Connectionists: Open PhD Position in Computational Neurosience in Juelich, Germany - Generic metadata management for reproducible high-performance-computing simulation workflows

[Martina Reske]

The Institute of Neuroscience and Medicine - Computational and Systems Neuroscience (INM-6) at Research Center Juelich is also part of the Institute for Advanced Simulation (IAS-6, Theoretical Neuroscience) and hosts the Coordination Site (BCOS) of the national Bernstein Network Computational Neuroscience. Among other projects, the INM-6/IAS-6 participates in the EU flagship “Human Brain Project” (HBP, https://humanbrainproject.eu). The institute creates mathematical models of the dynamics and function of neural circuits. This includes model-driven analysis of brain activity and structure, and simulation of biologically realistic models using high-performance computing (HPC) technology. A main challenge in this research field is the acquisition and organization of the metadata accompanying these simulations. This challenge will be addressed in an interdisciplinary project in Neuroscience and Environmental Research funded by the Helmholtz Metadata Collaboration (HMC, https://helmholtz-metadaten.de).

The recently started project “Generic metadata management for reproducible high-performance-computing simulation workflows” aims at developing a generic, cross-domain metadata management framework to foster reproducibility of HPC based simulation science, and to provide workflows and tools for an efficient organization, exploration and visualization of simulation data. A central goal of this project is to unify existing approaches, while at the same time developing concepts and tools that are applicable to diverse research fields and can cope with the modularity and flexibility demands of rapidly progressing science. This project is a collaboration between the Research Centre Jülich and the Helmholtz Centre for Environmental Research - UFZ, Leipzig. We at INM-6 are searching for a PhD candidate contributing to the development of a metadata management framework for generic HPC-based simulation science and in particular its application to the research field Computational Neuroscience.

We are offering a

PhD Position - Generic metadata management for reproducible high-performance-computing simulation workflows

Your Job:

The successful candidate will contribute to the project by designing, implementing, and evaluating a metadata management framework for a Computational Neuroscience use case. This includes:


  *   Review of existing approaches and tools
  *   Requirement specification
  *   Conceptual design blueprint of implementation
  *   Proof-of-concept application to Computational Neuroscience
  *   Development of neuronal network models addressing Neuroscience questions
  *   Simulations of neuronal networks using HPC infrastructure
  *   Presentation and publication of the results
  *   Close interaction with team members and collaborators from INM-6, the Jülich Supercomputing Centre (JSC) and the Helmholtz Centre for Environmental Research - UFZ
  *   Exchange and networking within national (NFDI) and international (RDA, EOSC) initiatives and within the funding incubator platform HMC

Your Profile:

  *   Completed study (Diploma/Master) in Physics, Computer Science, Computational Neuroscience or a related field
  *   Solid programming skills preferably in Python and/or C++; experience with Python libraries (e.g., NumPy, SciPy, Matplotlib, and pandas) is beneficial
  *   Experience with software development (e.g., version control with Git) and data organization (e.g., data bases with SQL and MySQL) is preferable
  *   Knowledge of relevant metadata standards and semantic techniques are beneficial
  *   Experience with modeling, simulation, and analysis of complex systems
  *   Keen interest in cognitive and systems neuroscience
  *   Interest in interdisciplinary projects
  *   Interest in collaborative work and good communication skills
  *   Good command of English

Our Offer:

We work on the very latest issues that impact our society and are offering you the chance to actively help in shaping the change! We offer ideal conditions for you to complete your doctoral degree:

  *   A highly motivated working group as well as an international and interdisciplinary working environment at one of Europe’s largest research establishments
  *   Outstanding scientific and technical infrastructure
  *   Opportunity to participate in (international) conferences and project meetings
  *   Continuous scientific mentoring by your scientific advisor
  *   Flexible working hours and 30 days of annual leave
  *   Further development of your personal strengths, e.g. through an extensive range of training courses; a structured program of continuing education and networking opportunities specifically for doctoral researchers via JuDocS, the Jülich Center for Doctoral Researchers and Supervisors: https://www.fz-juelich.de/judocs
  *   Targeted services for international employees, e.g. through our International Advisory Service

The position is initially for a fixed term of 3 Jahre years. Pay in line with 65 % of pay group 13 of the Collective Agreement for the Public Service (TVöD-Bund) and additionally 60 % of a monthly salary as special payment („Christmas bonus“). Further information on doctoral degrees at Forschungszentrum Jülich including our other locations is available at: www.fz-juelich.de/gp/Careers_Docs<http://www.fz-juelich.de/gp/Careers_Docs>

Forschungszentrum Jülich promotes equal opportunities and diversity in its employment relations.
We also welcome applications from disabled persons.

Please apply via our online recruiting system<https://www.fz-juelich.de/portal/EN/Careers/application/_node.html?cms_hre_link_id=zdYdnURxlcqhsBt9&cms_lang=en> until Sept 15th, 2021. Reference number: 2021D-107

Martina Reske



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Dr. Martina Reske
Scientific Coordinator

Institute of Neuroscience and Medicine (INM-6)
Computational and Systems Neuroscience &
Institute for Advanced Simulation (IAS-6)
Theoretical Neuroscience
Jülich Research Centre and JARA
Jülich, Germany
Work +49.2461.611916
Work Cell +49.151.26156918
Fax +49.2461.619460
www.csn.fz-juelich.de<http://www.csn.fz-juelich.de>


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Forschungszentrum Juelich GmbH
52425 Juelich
Sitz der Gesellschaft: Juelich
Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498
Vorsitzender des Aufsichtsrats: MinDir Volker Rieke
Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender),
Karsten Beneke (stellv. Vorsitzender), Dr. Astrid Lambrecht,
Prof. Dr. Frauke Melchior
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