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Highlights

2017-06-14

We will develop, implement and apply novel feature-based data analysis methods to be run alongside the simulation (in-situ), which condense the main aspects of the data by several orders of magnitude. This is accompanied by sophisticated task...

2017-05-12

By combining visualization techniques with interactive multi-touch tables and intuitive user interfaces, visitors to museums and science centers can conduct self-guided tours of large volumetric image data. In an interactive learning experience,...

2017-05-12

Led by Dr Jim Dowling, in 2016, SeRC researchers from the PSDE community announced world-record performance for the Hadoop platform, with their next-generation distribution of Apache Hadoop File System, HopsFS. Hadoop is the de facto open-source...

2017-05-12

In the field of electromagnetics, certain types of wave propagation can be modeled with waveguides, and can be analyzed by discretizing an associated partial differential equation. The physical domains of the waveguides are typically very large...

2017-05-12

Over the past years cryo electron microscopy has become a dominant technique for determining the structure of large biomolecules. The raw data consists of hundreds of thousands of 2D projections of electron densities of molecules, which means...

2017-05-10

We examine by means of large-scale interface-resolved numerical simulations the macroscopic behavior of dense suspensions of neutrally-buoyant spheres in turbulent plane channel flow. We show that particles larger than the smallest turbulence...

2017-05-10

Matrix of 2M theoretical elpasolite crystals. The y- and x-axes specify two of the four elements in a crystal, which points out a miniature diagram over the remaining two atoms. Every pixel in each
miniature then shows the formation energy...

2017-05-10

New mammographic image based markers of breast cancer risk and a framework for studying breast cancer tumour progression are being developed in this project. These are being used in simulations and on some of the world’s most detailed studies of...

2017-05-10

In a review paper in Nature Geoscience, we summarize the current scientific understanding of storm tracks and highlight the importance of a flexible modeling approach spanning a hierarchy of complexity in gaining such understanding. The key aim...

2017-05-10

When modeling subcellular signaling pathways, experimental data are integrated into a precise and structured framework from which it is possible to make predictions that could be tested experimentally. However, the quantitative experimental data...

2017-05-10

In the last few years machine learning using so called deep neural networks has proven to be clearly superior to other machine learning methods. We find that using identical inputs as in ProQ2 and ProQ3 but replacing the support vector machine...

2014-09-08

In this project, the turbulent flow is modeled by an entropy lattice Boltzmann method. Direct contact and lubrication force models for fiber-fiber interactions and fiber-wall interaction are taken into account to allow for a full four-way...

2014-09-08

SeRC researchers in the molecular simulation community have been able to use molecular simulations to track the first-ever complete cycle of intermediate states as voltate-gated ion channels open in response to a nerve signal (1), something that...

2014-08-18

With molecular dynamics molecular processes can be followed in minute detail, something which is difficult to achieve with experimental techniques, but obtaining this information comes at a high computational cost. The equations of motion of...

2014-08-08

EC-Earth (http://www.ec-earth.org) is a state-of-the-art climate model developed collaboratively by 27 institutions around Europe. This distributed, community-driven model...

2014-07-09

The task of performance analysis becomes increasingly difficult due to the growing complexity of scientific codes and the scale of machines. Even though many tools have been developed over the past years to help in this task, current approaches...

2014-07-09

Balanced graph partitioning is a well-known NP-complete problem with a wide range of applications. These applications include many large-scale distributed problems including the optimal storage of large sets of graph-structured data over several...

2014-07-09

Modelica is a general declarative equation-based object-oriented language for continuous and discrete-event modeling of cyber-physical systems for the purpose of efficient simulation. It is bringing about a revolution in this area, based on its...

2014-07-09

SeRC researcher Christoph Kessler and his group at Linköping University investigate techniques for the design and implementation of component-based programming frameworks for GPU-based systems. Programs are structured into components. A component...

2014-05-09

Wave propagation in rapidly varying heterogeneous media is very computationally costly to simulate by traditional techniques because the smallest scales must be represented over the whole simulation domain. In this project a new type of multi-...

2014-05-08

Since the origin of medical imaging, its major focus has been the understanding of anatomical structures. Only more recent medical imaging modalities support getting patient-specific functional data embedded in a high-resolution spatial context....

2014-05-08

Diagnostic pathology is of crucial importance for health care in Sweden and the world. Cancer care, for example, is fully dependent on fast and precise analyses of tissue samples (histopathology). The number of pathologists in Sweden is however...

2014-05-08

The primary purpose of the cardiovascular system is to drive, control and maintain blood flow to all parts of the body. Despite the primacy of flow, cardiac diagnostics still rely almost exclusively on tools focused on morphological assessment....

2014-05-08

Langevin molecular dynamics is used to simulate properties of matter in environments of constant temperature, e.g. to determine phase transitions in material science and study chemical reactions in molecular biology. The main result in this...

2014-05-08

In molecular dynamic simulations the evaluation of forces resulting from electrostatic interactions requires fast algorithms. Even so, it is often a bottle neck in simulations. A new highly accurate method for this has been developed. The new...

2014-05-08

In technical as well as geophysical applications, the flow of a fluid around solid bodies is ubiquitous. Although in real cases, the geometry of the immersed object is usually complex and the flow is dominated by pressure gradients in various...

2014-05-08

Large-scale instabilities occurring in the presence of small-scale turbulent fluctuations are frequently observed in geophysical or astrophysical contexts, but are difficult to reproduce in the laboratory. Thanks to the support of PRACE through a...

2014-05-08

Complex fluids are multi-scale by nature where the physics at the micro-scale affects the macroscopic behaviour of the flow and vice versa giving rise to surprising and spectacular phenomena as well as making this one of the most important...

2014-05-08

Development of modern adjoint-based optimisation tools and methods for design of wings with Natural Laminar Flow. Direct numerical simulations of flow over wings for understanding the physics of modern methods of transition control within...

2014-05-08

To aid in the development and analysis of complex climate models, the SeRC Climate Community has been active in the development and application of simplified modelling and diagnostic environments which isolate complex processes. One such...

2014-05-08

Members of the SeRC Climate Community have performed a large ensemble of historical and future climate simulations using EC-Earth as part of the Coupled Model Intercomparison Project Stage 5 (CMIP5,...

2014-05-08

The kernel of the DALTON2013 suite is two powerful molecular electronic structure programs, Dalton and lsDalton. Together, the two programs provide an extensive functionality for the calculation of molecular properties at the HF, DFT, MCSCF, and...

2014-05-08

Magnetic and elastic properties of Ni metal have been studied up to 260 GPa, both experimentally and theoretically. The observed magnetic hyperfine splitting confirms the ferromagnetic state of Ni up to 260 GPa, the highest pressure where...

2014-05-08

Here, action spectroscopy has been used to compare the absorption by the firefly oxyluciferin lumophore isolated in vacuo and complexed with a single water molecule. Combined molecular dynamics simulations and time-dependent density functional...

2014-05-08

G protein-coupled receptors (GPCRs) are responsible for a large fraction of cellular signaling processes and are the targets of nearly 30% of all marketed drugs. Molecular level understanding of drug binding to GPCRs has been hampered by the lack...

2014-05-08

Combinatorial interactions among transcription factors are critical for directing tissue-specific gene expression. To build a global atlas of these combinations, we have screened for physical interactions among the majority of human and mouse DNA...

2014-05-08

Metabolic reprogramming has been proposed as a hallmark of cancer, yet a systematic characterisation of the metabolic pathways active in transformed cells is currently lacking. Using mass spectrometry, we have measured the consumption and release...

2014-05-08

Medicine and pediatrics are changing and health care is moving from being reactive to preventive. Despite rapid developments of new technologies for molecular profiling and systems analysis of diseases, significant hurdles remain. Using the...

2014-05-08

Activation of the protein kinase ERK and the subunit GluR1 of the glutamate-gated AMPAR channels in dendritic spines of D1R+ medium spiny neurons is triggered by dopamine acting via D1R couple to Golf through two different signaling cascades....

2014-05-08

SeRC faculty Björn Wallner and Arne Elofsson are experts on protein structure predictions and have developed...

2014-05-08

Early in the project, it was found that most software for assembling and analysing genomes could not handle the large datasets that the project generated. There were other challenges as well - the spruce is a diploid with 12 chromosomes, but the...

2014-05-07

Lukas Käll has been addressing these questions for several years and has developed several open source tools that are highly appreciated in the proteomics community. His software has been...