A next-generation CFD tool for large-eddy simulations on the desktop

Dive deep into the fascinating world of real-time computational fluid dynam- ics. We present details of our GPU-accelerated flow solver for the simulation of non-linear violent flows in marine and coastal engineering. The solver, the efficient lattice boltzmann environment elbe, is accelerated with recent NVIDIA graphics hardware and allows for three-dimensional simulations of complex flows in or near real-time. Details of the very ef- ficient numerical back end, the pre- and postprocessing tools and the integrated OpenGL visualizer tool will be discussed. Moreover, several applications with marine relevance demonstrate that elbe can be considered as prototype for next-generation CFD tools for simulation-based design (SBD) and interactive flow field monitoring on commodity hardware

Using vibration data to classify conditions in disk stack separators

Mounting sensors in disk stack separators is often a major challenge due to the operating conditions. However, a process cannot be optimally monitored without sensors. Virtual sensors can be a solution to calculate the sought parameters from measurable values. We measured the vibrations of disk stack separators and applied machine learning (ML) to detect whether the separator contains only water or whether particles are also present. We combined seven ML classification algorithms with three feature engineering strategies and evaluated our model successfully on vibration data of an experimental disk stack separator. Our experimental results demonstrate that random forest in combination with manual feature engineering using domain specific knowledge about suitable features outperforms all other models with an accuracy of 91.27 %

AtlantOS Deliverable 6.2: Roadmap for emerging networks

Whilst the AtlantOS project is directed towards bringing together the existing, but currently disparate observing programmes in the Atlantic Ocean, there are still some gaps in terms of requirements for addressing the collection and curation of data around the Essential Ocean Variables. This deliverable will identify gaps and emerging observing networks. Here we use the term emerging network to classify science areas that are starting to gain importance with respect to EOV’s and their measurement and curation, or are existing small scale programmes or communities that might become more important in the future if we can find means of enhancing the collaboration among investigators/groups, increasing resources to the area or using new technological developments. In the AtlantOS project we have identified a number of areas in which there are gaps in our knowledge and where opportunities exist to enhance current small-scale networks. The scope of this document is to assess these networks, based on where we are now and where the networks could be in three and ten years’ time, respectively. An assessment of the state of the existing networks is useful to identify the level of international organisation and potential for further development in the future. We identify opportunities where synergies are possible with more established global projects, and where small levels of investment in resource and time for governance and coordination can productively and realistically develop the networks. We also identify if there are ways to develop coordinated approaches to metrology technology development. For this analysis, the networks have been allocated to one of the three groups outlined below

Roadmap for emerging networks

Assessment of networks and gap analysis that highlights opportunities for development over three and ten year timescale

Bilateral vestibulopathy and age:experimental considerations for testing dynamic visual acuity on a treadmill

Introduction: Bilateral vestibulopathy (BVP) can affect visual acuity in dynamic conditions, like walking. This can be assessed by testing Dynamic Visual Acuity (DVA) on a treadmill at different walking speeds. Apart from BVP, age itself might influence DVA and the ability to complete the test. The objective of this study was to investigate whether DVA tested while walking, and the drop-out rate (the inability to complete all walking speeds of the test) are significantly influenced by age in BVP-patients and healthy subjects. Methods: Forty-four BVP-patients (20 male, mean age 59 years) and 63 healthy subjects (27 male, mean age 46 years) performed the DVA test on a treadmill at 0 (static condition), 2, 4 and 6 km/h (dynamic conditions). The dynamic visual acuity loss was calculated as the difference between visual acuity in the static condition and visual acuity in each walking condition. The dependency of the drop-out rate and dynamic visual acuity loss on BVP and age was investigated at all walking speeds, as well as the dependency of dynamic visual acuity loss on speed. Results: Age and BVP significantly increased the drop-out rate (p ≤ 0.038). A significantly higher dynamic visual acuity loss was found at all speeds in BVP-patients compared to healthy subjects (p < 0.001). Age showed no effect on dynamic visual acuity loss in both groups. In BVP-patients, increasing walking speeds resulted in higher dynamic visual acuity loss (p ≤ 0.036). Conclusion DVA tested while walking on a treadmill, is one of the few “close to reality” functional outcome measures of vestibular function in the vertical plane. It is able to demonstrate significant loss of DVA in bilateral vestibulopathy patients. However, since bilateral vestibulopathy and age significantly increase the drop-out rate at faster walking speeds, it is recommended to use age-matched controls. Furthermore, it could be considered to use an individual “preferred” walking speed and to limit maximum walking speed in older subjects when testing DVA on a treadmill

Soluble Klotho: a possible predictor of quality of life in acromegaly patients

Purpose: Although quality of life (QoL) is improved in patients with acromegaly after disease control, QoL correlates only weakly with traditional biomarkers. Our objective is to investigate a potential relation between the new serum biomarker soluble Klotho (sKlotho), GH and insulin-like growth factor 1 (IGF-

Pan-Cancer Analysis of lncRNA Regulation Supports Their Targeting of Cancer Genes in Each Tumor Context

Long noncoding RNAs (lncRNAs) are commonly dys-regulated in tumors, but only a handful are known toplay pathophysiological roles in cancer. We inferredlncRNAs that dysregulate cancer pathways, onco-genes, and tumor suppressors (cancer genes) bymodeling their effects on the activity of transcriptionfactors, RNA-binding proteins, and microRNAs in5,185 TCGA tumors and 1,019 ENCODE assays.Our predictions included hundreds of candidateonco- and tumor-suppressor lncRNAs (cancerlncRNAs) whose somatic alterations account for thedysregulation of dozens of cancer genes and path-ways in each of 14 tumor contexts. To demonstrateproof of concept, we showed that perturbations tar-geting OIP5-AS1 (an inferred tumor suppressor) andTUG1 and WT1-AS (inferred onco-lncRNAs) dysre-gulated cancer genes and altered proliferation ofbreast and gynecologic cancer cells. Our analysis in-dicates that, although most lncRNAs are dysregu-lated in a tumor-specific manner, some, includingOIP5-AS1, TUG1, NEAT1, MEG3, and TSIX, synergis-tically dysregulate cancer pathways in multiple tumorcontexts

Pan-cancer Alterations of the MYC Oncogene and Its Proximal Network across the Cancer Genome Atlas

Although theMYConcogene has been implicated incancer, a systematic assessment of alterations ofMYC, related transcription factors, and co-regulatoryproteins, forming the proximal MYC network (PMN),across human cancers is lacking. Using computa-tional approaches, we define genomic and proteo-mic features associated with MYC and the PMNacross the 33 cancers of The Cancer Genome Atlas.Pan-cancer, 28% of all samples had at least one ofthe MYC paralogs amplified. In contrast, the MYCantagonists MGA and MNT were the most frequentlymutated or deleted members, proposing a roleas tumor suppressors.MYCalterations were mutu-ally exclusive withPIK3CA,PTEN,APC,orBRAFalterations, suggesting that MYC is a distinct onco-genic driver. Expression analysis revealed MYC-associated pathways in tumor subtypes, such asimmune response and growth factor signaling; chro-matin, translation, and DNA replication/repair wereconserved pan-cancer. This analysis reveals insightsinto MYC biology and is a reference for biomarkersand therapeutics for cancers with alterations ofMYC or the PMN

Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin