Zero-Level-Set Encoder for Neural Distance Fields

Neural shape representation generally refers to representing 3D geometry using neural networks, e.g., to compute a signed distance or occupancy value at a specific spatial position. Previous methods tend to rely on the auto-decoder paradigm, which often requires densely-sampled and accurate signed distances to be known during training and testing, as well as an additional optimization loop during inference. This introduces a lot of computational overhead, in addition to having to compute signed distances analytically, even during testing. In this paper, we present a novel encoder-decoder neural network for embedding 3D shapes in a single forward pass. Our architecture is based on a multi-scale hybrid system incorporating graph-based and voxel-based components, as well as a continuously differentiable decoder. Furthermore, the network is trained to solve the Eikonal equation and only requires knowledge of the zero-level set for training and inference. Additional volumetric samples can be generated on-the-fly, and incorporated in an unsupervised manner. This means that in contrast to most previous work, our network is able to output valid signed distance fields without explicit prior knowledge of non-zero distance values or shape occupancy. In other words, our network computes approximate solutions to the boundary-valued Eikonal equation. It also requires only a single forward pass during inference, instead of the common latent code optimization. We further propose a modification of the loss function in case that surface normals are not well defined, e.g., in the context of non-watertight surface-meshes and non-manifold geometry. We finally demonstrate the efficacy, generalizability and scalability of our method on datasets consisting of deforming 3D shapes, single class encoding and multiclass encoding, showcasing a wide range of possible applications

The influence of dairy consumption, sedentary behaviour and physical activity on bone mass in Flemish children : a cross-sectional study

Background: This cross-sectional study aimed to look for an association in young children between whole body bone mineral content (BMC) and areal bone mineral density (aBMD) and dairy consumption as well as sedentary behaviour (SB) and physical activity (PA). Moreover, we investigated whether there was an interaction effect between dairy consumption and SB or PA on BMC and aBMD. Methods: Healthy children (6-12 years) were recruited from primary schools. Body composition and whole body bone mass were measured with dual-energy X-ray absorptiometry (DXA), dairy consumption was assessed with a food frequency questionnaire (FFQ) and PA and SB with an accelerometer. In total, 272 children underwent a DXA scan. Complete FFQ data were available for 264 children and 210 children had matching data from accelerometry recordings. Regression analyses were used to study the associations between (1) BMC and aBMD and (2) dairy consumption, SB and PA, adjusting for age, gender, pubertal stage, height and body composition. Results: Dairy consumption was positively associated with whole body BMC and aBMD (absolute value as well as z-score), after correction for relevant confounders. SB was negatively associated with aBMD z-score and light PA was positively associated with both BMC and aBMD z-score. No gender differences were found. Moreover, an interaction effect between vigorous PA (VPA) and dairy consumption on aBMD (z-score) and BMC z-score was found, indicating that children with both high VPA and high dairy consumption had higher values for BMC and aBMD of the whole body minus the head. Conclusion: Already at young age, PA and dairy consumption positively influence whole body bone mass assessed by DXA. Moreover, this study indicates clearly that SB is negatively associated with whole body bone density. Promoting regular PA and sufficient dairy consumption in young children and limiting SB can be expected to positively influence their bone mass accumulation, which can help in the prevention of osteoporosis later in life

Overwhelmed software developers: An Interpretative Phenomenological Analysis

In this paper, we report on an Interpretive Phenomenological Analysis (IPA) study on experiencing overwhelm in a software development context. The objectives of our study are, hence, to understand the experiences developers have when being overwhelmed, how this impacts their productivity and which role stress plays in the process. To this end, we interviewed two software developers who have experienced overwhelm recently. Throughout a qualitative analysis of the shared experiences, we uncover seven categories of overwhelm (communication, disturbance, organizational, variety, technical, temporal, and positive overwhelm). While the first six themes all are related to negative outcomes, including low productivity and stress, the participants reported that overwhelm can sometimes be experienced to be positive and pleasant, and it can increase their mental focus, self ambition, and productivity. Stress was the most mentioned feeling experienced when overwhelmed. Our findings, for the most, are along the same direction of similar studies from other disciplines and with other participants. However, there may be unique attributes to software developers that mitigate the negative experiences of overwhelm.Comment: 46 pages, technical repor

First steps towards mass rearing of European smelt (Osmerus eperlanus, L.) using conventional hatchery equipment

Anadromous European smelt (Osmerus eperlanus) is a keystone species in lake and river ecosystems. In the past and present, stock declines in several of its habitats have been reported. The reasons for this are unclear. Experimental research on the early life stages could help to reveal the potential causes. For this purpose, knowledge on artificial propagation and rearing of early life stages is needed. Following from previous work, we show how to scale up and mass rear European smelt using conventional hatchery equipment and present a simplified protocol for first feeding. Smelt eggs, after egg adhesiveness is removed, can be incubated in standard hatchery equipment commonly used in aquaculture. Incubation in McDonald-type jars shows even improved results when settling of floating eggs is prevented. Next to avoiding egg loss this simultaneously reduces labor for daily care. First feeding of larval smelt can be achieved with decapsulated artemia cysts, eliminating the need for the labor-intensive green water production. Using the protocol presented, larvae of different stages can be produced in large quantities allowing further experimental studies

Impact of a Static Magnetic Field on Early Osseointegration: A Pilot Study in Canines.

A static magnetic field generated by neodymium-iron-boron (NdFeB) magnets placed in the inner cavity of dental implants can enhance bone regeneration in rabbits. It is, however, unknown whether static magnetic fields support osseointegration in a canine model. We therefore determined the potential osteogenic effect of implants carrying NdFeB magnets inserted in the tibia of six adult canines in the early stages of osseointegration. Here, we report that after 15 days of healing, magnetic and regular implants showed a high variation with a median new bone-to-implant contact (nBIC) in the cortical (41.3% and 7.3%) and the medullary (28.6% and 44.8%) region, respectively. Consistently, the median new bone volume/tissue volume (nBV/TV) in the cortical (14.9% and 5.4%) and the medullary (22.2% and 22.4%) region were not significantly different. One week of healing only resulted in negligible bone formation. These findings suggest that considering the large variation and the pilot nature of this study, magnetic implants failed to support peri-implant bone formation in a canine model

Modular Open-Source Design of Pyrolysis Reactor Monitoring and Control Electronics

Industrial pilot projects often rely on proprietary and expensive electronic hardware to control and monitor experiments. This raises costs and retards innovation. Open-source hardware tools exist for implementing these processes individually; however, they are not easily integrated with other designs. The Broadly Reconfigurable and Expandable Automation Device (BREAD) is a framework that provides many open-source devices which can be connected to create more complex data acquisition and control systems. This article explores the feasibility of using BREAD plug-and-play open hardware to quickly design and test monitoring and control electronics for an industrial materials processing prototype pyrolysis reactor. Generally, pilot-scale pyrolysis plants are expensive custom designed systems. The plug-and-play prototype approach was first tested by connecting it to the pyrolysis reactor and ensuring that it can measure temperature and actuate heaters and a stirring motor. Next, a single circuit board system was created and tested using the designs from the BREAD prototype to reduce the number of microcontrollers required. Both open-source control systems were capable of reliably running the pyrolysis reactor continuously, achieving equivalent performance to a state-of-the-art commercial controller with a ten-fold reduction in the overall cost of control. Open-source, plug-and-play hardware provides a reliable avenue for researchers to quickly develop data acquisition and control electronics for industrial-scale experiments

Structural and kinetic characterisation of Trypanosoma congolense pyruvate kinase

Trypanosoma are blood-borne parasites and are the causative agents of neglected tropical diseases (NTDs) affecting both humans and animals. These parasites mainly rely on glycolysis for their energy production within the mammalian host, which is why trypanosomal glycolytic enzymes have been pursued as interesting targets for the development of trypanocidal drugs. The structure-function relationships of pyruvate kinases (PYKs) from trypanosomatids (Trypanosoma and Leishmania) have been well-studied within this context. In this paper, we describe the structural and enzymatic characterization of PYK from T. congolense (TcoPYK), the main causative agent of Animal African Trypanosomosis (AAT), by employing a combination of enzymatic assays, thermal unfolding studies and X-ray crystallography

Free Fatty Acids in Bone Pathophysiology of Rheumatic Diseases

Obesity—in which free fatty acid (FFA) levels are chronically elevated—is a known risk factor for different rheumatic diseases, and obese patients are more likely to develop osteoarthritis (OA) also in non-weight-bearing joints. These findings suggest that FFA may also play a role in inflammation-related joint damage and bone loss in rheumatoid arthritis (RA) and OA. Therefore, the objective of this study was to analyze if and how FFA influence cells of bone metabolism in rheumatic diseases. When stimulated with FFA, osteoblasts from RA and OA patients secreted higher amounts of the proinflammatory cytokine interleukin (IL)-6 and the chemokines IL-8, growth-related oncogene α, and monocyte chemotactic protein 1. Receptor activator of nuclear factor kappa B ligand (RANKL), osteoprotegerin, and osteoblast differentiation markers were not influenced by FFA. Mineralization activity of osteoblasts correlated inversely with the level of FFA-induced IL-6 secretion. Expression of the Wnt signaling molecules, axin-2 and β-catenin, was not changed by palmitic acid (PA) or linoleic acid (LA), suggesting no involvement of the Wnt signaling pathway in FFA signaling for osteoblasts. On the other hand, Toll-like receptor 4 blockade significantly reduced PA-induced IL-8 secretion by osteoblasts, while blocking Toll-like receptor 2 had no effect. In osteoclasts, IL-8 secretion was enhanced by PA and LA particularly at the earliest time point of differentiation. Differences were observed between the responses of RA and OA osteoclasts. FFA might therefore represent a new molecular factor by which adipose tissue contributes to subchondral bone damage in RA and OA. In this context, their mechanisms of action appear to be dependent on inflammation and innate immune system rather than Wnt-RANKL pathways

arrayCGHbase: an analysis platform for comparative genomic hybridization microarrays

BACKGROUND: The availability of the human genome sequence as well as the large number of physically accessible oligonucleotides, cDNA, and BAC clones across the entire genome has triggered and accelerated the use of several platforms for analysis of DNA copy number changes, amongst others microarray comparative genomic hybridization (arrayCGH). One of the challenges inherent to this new technology is the management and analysis of large numbers of data points generated in each individual experiment. RESULTS: We have developed arrayCGHbase, a comprehensive analysis platform for arrayCGH experiments consisting of a MIAME (Minimal Information About a Microarray Experiment) supportive database using MySQL underlying a data mining web tool, to store, analyze, interpret, compare, and visualize arrayCGH results in a uniform and user-friendly format. Following its flexible design, arrayCGHbase is compatible with all existing and forthcoming arrayCGH platforms. Data can be exported in a multitude of formats, including BED files to map copy number information on the genome using the Ensembl or UCSC genome browser. CONCLUSION: ArrayCGHbase is a web based and platform independent arrayCGH data analysis tool, that allows users to access the analysis suite through the internet or a local intranet after installation on a private server. ArrayCGHbase is available at