News

HIP is looking for the best scientific image

The winners will be rewarded with prizes worth 2000 €.

Images submitted for competition can be the result of any imaging technique developed or applied at Helmholtz Centres or they may be the result of combining several of those images into one artistic image. An appealing, comprehensible explanation must be submitted with the image, providing background information on the scientific nature, remarkableness and origin of the image.

Anyone who works at a Helmholtz Centre can submit his, her or their work.

An international jury will award prices worth a total of 2 000 € donated by Siemens Healthineers and Philips.
Awarding is based on scientific significance, originality, and artistic and/or visual impact of the image. Scientific aspects are e.g. exceptionality of the sample material, visualization of previously non-imaged objects or processes, novelty of application/method/imaging infrastructure, challenging characteristics of the underlying data, impact of the depicted research project, quality of the explanatory text. In short, HIP is looking for images that are scientifically interesting for a specific reason. Artistic and aesthetic aspects are for example composition of the image and whether it is creatively interesting.
Members of the jury are international scientists, a photo artist, our sponsors and members of the Helmholtz Head Office and HIP.

The winning images will be displayed in the HIP Conference 2021 and made available to the public and the media, as well as to scientific institutions. In addition, 12 winning images will be published as HIP calendar.

The contest will be open for submission from July 20th to August 20th.

The awarding ceremony will be during the HIP Conference 2021 on September 23rd and 24th.

You can now register and upload your images at https://awards.helmholtz-imaging.de.

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• Terms and Conditions at https://sas.desy.de/index.php/s/mapZt7AmXB2kjLo
• FAQ document at https://sas.desy.de/index.php/s/3XMXTcd4EZmMT7R

Best of luck!

FZ Jülich is looking to recruit a Research Group Leader for Data Science and Machine Learning in
Microscopy. You will strengthen the data science and machine learning activities of the IAS-9 and
ER-C with exciting new topics. FZJ is looking for a highly motivated colleague who is excited about new scientific
endeavors with interdisciplinary approaches.

More Information: https://www.fz-juelich.de/SharedDocs/Stellenangebote/_common/dna/2021-266-EN-IAS-9.html?nn=363488

Apply until: 08.08.2021

Contact: https://www.fz-juelich.de/portal/EN/Careers/JobKontakt/_node.html?cms_jobid=2021-266

For the MDC’s contributions to the Helmholtz Imaging Platform, MDC is seeking a candidate with an outstanding track record in integrative imaging data sciences, including:

•     concepts and algorithms for handling, generic processing and representation of high-dimensional datasets
•     image analysis and visualization across scales
•     frameworks for large data management, image analysis and data abstraction

Furthermore, the candidate should have experience in one or more of the following fields:

•     user-oriented dissemination of software solutions
•     initiation and coordination of open-source software projects
•     acquisition of extramural funding
•     communication with and coordination of scientific initiatives and consortia
•     experience in teaching, mentoring and talent development

Applicants should have a strong background in computational science, computer science, data science, computer vision, bioinformatics, image analysis, medical image computing or related fields.

More Information: https://www.mdc-berlin.de/career/jobs/full-professorship-w3-integrative-imaging-data-sciences

Contact: Enquiries about the position should be addressed to thoralf.niendorf@mdc-berlin.de and juergen.doellner@hpi.uni-potsdam.de

Application deadline: June 30th,2021

For our location in Hamburg we are looking for a Scientist with experience in Deep Learning for lmaging

• Together with your colleagues, you will develop novel deep learning architectures for scientific image analysis
• You will apply CNNs to 3D electron tomography data
• You will adapt algorithms to detect and classify small objects in noisy data
• You will make our algorithms availble to biologists for real world usage

Duration: 2 years

Starting date: earliest possible

Application deadline: 21.06.2021

Further information: https://v22.desy.de/e67416/records135522/index_eng.html

Contact: Patrick Fuhrmann, +49 40 8998-4474, patrick.fuhrmann@desy.de.

The DKFZ is looking for an experienced software engineer to develop new user-friendly tools to extend our portfolio of standardized algorithm and competition evaluation tools as well as its reach.

The tasks covered by this position include:

•     Developing software for standardized metric computation in imaging applications
•     Servicing and extending current and future toolkits as well as related websites
•     Organizing and providing support for the organization of competitions
•     Closely collaborating with our team of statisticians for the development and implementation of new validation and evaluation methods
•     Publication of challenge results and new algorithm evaluation methodologies

More information: https://jobs.dkfz.de/en/jobs/83364/software-engineer

Earliest Possible Start Date: as soon as possible

Duration: The position is limited until 31.12.2022. An extension is possible.

Application Deadline: 08.05.2021

Contact: Dr. Fabian Isensee Phone +49 (0)6221/42-2353

Join data scientists from Germany, Israel and Italy in this international COVID-virtual challenge in April 2021!

You would like to contribute to medically relevant research questions with Data Science? Then take part in the first international COVID Data Challenge. The topic will focus on challenges in medical imaging in the context of the COVID pandemic.

This time, we are excited to team up with partners at ELLIS Genoa and ELLIS Munich, Helmholtz AI, and the Israel Data Science Initiative for this two-day-virtual-challenge. The task will be based on multimodal data including images and other variables. Sign up - and use your AI and Data Science skills to help doctors and scientists fight COVID.

When: April 28 at 11am CET - April 29 at 5.30pm CET

More information: https://www.helmholtz-hida.de/en/activities/events/details/international-virtual-covid-data-challenge/

Registration: https://tms.aloom.de/international-covid-data-virtual-challenge/

In this workshop,  Markus Goetz (Karlsruhe Institute of Technology) and Stefan Kesselheim (FZ Jülich) will guide you through the first steps of using the HAICORE supercomputer machines for your own AI application.

This workshop should be tailored to your needs - and the team will guide you through questions like:

• How do I get access to the machines? 
• How do I use the pre-installed, optimized software?
• How can I run my own code?
• How can I store data so I can access it fast in training?
• How can parallelize my training and use more than one GPU?

More information about the workshop: https://hifis-events.hzdr.de/event/64/

Registration: https://hifis-events.hzdr.de/event/64/

More Information about HAICORE: http://www.kit.edu/kit/pi_2020_056_superschnelles-ki-system-am-kit-installiert.php

PhD Position - Self-supervised Learning for Scientific Imaging Applications

The newly founded Institute for Advanced Simulation - Data Science and Machine
Learning (IAS-8) is looking for doctoral students to join our new lab working on a wide range of
data science and machine learning topics at the intersection between machine
learning, computer vision, image processing, and scientific applications of imaging.

Commencing as soon as possible

Application deadline: April 1st, 2021

Further information:

Job description: https://www.fz-juelich.de/SharedDocs/Stellenangebote/_common/dna/2021D-032-EN-IAS-8.html?nn=722008
Contact: https://www.fz-juelich.de/portal/EN/Careers/JobKontakt/_node.html?cms_jobid=2021D-032

The University of Potsdam, Digital Engineering Faculty with the Hasso Plattner Institute hereby announce a joint professorship under the Jülich Model with the Max Delbrück Center for Molecular Medicine in the Helmholtz Association (MDC) in Berlin to be filled as soon as possible:

Full Professorship (W3) in Integrative Imaging Data Sciences

Commencing as soon as possible

Application deadline: April 5th, 2021

Further information: https://www.uni-potsdam.de/en/digital-engineering/news/offers and https://www.uni-potsdam.de/fileadmin/projects/verwaltung/docs/Dezernat3/Ausschreibungen/1_Professuren/W3_Integrative_Imaging_Data_Sciences.pdf

Contact: Enquiries about the position should be addressed to thoralf.niendorf@mdc-berlin.de and juergen.doellner@hpi.uni-potsdam.de

Helmholtz Enterprise (HE) is the internal program for spin-offs from the Helmholtz Association. The overall purpose of the program is to support scientists to work entrepreneurial and start a well-thought-out business. HE consists of two independent modules. Applications for each module are independent of each other.

The Field Study Fellowship finances a budget for personnel and material costs for the Helmholtz Centers or their institutes in order to identify customer needs through interviews and market research.

The Spin-off Program finances the establishment of start-up teams working at the Center and the implementation of start-up projects. The Spin-off Program also finances externally found team members if required and the expansion of start-up competencies of the internal team, e.g. by participating in entrepreneurship training.

The deadlines for submitting applications are March 31, 2021 and October 4, 2021.

Applications should be submitted via the transfer offices at the Helmholtz Association’s Research Centers. Interested founders should first get in touch with the respective contact person in the transfer units (Overview).

For more information, please click here!

We are happy to announce that the HIP HelpDesk is now officially launching. The HelpDesk is the central point of contact for all inquiries regarding Imaging at Helmholtz and the services of HIP.

The HIP helpdesk was implemented with the support of HIFIS based on the backend of their helpdesk.

If you are interested in initiating a collaboration with us, need help with organizing image analysis competitions, require consulting or have any questions regarding our services, do not hesitate to contact us via

helpdesk@helmholtz-imaging.de

We are looking forward to hearing from you!

Deutsches Elektronen-Synchrotron (DESY) and the University of Hamburg Faculty of Mathematics, Informatics and Natural Sciences jointly invite applications for a PROFESSORSHIP (W3) FOR MATHEMATICS WITH A FOCUS ON MODEL-BASED INVERSE DESIGN

We are looking for a candidate with an outstanding international reputation in the field of inverse problems, who is willing to actively participate in shaping the HIP and to contribute to the research areas at DESY. Successful candidates are expected to participate in relevant research activities of model-based inverse design to foster collaboration with the Department of Mathematics at Universität Hamburg.

Preference is given to candidates with relevant research activities in learning-based algorithms for signal and image processing, preferably with a focus in either phase field reconstruction, tomographic inversion or deconvolution and denoising. Moreover, profound methodological knowledge on both the model level and the inverse design level is expected.

Commencing as soon as possible

Application deadline: 11 March 2021

Further information: https://www.uni-hamburg.de/en/uhh/stellenangebote/professuren/11-03-21-2349-w3-en.pdf or https://jobs.zeit.de/jobs/universitaetsprofessur-w3-fuer-mathematik-insbesondere-modellbasiertes-inversers-design-universitaet-hamburg-hamburg-1035541

Contact: Prof. Dr. Christian Schroer (DESY) (christian.schroer@desy.de) or Prof. Dr. Armin Iske (Universität Hamburg) (armin.iske@uni-hamburg.de).

The DKFZ-HIP Service Unit “Applied Computer Vision Lab”, led by Dr. Fabian Isensee, was established at DKFZ to support Helmholtz researchers in the development of custom AI-powered image analysis algorithms.

They are looking for three excellent machine learning engineers with a passion for building AI solutions in the field of computer vision (PhD or M.Sc. in computer science, physics, mathematics or a related field).

• Start Date: as soon as possible
• Duration: The positions are limited until 31.12.2022 with the possibility of prolongation
• Application Deadline:  10.01.2021 (online application)
• More information: DKFZ Website

Helmholtz AI officially launches  the Helmholtz AI voucher system, which serves as a portal to set up collaborations with the Helmholtz AI consultants at all six Helmholtz AI units. 

‘Helmholtz AI is a platform for science and scientists. With the voucher system we are now facilitating collaborations with data science specialists in a flexible, dynamic and transparent way’, says Fabian Theis, Helmholtz AI scientific director. Working with our AI consultants comes at no cost as all collaborations are entirely scientific.

More information available at
https://www.helmholtz.ai/themenmenue/our-model/funding-lines/voucher-system/index.html

Submission portal:
https://voucher-system.helmholtz.ai/

24 project proposals have been submitted in response to the first call for HIP interdisciplinary collaborative research projects in Imaging Science. This call, which was opened in mid-July 2020 and is funded by the Helmholtz Association's Initiative and Networking Fund (INF), offers up to 400k€ for imaging projects that pursue innovative approaches in information & data science and strengthen synergies across imaging modalities and applications.

The focus is on promoting interdisciplinary research interaction and method transfer between applications and research fields. "For this reason, we are particularly pleased that all Helmholtz core research fields are represented and that more than 17 different Helmholtz locations are involved in the applications" says Professor Christian Schroer, Lead Scientist at DESY and co-initiator of HIP.

The projects will be completed within a maximum of three years and have the potential for first impactful results at the end of the first funding year. After careful evaluation by an external committee of experts, the funds for the successful proposals will probably be allocated until the end of 2020.

More information and updates will be posted here.

Are you an imaging expert looking to boost your career? Then visit HIP at the Helmholtz Virtual Data Science Career Day and jump-start the next step in your career.

Whether you’re looking for exciting PhD subjects, postdoc positions or other positions in applied data science, this fair will get you in touch with your future employer.

The MDC-HIP team, led by Dr. Kyle Harrington, is developing algorithms, data structures, and visualization tools that span the broad range of spatiotemporal scales and imaging modalities represented in research fields across the Helmholtz research community and beyond.

Candidates will develop new, and extend existing, algorithms and tools to address current challenges, while ensuring that the resulting software can be applied in all relevant computational environments and across scales and modalities. The HIP-MDC team is developing software solutions using Java, Imglib2, Python, Tensorflow/PyTorch, Sciview, Clojure, Kotlin, and Docker/Singularity. Potential projects will address challenges in fluorescence microscopy, magnetic resonance imaging, image-based modeling, lifelong machine learning, virtual/augmented reality, and computer vision.

• Start Date: October 01, 2020
• Duration: 2-year contract with the perspective of extension
• Application Deadline:  September 04, 2020 via the MDC online application portal
• More information: MDC Website

The Helmholtz AI Cooperation Unit (Helmholtz AI), will permanently and strategically drive and coalesce the field of applied Artificial Intelligence within the Helmholtz Association. As an interdisciplinary platform, Helmholtz AI will compile, develop, foster, and promote Artificial Intelligence-based approaches for all Helmholtz Centers.
One essential component is funding research projects that address the topics of applied Machine Learning and Artificial Intelligence. These annual calls are based on the general concept for Helmholtz AI and are in line with the future topics of the Initiative and Networking Fund (INF). These projects initiate cross-cutting research collaborations and identify innovative research topics in this area. In addition, they underpin the growth of the Helmholtz AI network within Helmholtz and with external partners; they include the opportunity to access and employ computing resources of HAICORE.

The objective of this second call for Helmholtz AI projects is to initiate and facilitate activities that address cross-center challenges and methods. It aims at several smaller collaborative projects with the potential to facilitate follow-up projects. It fosters co-development of solutions with potential users.

• Maximum budget per proposal: 400.000 EUR (50% will be provided by the Helmholtz INF the other 50% will be provided by the funded Partners)
• Application deadline: 1 December 2020
• Submission via the Helmholtz AI Application Portal

• Start of Helmholtz AI projects: April-June 2021

Further Information ara available via the Helmholtz AI Website.

DKFZ is looking for an excellent researcher with an outstanding scientific record of accomplishments in machine learning with high interest in interactive components. Within the Helmholtz Imaging Platform (HIP), the independent group will complement the DKFZ image analysis activities by focusing on the design and implementation of algorithms and intelligent user interface frameworks that facilitate machine learning with the help of human interaction. 

• Earliest Possible Start Date: as soon as possible
• Duration: The position is limited to 5 years.
• Application Deadline: 07.09.2020 via the DKFZ online application portal
• More information: DKFZ Website

The Helmholtz Metadata Collaboration (HMC) develops and implements concepts and technologies to leverage high-quality metadata for research data across research fields and their communities. Its main goal is to make the vast amount of diverse research data produced by Helmholtz Centres findable, accessible, interoperable and reusable (FAIR).

The objective of this first Call for HMC Projects is to initiate and facilitate activities that addresspractical challenges in the field of metadata generation and data enrichment. The call aimsat funding promising collaborative projects with the potential to being integrated into the wider HMC framework at the end of the project’s lifetime.

• Maximum budget per proposal: 400.000 EUR (50% will be provided by the Helmholtz INF the other 50% will be provided by the funded Helmholtz Centres)
• Deadline for submission: 14.10.2020
• Submission via the HMC Project Proposal Portal

Further information are available at the Helmholtz Association Website.

The objective of this first call for HIP Projects is to initiate and facilitate activities that address challenges and methods across research fields and centres; special emphasis for HIP Projects is laid on developing innovative approaches, which tackle imaging problems. Such projects often are characterised by higher risk, and will therefore have demonstration character. Thus, HIP will provide seed funding for new ideas and aims at collaborative projects with the potential to facilitate collaboration in a larger context.

Further information can be found here.

We hope to receive many creative applications. Please feel free to use the short pitches from the HIP Kickoff Meeting as a stimulus for collaborations.
The proposals can be submitted via the Project Proposal Portal.

Feel free to spread this announcement widely.

Wish you all success.
Your HIP Team

The HIP kick off meeting was held on March 12 2020 as online meeting with more than 70 participants from 14 Helmholtz Centres and 5 other institutions with 38 presentations.

It introduced HIP to the wider imaging community, highlighting the underlying concept and structures of HIP. Furthermore, project and funding opportunities within the platform have been outlined and discussed. The meeting promoted the networking between scientists and engineers interested in HIP members and provide a setting to initially develop and explore cooperative project ideas among the participants.