Category Archives: News

General news articles from the ESB.

PhD position at the University of Zaragoza

Position and project

The Biomedical Signal Interpretation and Computational Simulation group at the University of Zaragoza (Spain) seeks a PhD Student to work on the interface between Cardiac Electromechanical Modeling and Artificial Intelligence in the context of ischemic heart disease.

The position is part of the BRAV∃ project funded by Horizon 2020 programme of the European Commission. BRAV∃ aims at providing a lasting functional support to injured hearts through the fabrication of personalized tissue engineering-based biological ventricular assist devices (BioVADs). This ambitious project will combine multimodal deep cardiac phenotyping, advanced computational modeling and biomechanical analysis in a large animal model of disease to create a personalized 3D printable design.

The candidate will work on developing deep-learning neural networks trained on simulated data from large-scale physics-based electromechanical swine models, which is expected to allow obtaining simulated electromechanical data in an efficient way while maintaining accuracy as high as possible. The proposed multidisciplinary approach ultimately aims at contributing to shed light into the interaction between BioVADs and recipient hearts.

Qualifications

Candidates must hold an MSc in Engineering, Mathematics or Physics or similar discipline.

Expertise in computational modeling and/or signal processing is recommended. Strong oral and written communication skills in English are a must. Experience in Python and/or C++ programming is preferred. Previous experience with numerical methods for solving PDEs (e.g. Finite Element Method, Meshless Methods), Artificial Intelligence (e.g., neural networks) and CUDA programming is considered a plus.

The I3A Institute at University of Zaragoza

The Aragon Institute of Engineering Research (I3A), within the University of Zaragoza, comprises more than 500 researchers and a vibrant environment for multidisciplinary research.

Every year I3A participates in more than 300 research projects funded with over 10 M€ and more than 200 contracts with industry with 5 M€ turnover. Around 50 PhD theses supervised by I3A members are defended and nearly 300 papers are published in JCR journals every year. The Biomedical Signal Interpretation and Computational Simulation group at I3A, University of Zaragoza, is a leading expert in the development of signal processing tools to aid in the diagnosis, prognosis and treatment of cardiovascular diseases and conditions. This expertise is combined with modeling and simulation of cardiac electrophysiology to investigate causes and consequences of the phenomena observed from the processed signals.

Application

For additional information about the position, please contact Dr. Esther Pueyo

(epueyo@unizar.es) or Dr. Konstantinos Mountris (kmountris@unizar.es).

Bone Mechanics and Tissue Engineering Workshop in Zaragoza

We are pleased to present you the Workshop “Bone Mechanics and Tissue
Engineering” that will be held the 6-7th February 2020 in Zaragoza
(Spain) (http://curabone.unizar.es/)

Where:

Edificio Paraninfo, University of Zaragoza (Spain)

Who:

•    Scott Hollister – Georgia Institute of Technology and Emory
University (USA)
•    Gwendolene Reilly – The University of Sheffield (UK)
•    Bert van Rietbergen – Eindhoven University of Technology (NL)
•    Michael Skipper Andersen- Aalborg University (DK)
•    José Manuel García Aznar – University of Zaragoza (ES)

Registration form:

The workshop is free. But you need to register before 15th January 2020.
Limited places.
Lunches are not included, only the workshop materials.

Dra. MªAngeles Pérez Ansón

Associate Professor of Structural Mechanics (Profesora de M.M.C. y T.E.)
Mechanical Engineering Dept. (Depto. Ingeniería Mecánica)
Escuela de Ingeniería y Arquitectura (EINA)
Aragón Institute of Engineering Research (I3A)
University of Zaragoza (Universidad de Zaragoza)

PhD scholarship @Pompeu Fabra, Barcelona

PhD Project D-Risc: Multiscale modelling & data mining for intervertebral disc degeneration risk prediction
(Pompeu Fabra University, Barcelona, Spain)

GRANT PROGRAMME: “LA CAIXA” DOCTORATE INPHINIT

35 PhD fellowships for early-stage researchers of any nationality to pursue their PhD studies in research centres accredited with the Spanish Seal of Excellence Severo Ochoa, María de Maeztu or Health Institute Carlos III. This frame is addressed exclusively to PhD research projects on STEM disciplines: life sciences and health, experimental sciences, physics, chemistry and mathematics.

More information

POSITION: “D-Risc: Multiscale modelling & data mining for intervertebral disc degeneration risk prediction

Area and discipline: please choose 1 from the following list:

Area of knowledge

Physical Sciences, Mathematics and Engineering

Group of disciplines
Telecommunications, Electronics, Robotics, Biomedical Engineering, Automation Engineering, ICT

Discipline

Biomedical Engineering, ICT

Research project / Research Group description:

Research project and main focus of the research line of the research group in which the fellow would join

D-Risc aims to reveal critical interplays of crucial stimuli within the intervertebral disc (IVD) that might lead to IVD degeneration, based on morphological and physiological parameters. Different models at the organ, tissue and cellular levels will be used. Specifically, the project will combine multi-physics finite element models at the organ and tissue levels with agent-based and network models at the cell and molecular levels, to simulate the local regulation of IVD cells in multifactorial physical and biochemical micro-environments. Simulation results will be mined with patient-specific morphological, physical activity and life-style data. Depending on the identified multiscale paths that can lead to degeneration-related cell activity (i.e. catabolic shift of cell activity), personalised recommendations for prevention- and optimised conservative treatments will be established.

D-Risc will exploit the competencies of the Biomechanics and Mechanobiology (BMMB – http://biomech.es) lab of the BCN MedTech research unit at the Department of Information and Communication Technologies (DTIC) of the Universitat Pompeu Fabra (UPF), Barcelona. The project will be additionally implemented in cooperation with the medical image analysis and machine learning areas of BCN MedTech (http://bcn-medtech.upf.edu/).

UPF was established in 1990 as a public university with strong dedication to excellence in research and teaching. It is the 1st Spanish university in the world Top 200 (THE2020), the 11th (ranked 5th in Europe and 1st in Spain) under 50 years (THE18). It also ranked 5th in Europe and 1st in Spain (U-Multirank 2018) in teaching and research performance (U-Ranking, BBVA Foundation & Ivie, 2018), quality output (excellence rate), normalized impact and percentage of collaborative papers with foreign institutions. UPF is full member of the Big Data Value Association (BDVA). DTIC has since its creation emphasized scientific excellence and internationalisation as core aspects of its activities. It has an important track record of active participation in EU projects (a total of 66 FP7 projects and 10 other projects in non-FP7 program such as CIP, Ambient Assisted Living and the Lifelong Learning Program, and, up to now 44 H2020 projects). It is the Spanish university department with the largest number of ERC grants (9 FP7 and 9 H2020) and is part of the FET Flagship initiative “The Human Brain Project”. DTIC has been awarded the “María de Maeztu” excellence by the Spanish government for the quality and relevance of its pioneering scientific research.

BCN MedTech is the Barcelona Centre for New Medical Technologies at UPF. It focusses on biomedical integrative research, including mathematical and computational models, algorithms and systems for computer-aided diagnosis and treatment, and the translation thereof into relevant clinical problems and industrial products. It has a team of 60 full time researchers working on medical image and signal processing, computational simulation, computer-assisted surgery and biomedical electronics. Within BCN MedTech, the BMMB lab combines mechanistic and stochastic theoretical modelling with computational methods in biology and physics, to rationally explore the complex multiscale interactions between tissue multiphysics and biological processes, and to understand the bottom-up regulation of the functional biomechanics of organs in health and disease. The specific targets are cartilaginous (rheumatic disorders), bone (osteoporosis), arterial (atherosclerosis) and lung (emphysema) tissues. The project will combine this expertise with computational anatomy and manifold learning techniques for patient stratification, from the BCN MedTech medical image analysis and machine learning areas.

Job position description: role, responsibilities and skills required within the project/group.

D-Risc capitalizes on previous research at BCN MedTech, to assess the risk of disc degeneration (DD). Patient-specific IVD finite element (FE) models will be coupled to agent-based (AB)/network cell models, to predict catabolic shifts of cell activity in function of morphological, metabolic and mechanical factors. According to subsequent machine learning analyses, specific combination of factors will be identified as possible risks for DD.

Low back pain (LBP) affects up to 85% of people at some point in life. It is strongly related to DD, with phenotypes that cannot be explained solely by genetic factors as they also depend on mechanical loads.

In vivo or in-vitro studies investigated DD at the cell and tissue levels, but they are costly and limited in terms of parameterization, effective number of measurements and long-term observations. In contrast, computational modelling allows testing different boundary conditions (mechanical, biochemical, …) and numerous theoretical hypotheses over long timescales, at a relatively limited cost. 

Coupled to personalized organ models, multiscale models and simulations can indicate common patterns in specific groups of IVD, as well as critical combinations of cell stimuli and the effects thereof on DD observable features. In particular, the mining of model inputs together with simulated data can reveal such patterns and combinations.

The successful candidate will join the BCN MedTech team and will be co-supervised by faculties, experts in computational multiscale modelling and machine learning. (S)He will systematically analyze the 3D anatomy of 500 patient-specific IVD FE models, available at UPF, to define relevant groups of FE /AB multiscale simulations. Then, (s)he will use machine learning algorithms to build correlation models among personalized model inputs and predicted cell activity, to create a DD risk score model. 

D-Risc will involve key collaborations with population cohort infrastructures in UK and Finland.

PRINCIPAL INVESTIGATOR & CONTACT AT HOST

Dr Jérôme Noailly
Contact: jerome.noailly@upf.edu

Barcelona Centre for New Medical Technologies (BCN MedTech)

Department of Information and Communication Technologies

Universitat Pompeu Fabra, Barcelona, Spain

ADDITIONAL INFO

Press articles related with the work of the BCN MedTech BMMB team in disc degeneration:

CONTRACT CONDITIONS & ELEGIBILITY

The maximum total payment amount will be €122,592, as broken down below:

  • Three annual payments of €34,800 each one. Where applicable, the amounts corresponding to the Social Security contributions payable by the employer (in this case, the host institution), as well as any other compulsory fee, whether current or that may be provided for in a future legal framework, will be deducted from the yearly gross amount of €34,800 to be received by the fellow.
  • €3,564 per year, as an additional amount for conferences, courses, research stays, consumables, equipment, charges for the use of intellectual property, etc. This additional amount will be managed by the centre for the benefit of the fellow and must be justified separately.
  • ”la Caixa” Banking Foundation will award a prize of €7,500, which will be paid in the fourth year, should the fellow be able to deposit their thesis within 6 months after the third year of their fellowship has ended.
  • ”la Caixa” Banking Foundation will sign an agreement with the host institution, which will receive the fellowship payment directly. This must be wholly allocated to cover the amounts arising from Social Security contributions and other required corporate expenses payable by the employer, where applicable, as well as the fellow’s gross stipend and the additional amount.

Eligibility:

  • Experience: At the call deadline, applicants must be in the first four years (full-time equivalent research experience) of their research careers and not yet have been awarded a doctoral degree.
  • Studies pursued: At the time of recruitment, candidates must comply with one of the following options:
    • To have completed the studies that lead to an official university degree adapted to the European Higher Education Area awarding 300 ECTS credits, of which at least 60 ECTS credits must correspond to master level.
    • To have completed a degree in a university not adapted to the European Higher Education Area that gives access to doctoral studies. The verification of an equivalent level of studies to the ones mentioned above will be made by the university when the admission procedure starts.
  • Geographic mobility: For candidates applying to Spanish centres or units: Candidates must not have resided or have carried out their main activity (work, studies, etc.) in Spain for more than 12 months in the 3 years immediately prior to the call deadline.
  • Level of English: Candidates must have a demonstrable level of English (B2 or higher).

APPLICATION & DEADLINES

How to apply: https://obrasociallacaixa.org/en/investigacion-y-becas/becas-de-la-caixa/doctorado-inphinit/incoming

Deadline: 4 February 2020

Important dates:

18 February 2020 – Deadline for submitting the language certificate.

16 April 2020 – Notification of the shortlist results.

27 and 28 May 2020 – Face-to-face interviews in Barcelona.

2 June 2020 – Publication of the final list of selected candidates.

From 2 to 30 June 2020 – Matching research centre – fellow.

POSTDOCTORAL FELLOW in PARIS

Project information:

The “Birdsong for Human(e) voices” project is funded by the CRI and is led by Dr. Pauline Provini. More information on the project: https://projects.cri-paris.org/projects/tY6OqgWS/summary

Job Description Summary:

We are searching for a highly motivated, independent, multidisciplinary postdoctoral researcher to be part of a team focusing on understanding the biomechanics of birdsong. The postdoctoral researcher will play a substantive role in planning and conducting research by using quantitative modelling methods. In close collaboration with the Principal Investigator, the postdoctoral researcher will

  • Participate to the collection of experimental data (multiple X-ray and light high-speed videos, Particle Image Velocimetry data, acoustic data, etc.) of different species of birds during vocalization.
  • Fluid dynamics analysis (CFD model) of bird vocalization.
  • Aero-acoustic modelling of birdsong based on experimental data collected by the team.
  • Draft and publish scientific papers derived from the data.
  • Attend annual scientific meetings to present research derived from the project research.
  • Actively participate to meetings, seminars, and CRI life in general.

Minimum Qualifications:

PhD qualification with relevant research experience in biomechanics (e.g. engineering, modelling) or a closely related field.

Additional positive qualifications:

Specific expertise in one or more of the targeted experimental techniques (PIV, XROMM, and acoustic recordings), experience with live animals, and knowledge of the functional morphology of vertebrates are considered as additional positive elements for the candidate. An interdisciplinary background is highly appreciated.

Typical Hiring Range: Full-Time job ±2200 Euro/month (net) according to the INSERM salary scale.

Location: Centre de Recherche Interdisciplinaire, 8bis Rue Charles V, 75004 Paris France.

Institution information:

The Center for Research and Interdisciplinarity (CRI) experiments and spreads new ways of learning, teaching, conducting research and mobilizing collective intelligence in life, learning and digital sciences. The CRI promotes scientists who thrive in dynamic environments, are inspired and motivated by daily interactions with diverse peers, work best in teams and comfortably mix disciplines, rearranging, straddling field boundaries and wish to explore uncharted domains.

Job Open/Close Date: Fall 2020/ Summer 2022.

Required Documents

To apply for the position, please send the following documents to Pauline.provini@cri-paris.org:

  1. Curriculum Vitae
    1. Cover letter summarizing research interests, professional experience, and career goals.
    1. Names and Contact Information for References

Please have 2 recommendations forwarded directly to Dr. Pauline Provini email address by those individuals providing the references. These should not come from the applicant.

Review of applications will begin on September 15th and continue until the position is filled.

Vacancy Editor @ Taylor & Francis: Computer Methods in Biomechanics and Biomedical Engineering

Group-logo-blue

Would you like to be the Editor of Computer Methods in Biomechanics and Biomedical Engineering (CMBBE)?

We are looking for a new Editor/Editorial Team to lead the editorial board of CMBBE. Applicants should have an academic background in biomechanics and biomedical engineering, specifically a high level of multidisciplinary knowledge across the fields of computational biomechanics, biomedical applications and numerical methods, as well as the passion to drive the journal forward. 

The successful candidate(s) will be responsible for editorial oversight and decision-making on submissions. They will have authority to accept articles following successful peer review and will ensure that reviewers and authors adhere to the Journal’s Code of Publishing Ethics. For more information on the role of a journal editor, please click here.

Becoming the editor of a journal is a rewarding and fulfilling experience where you will extend your own networks, promote the research that you are passionate about, increase visibility of your own research and be recognized as a leading figure within the academic community. 

Interested in applying? Here are the skills and attributes we would be looking for in a successful applicant:

·       Someone who is active in the community with strong personal networks

  • Confidence to engage with authors and researchers to solicit the highest quality submissions
  • Strong organizational skills to ensure that submissions are handled in a timely manner
  • The ability to foster positive working relationships with colleagues in the Editorial Board
  • This position may be available as a co-editorship – please note your interest in this in your application.

Submitting your Application

If you would like to apply for the position please forward your CV to Ishtiaque Shams, Portfolio Manager, at Ishtiaque.Shams@tandf.co.uk

Deadline for application is 31 October 2019.CMBBE is a leading Journal in the field with the aim to provide a means of communicating the advances being made in the area of computational biomechanics and biomedical engineering with the emphasis being placed on biomechanics. For more formation about the Journal please click here.

Call for Bids hosting ESB 2023

The ESB invites proposals for the organization of its annual congress in 2023. If you would like to host and organize the 2023 ESB congress and wish to prepare and submit a bid, please read the conference rules.

Interested members can contact or send a proposal/bid to Prof. David Mitton, Chair of the Meetings Committee (david.mitton(at)ifsttar.fr),

The deadline for bid submission (first step) to organize the ESB 2023 is 15 December 2019.

2nd ESB Webinar Announced: OpenSim

Jumping into Musculoskeletal Modeling with OpenSim

We are delighted to announce the second webinar of the ESB Webinar Series which will introduce the OpenSim Software. The webinar will take place on October 16th 2019 at 18:00 CEST.

OpenSim is a freely-available, open-source musculoskeletal simulation software for visualizing and simulating movement. Musculoskeletal modeling and simulation are powerful tools to help understand the complex interactions between the neuromuscular and skeletal systems during movement.

This webinar aims to:

  • Introduce the main capabilities of OpenSim, including new features from the latest release of the software
  • Demonstrate a typical pipeline of creating and visualizing a muscle-driven simulation starting with motion capture data of a subject jumping

By the end of this tutorial, attendees will learn some of the core capabilities of OpenSim, including how to:

  • Load and visualize motion capture data
  • Load and explore a musculoskeletal model
  • Visualize a motion
  • Create a dynamic simulation.

The webinar will be conducted by Dr. Jennifer Hicks. Dr. Hicks is Associate Director the National Center for Simulation in Rehabilitation Research, an NIH-funded center at Stanford University that brings state-of-the-art engineering tools to rehabilitation scientists. In addition, she is the Research and Development Manager of the OpenSim software project, guiding the project’s development team and serving as the voice of the software user/researcher.

The seminar will last 45 minutes followed by 15 minutes of Q/A from the audience. You will have the chance to ask your questions which will be addressed by the speaker at the end of the webinar. However, it would be great if you could send your question in advance while filling the registration form or by sending to Ehsan.soodmand@charite.de and/or rodrigo.romarowski@grupposandonato.it  before the start of the webinar.


Click here to register for the webinar.


October 16th 2019 18:00 CEST

Live on ESB YouTube Channel – Please Subscribe! (https://www.youtube.com/esbiomech )

Looking forward to your attendance.

ESB Student Committee

PhD position @ Julius Wolff Institute (Berlin) : COMPUTER OPTIMIZATION OF SCAFFOLDS FOR BONE REGENERATION

A PhD position is available within the Computational Mechanobiology Group at the Julius Wolff Institute (Charite Medical School in Berlin) on the topic of computational optimization of scaffolds to promote bone regeneration within large bone defects. 

Background

Although bone has the fascinating ability to self-regenerate after injury, large bone defects often lead to delayed or non-unions. The treatment of these conditions remains a clinical challenge for which scaffold-based strategies appear as a promising approach. In this approach, 3D open porous structures are implanted in the bone defect with the aim to support bone regeneration. Although, preliminary pre-and clinical data show encouraging results, there is still a need to optimize these scaffolds to ensure successful healing. The growth of new bone within the scaffold is influenced by many factors, such as the scaffold architecture, material properties, patient health condition, etc. The aim of this project is to investigate the potential optimization of scaffolds to promote bone regeneration within large bone defects.

Tasks

You will develop computer models to simulate the bone healing process and the interaction between mechanical signals (strains) within the healing region and biological processes (e.g. cellular migration, matrix deposition, etc.) taking place. You will simulate the interaction of the bone regeneration process with scaffold-support structures and develop algorithms for the computer optimization of the scaffold design to promote the bone healing process. You will be able to compare model predictions with experimental data from animal studies (e.g. histology, microCT) and to have access to patient data. The project is part of a research collaboration between several Institutes on the topic of “Personalised Bone Defect Treatment” (Funded by the BMBF).

Your profile

  • A degree in Mechanical Engineering/Computer Science/Mathematical Biology or a related discipline
  • Knowledge of Finite Element Modelling will be advantageous
  • Experience in Programming is required (e.g. C/C++, Matlab)
  • High motivation and strong interest in research

What we provide

This position is available for a period of three years. Salary will be commensurate with experience. You will work in a friendly team and in a unique research environment. As a PhD student you will be associated to the Berlin-Brandenburg School of Regenerative Therapies (www.bsrt.de) and benefit from the interaction with international students. Starting date: 1st October, 2019.

Apply
Interested candidates should send a CV, a cover letter and two references that could be contacted. Please email the application to Prof. Checa via email at: sara.checa@charite.de

Two Post-Doc and/or post-graduate Research Assistant positions at Università Campus Biomedico di Roma.

In the context of several National and International Grants, we are seeking two outstanding Post-Doc researchers and/or motivated post-graduate Research Assistants to join us in developing new wearable devices, systems, and data analysis tools for physiological and physical activities monitoring.

The ideal candidate should have the following expertise:
– Relevant publications in international journals and experience in fundraising
– Fluent English is essential
– Excellent interpersonal skills including team working and a collegiate approach. Self-motivation, initiative, and independent thought/working.
– Proficient in MATLAB, Python, C, C++ programming
– Experience in one or more of the following topics:

1. Wearable systems design and development, encompassing electronic design, assembly and testing, microcontroller-based programming.
2. Body Sensor Networks
3. Real-time data acquisition and processing and related algorithms
4. Experimental protocols on human subjects

We will appreciate if you could send your interest to apply by email to E. Schena (e.schena(AT)unicampus.it), D. Formica (d.formica(AT)unicampus.it) and C. Massaroni (c.massaroni(AT)unicampus.it), including a motivation letter detailing how your research profile relate to the project and a CV.