15 Works

Helmholtz Open Science Briefing. Helmholtz Open Science Forum Forschungssoftware. Report

Heinz Pampel, Nina Leonie Weisweiler, Roland Bertelmann, Wolfgang zu Castell, Suenje Dallmeier-Tiessen, Ronny Gey, Tobias Huste, Nicole Jung, Amir Kalali , Uwe Konrad, Christian Meeßen, Sebastian Müller, Dennis Oliveira & Tobias Schlauch
Das Helmholtz Forum Forschungssoftware, welches gemeinsam von der Task Group Forschungssoftware des AK Open Science und dem HIFIS Software Cluster getragen wird, veranstaltete am 7. April 2022 ein Helmholtz Open Science Forum zum Thema Forschungssoftware. Die Veranstaltung wurde vom Helmholtz Open Science Office organisiert. Das virtuelle Forum widmete sich drei Aspekten beim offenen und nachhaltigen Umgang mit Forschungssoftware in der Helmholtz-Gemeinschaft: Policy, Praxis sowie Infrastrukturen und Tools. Die Veranstaltung war die zweite einer Reihe von...

Prostate Cancer Cost Fact Sheet

Diego Hernandez, Michael Schlander & Alexander von Both

Simulated MRI images and reference fiber tracts of 99 subjects

Peter Neher & Klaus Maier-Hein
This archive contains simulated MRI images (T1, T2, dMRI) of 99 healthy subjects as well as corresponding reference fiber tracts used for the MRI simulation. The archive is primarily intended for the training and validation of fiber tractography methods but is well suited for many other tasks in the area o diffusion-weighted MRI image processing. The simulation was performed using the Fiberfox1 dMRI simulation tool included in MITK Diffusion2,3. Fiberfox uses reference fiber tracts, generated...

Helmholtz Open Science Briefing: Helmholtz in der Nationalen Forschungsdateninfrastruktur (NFDI): Report des Helmholtz Open Science Forums

Nina Leonie Weisweiler, Roland Bertelmann, Peter Braesicke, Torsten Bronger, Constanze Curdt, Frank Oliver Glöckner, Sven Rank, Oliver Stegle, York Sure-Vetter & Nicolas Villacorta
Mit der Nationalen Forschungsdateninfrastruktur (NFDI) verfolgen Bund und Länder das Ziel, Datenbestände aus der Forschung für das deutsche Wissenschaftssystem nach den FAIR-Prinzipien systematisch zu erschließen, damit diese für Dritte besser zugänglich gemacht werden. Die NFDI wird als Netzwerk von Konsortien über einen Zeitraum von drei Jahren ab 2020 in drei aufeinanderfolgenden Förderphasen aufgebaut. Eine wichtige Rolle spielt dabei auch die Abdeckung disziplinübergreifender Querschnittsthemen. Zur Förderung des Dialogs zur NFDI in der Helmholtz-Gemeinschaft veranstaltete das Helmholtz...

Helmholtz Open Science Briefing. Helmholtz Open Science Forum: Open Science und Transfer. Report

L. M. Ferguson, Roland Bertelmann, Christoph Bruch, C. Cremer, A. Hauri, G. Krause, J. Krupa, I. Mahns, Heinz Pampel, A. C. Schrader, P. Schultze-Motel, S. Weg-Remers, N. L. Weisweiler, J. Winzer & B. Wolf
Am 12. Mai 2022 veranstaltete das Helmholtz Open Science Office ein Helmholtz Open Science Forum zum Thema Open Science und Transfer. Die virtuelle, Helmholtz-interne Veranstaltung widmete sich verschiedenen Aspekten und Fragestellungen rund um das Zusammenspiel von Open Science, Technologietransfer sowie Wissenstransfer in der Helmholtz-Gemeinschaft. Gemeinsam mit den Referent:innen und Teilnehmenden wurden Kooperationsmöglichkeiten, Handlungsnotwendigkeiten und Perspektiven thematisiert. Ein zentrales Resümee der Vorträge und Diskussionen war, dass in Helmholtz ein Konsens darüber besteht, dass Open Science und...

Colorectal Cancer Cost Fact Sheet

Diego Hernandez, Michael Schlander & Tao Ran

Data from: Non-rhythmic head-direction cells in the parahippocampal region are not constrained by attractor network dynamics

Olga Kornienko, Patrick Latuske, Mathis Bassler, Laura Kohler & Kevin Allen
Computational models postulate that HD cells are part of an attractor network integrating angular head turns. This network requires inputs from visual landmarks to anchor the HD signal to the external world. We investigated whether information about HD and visual landmarks is integrated in the medial entorhinal cortex and parasubiculum, resulting in neurons expressing a conjunctive code for HD and visual landmarks. We found that parahippocampal HD cells could be divided into two classes based...

Lung Cancer Cost Fact Sheet

Diego Hernandez, Michael Schlander, Alexander von Both & Pratyush Giri

Data from: Phylogenetic and comparative genomics of the family Leptotrichiaceae and introduction of a novel fingerprinting MLVA for Streptobacillus moniliformis

Tobias Eisenberg, Ahmad Fawzy, Werner Nicklas, Torsten Semmler & Christa Ewers
Background: The Leptotrichiaceae are a family of fairly unnoticed bacteria containing both microbiota on mucous membranes as well as significant pathogens such as Streptobacillus moniliformis, the causative organism of streptobacillary rat bite fever. Comprehensive genomic studies in members of this family have so far not been carried out. We aimed to analyze 47 genomes from 20 different member species to illuminate phylogenetic aspects, as well as genomic and discriminatory properties. Results: Our data provide a...

Data from: Heterochromatin Protein 1β (HP1β) has distinct functions and distinct nuclear distribution in pluripotent versus differentiated cells

Anna Mattout, Yair Aaronson, Badi Sri Sailaja, Edupuganti V. Raghu Ram, Arigela Harikumar, Jan-Philipp Mallm, Kae Hwan Sim, Malka Nissim-Rafinia, Emmanuelle Supper, Prim B. Singh, Siu Kwan Sze, Susan M. Gasser, Karsten Rippe & Eran Meshorer
Background: Pluripotent embryonic stem cells (ESCs) have the unique ability to differentiate into every cell type and to self-renew. These characteristics correlate with a distinct nuclear architecture, epigenetic signatures enriched for active chromatin marks and hyperdynamic binding of structural chromatin proteins. Recently, several chromatin-related proteins have been shown to regulate ESC pluripotency and/or differentiation, yet the role of the major heterochromatin proteins in pluripotency is unknown. Results: Here we identify Heterochromatin Protein 1β (HP1β) as...

Checklist to Support the Helmholtz Centers in Implementing Policies on Sustainable Research Software

Reinhard Messerschmidt, Heinz Pampel, Felix Bach, Wolfgang zu Castell, Michael Denker, Ants Finke, Bernadette Fritzsch, Martin Hammitzsch, Uwe Konrad, Yvonne Leifels, Christoph Möhl, Marco Nolden, Markus Scheinert, Tobias Schlauch, Thomas Schnicke & Dirk Steglich
As the digitalization of research and teaching progresses, the number of software solutions developed at scientific institutions and used for the purpose of knowledge production is increasing. The accessibility and reuse of scientific results called for under the heading “open science” can be ensured in many fields only if, in addition to research data, program code is also made openly accessible. The present guide is addressed to decision-makers at the Helmholtz Centers who deal with...

Checkliste zur Unterstützung der Helmholtz-Zentren bei der Implementierung von Richtlinien für nachhaltige Forschungssoftware

Reinhard Messerschmidt, Heinz Pampel, Felix Bach, Wolfgang zu Castell, Michael Denker, Ants Finke, Bernadette Fritzsch, Martin Hammitzsch, Uwe Konrad, Yvonne Leifels, Christoph Möhl, Marco Nolden, Markus Scheinert, Tobias Schlauch, Thomas Schnicke & Dirk Steglich
Mit der voranschreitenden Digitalisierung von Forschung und Lehre steigt die Zahl an Software-Lösungen, die an wissenschaftlichen Einrichtungen entstehen und zur Erkenntnisgewinnung genutzt werden. Die – unter dem Stichwort Open Science geforderte – Zugänglichkeit und Nachnutzung von wissenschaftlichen Ergebnissen kann in vielen Fachgebieten nur sichergestellt werden, wenn neben Forschungsdaten auch Programmcode offen zugänglich gemacht wird. Die vorliegende Handreichung richtet sich an Entscheider*innen in den Helmholtz-Zentren, die sich mit der Implementierung von Richtlinien für nachhaltige Forschungssoftware befassen....

Data from: Visual landmarks sharpen grid cell metric and confer context specificity to neurons of the medial entorhinal cortex

José Antonio Pérez-Escobar, Olga Kornienko, Patrick Latuske, Laura Kohler & Kevin Allen
Neurons of the medial entorhinal cortex (MEC) provide spatial representations critical for navigation. In this network, the periodic firing fields of grid cells act as a metric element for position. The location of the grid firing fields depends on interactions between self-motion information, geometrical properties of the environment and nonmetric contextual cues. Here, we test whether visual information, including nonmetric contextual cues, also regulates the firing rate of MEC neurons. Removal of visual landmarks caused...

Data from: Genome-wide association analysis of type 2 diabetes in the EPIC-InterAct study

Lina Cai, Eleanor Wheeler, Nicola D. Kerrison, Jian'an Luan, Panos Deloukas, Paul W. Franks, Pilar Amiano, Eva Ardanaz, Catalina Bonet, Guy Fagherazzi, Leif C. Groop, Rudolf Kaaks, José María Huerta, Giovanna Masala, Peter M. Nilsson, Kim Overvad, Valeria Pala, Salvatore Panico, Miguel Rodriguez-Barranco, Olov Rolandsson, Carlotta Sacerdote, Matthias B. Schulze, Annemieke M.W. Spijkeman, Anne Tjonneland, Rosario Tumino … & Nicholas J. Wareham
Type 2 diabetes (T2D) is a global public health challenge. Whilst the advent of genome-wide association studies has identified >400 genetic variants associated with T2D, our understanding of its biological mechanisms and translational insights is still limited. The EPIC-InterAct project, centred in 8 countries in the European Prospective Investigations into Cancer and Nutrition study, is one of the largest prospective studies of T2D. Established as a nested case-cohort study to investigate the interplay between genetic...

Data from: Failure to reproduce period-dependent song cycles in Drosophila is due to poor automated pulse-detection and low-intensity courtship

Charalambos P. Kyriacou, Edward W. Green, Arianna Piffer & Harold B. Dowse
Stern has criticized a body of work from several groups that have independently studied the so-called “Kyriacou and Hall” courtship song rhythms of male Drosophila melanogaster, claiming that these ultradian ∼60-s cycles in the interpulse interval (IPI) are statistical artifacts that are not modulated by mutations at the period (per) locus [Stern DL (2014) BMC Biol 12:38]. We have scrutinized Stern’s raw data and observe that his automated song pulse-detection method identifies only ∼50% of...

Registration Year

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    5
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Resource Types

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Affiliations

  • German Cancer Research Center
    15
  • Helmholtz Association of German Research Centres
    5
  • Helmholtz Centre Potsdam - GFZ German Research Centre for Geosciences
    5
  • Helmholtz-Zentrum Dresden-Rossendorf
    4
  • Forschungszentrum Jülich
    4
  • Karlsruhe Institute of Technology
    4
  • Helmholtz Centre for Environmental Research
    3
  • Alfred Wegener Institute for Polar and Marine Research
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  • German Aerospace Center
    3
  • Helmholtz-Zentrum Berlin für Materialien und Energie
    2