13 Works

Cellular dialogues that enable self-organization of dynamic spatial patterns

Yiteng Dang, Douwe A.J. Grundel & Hyun Youk
Cells form spatial patterns by coordinating their gene expressions. How a group of mesoscopic numbers (hundreds-to-thousands) of cells, without pre-defined morphogens and spatial organization, self-organizes spatial patterns remains incompletely understood. Of particular importance are dynamic spatial patterns - such as spiral waves that perpetually move and transmit information over macroscopic length-scales. We developed an open-source, expandable software that can simulate a field of cells communicating with any number of cell-secreted molecules in any manner. With...

Data from: Integrated analysis and visualization of group differences in structural and functional brain connectivity: applications in typical ageing and schizophrenia

Carolyn D. Langen, Tonya J. White, M. Arfan Ikram, Meike W. Vernooij & Wiro J. Niessen
Structural and functional brain connectivity are increasingly used to identify and analyze group differences in studies of brain disease. This study presents methods to analyze uni- and bi-modal brain connectivity and evaluate their ability to identify differences. Novel visualizations of significantly different connections comparing multiple metrics are presented. On the global level, “bi-modal comparison plots” show the distribution of uni- and bi-modal group differences and the relationship between structure and function. Differences between brain lobes...

Data from: From welcome culture to welcome limits? Uncovering preference changes over time for sheltering refugees in Germany

Ulf Liebe, Jürgen Meyerhoff, Maarten Kroesen, Caspar Chorus & Klaus Glenk
Europe recently experienced a large influx of refugees, spurring much public debate about the admission and integration of refugees and migrants into society. Previous research based on cross-sectional data found that European citizens generally favour asylum seekers with high employability, severe vulnerabilities, and Christians over Muslims. These preferences and attitudes were found to be homogeneous across countries and socio-demographic groups. Here, we do not study the general acceptance of asylum seekers, but the acceptance of...

Data from: Workshop on reconstruction schemes for magnetic resonance data: summary of findings and recommendations

Esin Ozturk-Isik, Ian Marshall, Patryk Filipiak, Arnold J.V. Benjamin, Valia Guerra Ones, Rafael Ortiz Ramón, Maria Del C. Valdés Hernández & Arnold J. V. Benjamin
The high-fidelity reconstruction of compressed and low-resolution magnetic resonance (MR) data is essential for simultaneously improving patient care, accuracy in diagnosis and quality in clinical research. Sponsored by the Royal Society through the Newton Mobility Grant Scheme, we held a half-day workshop on reconstruction schemes for MR data on 17 August 2016 to discuss new ideas from related research fields that could be useful to overcome the shortcomings of the conventional reconstruction methods that have...

Data from: Numerical simulations of targeted delivery of magnetic drug aerosols in the human upper and central respiratory system: a validation study

Sasa Kenjeres & Jimmy L. Tjin
In the present study, we investigate the concept of the targeted delivery of pharmaceutical drug aerosols in an anatomically realistic geometry of the human upper and central respiratory system. The geometry considered extends from the mouth inlet to the 8th generation of the bronchial bifurcations and is identical to the phantom model used in the experimental studies of [Banko {em et al.} (2015), Exp. Fluids, {bf 56} (117):1-12]. In our computer simulations, we combine the...

Data from: Aeroecology meets aviation safety: early warning systems in Europe and the Middle East prevent collisions between birds and aircraft

Hans Van Gasteren, Karen L. Krijgsveld, Nadine Klauke, Yossi Leshem, Isabel C. Metz, Michal Skakuj, Serge Sorbi, Inbal Schekler & Judy Shamoun-Baranes
The aerosphere is utilized by billions of birds, moving for different reasons and from short to great distances spanning tens of thousands of kilometres. The aerosphere, however, is also utilized by aviation which leads to increasing conflicts in and around airfields as well as en-route. Collisions between birds and aircraft cost billions of euros annually and, in some cases, result in the loss of human lives. Simultaneously, aviation has diverse negative impacts on wildlife. During...

Data from: Rapid multiple-level coevolution in experimental populations of yeast killer and non-killer strains

Magdalena Pieczynska, Dominika Wloch-Salamon, Ryszard Korona, J. Arjan G.M. De Visser, Magdalena D. Pieczynska & J. Arjan G. M. De Visser
Coevolution between different biological entities is considered an important evolutionary mechanism at all levels of biological organization. Here we provide evidence for coevolution of a yeast killer strain (K) carrying cytoplasmic dsRNA viruses coding for anti-competitor toxins and an isogenic toxin-sensitive strain (S) during 500 generations of laboratory propagation. Signatures of coevolution developed at two levels. One of them was coadaptation of K and S. Killing ability of K first increased quickly and was followed...

Data from: Alongshore variation in barnacle populations is determined by surfzone hydrodynamics

Alan L. Shanks, Steven G. Morgan, Jamie MacMahan, Ad J.H.M. Reniers & Ad J. H. M. Reniers
Larvae in the coastal ocean are transported toward shore by a variety of mechanisms. Crossing the surf zone is the last step in a shoreward migration and surf zones may act as semipermeable barriers altering delivery of larvae to the shore. We related variation in the structure of intertidal barnacle populations to surfzone width (surfzone hydrodynamics proxy), wave height, alongshore wind stress (upwelling proxy), solar radiation, and latitude at 40 rocky intertidal sites from San...

Data from: Airway segmentation and centerline extraction from thoracic CT – comparison of a new method to state of the art commercialized methods

Pall Jens Reynisson, Marta Scali, Erik Smistad, Erlend Fagertun Hofstad, Håkon Olav Leira, Frank Lindseth, Toril Anita Nagelhus Hernes, Tore Amundsen, Hanne Sorger, Thomas Langø & Toril Anita Nagelhus Hernes
Introduction: Our motivation is increased bronchoscopic diagnostic yield and optimized preparation, for navigated bronchoscopy. In navigated bronchoscopy, virtual 3D airway visualization is often used to guide a bronchoscopic tool to peripheral lesions, synchronized with the real time video bronchoscopy. Visualization during navigated bronchoscopy, the segmentation time and methods, differs. Time consumption and logistics are two essential aspects that need to be optimized when integrating such technologies in the interventional room. We compared three different approaches...

Data from: MRI mouse brain data of ischemic lesion after transient middle cerebral artery occlusion

Inge A. Mulder, Artem Khmelinskii, Oleh Dzyubachyk, Sebastiaan De Jong, Marieke J. H. Wermer, Mathias Hoehn, Boudewijn P. F. Lelieveldt & Arn M. J. M. Van Den Maagdenberg
In this data report we make available to the community a highly variable longitudinal MRI mouse brain data set of ischemic lesion after transient middle cerebral artery occlusion (tMCAo). Together with the provided semi-automated and automated segmentations, these data can be used to further improve the method proposed by Mulder et al. (2017) and also to serve as a benchmark for comparison between different approaches to segment ischemic lesions in MRI mouse brain data. It...

The Story of the Bucky Lab

Marcel Bilow & Ulrich Knaack
A book about a university docent and one of his courses – why would you do that? And what is the academic impact? The question of impact, especially as it relates to the rapidly developing culture of publications in scientific journals, should be the topic of a separate discussion. With all of the related advantages and disadvantages it could fill an entire book – however, not this one. And yes, buildings do impact the user,...

Announcing schema 4.2

Robin Dasler & Madeleine de Smaele
The DataCite Metadata Schema is the basis for the metadata you submit to DataCite. It tells you the available fields and structure for your metadata records, and it’s what we validate against to make sure everything is as it should be. The metadata...

Identify your affiliation with Metadata Schema 4.3

Robin Dasler & Madeleine de Smaele
The DataCite Metadata Schema is the basis for the metadata you submit to DataCite. It tells you the available fields and structure for your metadata records. Many of our members have told us that they’d really like to be able to include affiliation...

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