputers in the world;
  3. To analyze unique clinical data provided by Cardiocentro which includes high-resolution intracardiac maps;
  4. To design a methodology to tailor the atrial model to the patient using the above data, by means of modern data assimilation and parameter identification techniques;
  5. To attend and to present your research activity at international conferences;
  6. To publish your findings in international, peer-reviewed journals;
  7. To assist in teaching activities in mathematics and computational science.
Your profile
  1. You have a solid background in applied mathematics;
  2. You have a strong interest in translational and clinical electrophysiology;
  3. You have experience in computational science with programming environments (C, C++, Python, Matlab, R) and HPC computing (MPI, OpenMP, CUDA);
  4. You wish to bridge the gap between mathematical modelling and clinical practice;
  5. You hold a master’s degree in applied mathematics, physics or biomedical engineering;
  6. Experience in cardiac electrophysiology is an advantage but not strictly necessary.

We offer a 3-year PhD position in a multidisciplinary, international and inspiring environment.

The position is full-time and salary in accordance to regulations of Università della Svizzera italiana.

The position opens on January 2019.

For further information, please don’t hesitate to contact Dr. Simone Pezzuto (). How to apply Interested candidates must send their application documents (cover letter, CV, description of research interests and experience, names of at least two academic references), preferably as single PDF file, to Prof. Rolf Krause () and Prof. Angelo Auricchio ().


PhD student and Postdoctoral positions in the Advanced Computing Laboratory of Prof. Schenk

PostDoc Position (starting May 2019):

We are looking for an ambitious, highly motivated Postdoc candidate. The appointed candidate will strengthen the group to jointly develop software and models for energy trading and tackle computational challenges at extreme scales. The candidate will develop scalable algorithms and parallel solvers in the area of mathematical optimization of complex engineering trading systems.

What You Will Do:

  • Design and implement parallel algorithms for nonlinear optimization and graph analytics.
  • Collaborate with domain scientists from energy trading to identify computational problems and map them to distributed-memory computing platforms.
  • Publish and present research results in high-impact journals and top conferences in the areas of computational energy, parallel computing, machine learning, and high-performance graph analytics.
  • Collaborate with an international trading company based in Lugano on research topics related to the energy power market.

Desired Qualifications:

  • PhD degree in Computer Science, Computational Sciences, Applied Mathematics, or a related technical field.
  • Proficiency in C and/or C++ programming language.
  • Proficiency in one or more of the parallel libraries/languages: MPI, OpenMP, CUDA.
  • Ability to design and implement parallel algorithms for optimization, or graph analytics, on shared- and distributed-memory parallel platforms.
  • Ability to publish in top journals and conferences.
  • Ability to conduct research in a collaborative environment.
  • Software engineering tools: make, cmake, revision control systems (such as git).
  • One or more of the popular scripting languages such as Python and R.
  • Good oral and written communication skills.
  • Besides research activities, candidates will have the opportunity and duty to assist in teaching and advise students to build a solid foundation for an academic career.

The position (subject to project approval) is available starting from May 2019. Contracts will be on a 12-month renewable period. Evaluation of applications starts in February 2019 until positions are filled. Applications should be sent via email to Olaf Schenk ()

PhD Position (starting May 2019):

We are looking for an ambitious, highly motivated PhD candidate. The appointed PhD candidate will strengthen the group to jointly develop software and models for energy trading and tackle computational challenges at extreme scales. Successful candidates will have a strong background in computer science, mathematics (especially optimization), parallel computing, performance optimization, and/or computer systems. Candidates should be able to work (mostly) independently on a complex topic related to high-performance computing and must be highly motivated. Since most research topics are related to different fields (mathematics, computer science, computational science) candidates should be able to learn quickly and study topics independently.

Desired Qualifications:

  • Master degree in Computer Science, Computational Sciences, Applied Mathematics, or a related technical field.
  • Proficiency in C and/or C++ programming language.
  • One or more of the popular scripting languages such as Python and R.
  • Some background in parallel computing or high-performance computing is desirable.
  • Software engineering tools: make, cmake, revision control systems (such as git).
  • Strong interest to publish in top journals and conferences.
  • Strong interest to collaborate with an international trading company based in Lugano on research topics related to the energy power market.
  • Applicants need to be proficient in written and spoken English.

The PhD position (subject to project approval) is available starting from May 2019. Contracts will be on a 12-month renewable period. The SNF salary of PhD students at USI is 47'040 CHF (1st year) up to  50'040 CHF (4th year). Evaluation of applications starts in January 2019 until positions are filled. Applications should be sent via email to Olaf Schenk ()

Applications

If you are interested in joining our group as a Ph.D. student or postdoc, do not hesitate to contact Olaf Schenk. Please send your application package including the following documents (all as PDFs) to Prof. Olaf Schenk (Email: ):

  1. Cover letter (including a short explanation of why you want to do your PhD/Postdoc in the Advanced Computing Laboratory)
  2. CV
  3. BSc and MSc transcripts
  4. If applicable, please send a short research statement (write a one page description of a potential project that you would be interested in as a PhD/Postdoc project).

 PhD position in the group of Prof. Auricchio at CCMC

The Center for Computational Medicine in Cardiology (CCMC), part of the Institute of Computational Science (ICS), Università della Svizzera italiana, Switzerland is looking for a highly motivated PhD student to develop new methods for the analysis and processing of ECG signal data from patients with Brugada syndrome. Ideal candidates should have a solid background in biomedical engineering, signal analysis, statistics and possibly applied mathematics.

Interested candidates can send their applications with references and school transcripts Prof. Angelo Auricchio () or Dr. Giulio Conte ().

Further information can be found here


PhD Student and Postdoctoral positions in the group of Prof. Pivkin

PhD student and Postdoctoral positions are available in the Institute of Computational Science, Faculty of Informatics at the University of Lugano (Switzerland).
Ideal candidates must have demonstrated expertise in particle-based methods, high performance computing (HPC) and have some background in biology.  The project will require an efficient use of high performance computing resources including Europe's largest supercomputers. The positions are fully funded.
Inquiries should be directed to Prof. Pivkin (). Please email a cover letter and curriculum vitae including a list of publications and contact information of three references to igor.pivkin@usi.ch

More information can be found here


 

A post-doctoral position is available at the Limongelli Research Group (LRG) at University of Lugano USI (Switzerland)

The research will focus on development and application of computational methods for biosimulations. Topic is GPCR receptors, from ligand binding to receptor activation and oligomerization. Our group is mostly involved in the development and application of the ligand binding free energy method called Funnel-Metadynamics (FM) (key paper Limongelli et al. PNAS 2013, 110:6358-6363) and Coarse-Grained Metadynamics (CG-MetaD) simulations to investigate membrane proteins binding interaction (key paper Lelimousin, Limongelli, Sansom JACS 2016, 138:10611-10622). Applicants are expected to have expertise in both atomistic and coarse-grained molecular dynamics simulations. Further information on our research activities and publication list can be found at the following links:

Applicants are expected to have a solid base in physics and chemistry. The position is multi-year and salary above the European standard. People interested should send an email to including the following documents:

  • CV
  • List of publications
  • A brief statement of interest in our research

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