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Understanding the fabric of protein crystals: Computational classification of biological interfaces and crystal contacts
(2016)BioinformaticsModern structural biology still draws the vast majority of information from crystallography, a technique where the objects being investigated are embedded in a crystal lattice. Given the complexity and variety of those objects, it becomes fundamental to computationally assess which of the interfaces in the lattice are biologically relevant and which are simply crystal contacts. Since the mid-1990s, several approaches have been applied to ...Journal Article -
The Effects of Coloured LED Light on Behaviour and Physiology in Healthy Horses
(2016)Open Biological Sciences JournalThe use of colour light therapy to treat diseases and disorders in animals is increasingly common but only very little research has been conducted on the effects of illumination with coloured light. The present study examined to which extent coloured light causes behavioural and physiological responses in horses. Red, green, blue and yellow as well as white as a control colour were tested in 20 healthy stallions of the breed Freiberger. ...Journal Article -
Probing the germline-dependence of non-genetic inheritance using artificial insemination in mice
(2016)Environmental EpigeneticsWe developed a simple, noninvasive artificial insemination technique to study epigenetic germline inheritance in mice. This technique avoids interfering factors introduced by superovulation, surgery, in vitro culture or mating that can confound the transmission of acquired epigenetic information through the germline. Using a stress model, we demonstrate that our method is suited to test the causal involvement of the male germline in ...Journal Article -
Measurement of a vacuum-induced geometric phase
(2016)Science AdvancesBerry’s geometric phase naturally appears when a quantum system is driven by an external field whose parameters are slowly and cyclically changed. A variation in the coupling between the system and the external field can also give rise to a geometric phase, even when the field is in the vacuum state or any other Fock state. We demonstrate the appearance of a vacuum-induced Berry phase in an artificial atom, a superconducting transmon, ...Journal Article -
Analysis of neural crest-derived clones reveals novel aspects of facial development
(2016)Science AdvancesCranial neural crest cells populate the future facial region and produce ectomesenchyme-derived tissues, such as cartilage, bone, dermis, smooth muscle, adipocytes, and many others. However, the contribution of individual neural crest cells to certain facial locations and the general spatial clonal organization of the ectomesenchyme have not been determined. We investigated how neural crest cells give rise to clonally organized ectomesenchyme ...Journal Article -
Accurate and predictive antibody repertoire profiling by molecular amplification fingerprinting
(2016)Science AdvancesHigh-throughput antibody repertoire sequencing (Ig-seq) provides quantitative molecular information on humoral immunity. However, Ig-seq is compromised by biases and errors introduced during library preparation and sequencing. By using synthetic antibody spike-in genes, we determined that primer bias from multiplex polymerase chain reaction (PCR) library preparation resulted in antibody frequencies with only 42 to 62% accuracy. Additionally, ...Journal Article -
Comparison of proximally versus distally placed spatially distributed sequential stimulation electrodes in a dynamic knee extension task
(2016)European Journal of Translational MyologySpatially distributed sequential stimulation (SDSS) has demonstrated substantial power output and fatigue benefits compared to single electrode stimulation (SES) in the application of functional electrical stimulation (FES). This asymmetric electrode setup brings new possibilities but also new questions since precise placement of the electrodes is one critical factor for good muscle activation. The aim of this study was to compare the ...Journal Article -
Unsupervised lineage‐based characterization of primate precursors reveals high proliferative and morphological diversity in the OSVZ
(2016)The Journal of Comparative NeurologyGeneration of the primate cortex is characterized by the diversity of cortical precursors and the complexity of their lineage relationships. Recent studies have reported miscellaneous precursor types based on observer classification of cell biology features including morphology, stemness, and proliferative behavior. Here we use an unsupervised machine learning method for Hidden Markov Trees (HMTs), which can be applied to large datasets ...Journal Article -
Incorporating explicit geospatial data shows more species at risk of extinction than the current Red List
(2016)Science AdvancesThe IUCN (International Union for Conservation of Nature) Red List classifies species according to their risk of extinction, informing global to local conservation decisions. Unfortunately, important geospatial data do not explicitly or efficiently enter this process. Rapid growth in the availability of remotely sensed observations provides fine-scale data on elevation and increasingly sophisticated characterizations of land cover and its ...Journal Article -
Validation of an interactive map assessing the potential spread of galba truncatula as intermediate host of Fasciola hepatica in Switzerland
(2016)Geospatial HealthBovine fasciolosis, caused by Fasciola hepatica, is widespread in Switzerland. The risk regions were modelled in 2008 by an interactive map, showing the monthly potential risk of transmission of F. hepatica in Switzerland. As this map is based on a mathematical model, the aim of the present study was to evaluate the interactive map by means of a field survey taking different data sources into account. It was found that the interactive map ...Journal Article