gebhart/patrepeval huggingface dataset:
A monitoring sensor management system for grid environments (2002)

Large distributed systems, such as computational grids, require a large amount of monitoring data be collected for a variety of tasks, such as fault detection, performance analysis, performance tuning, performance prediction and scheduling. Ensuring that all necessary monitoring is turned on and that the data is being collected can be a very tedious and error-prone task. We have developed an agent-based system to automate the execution of monitoring sensors and the collection of event data.
Characterization of stress–strain behaviour of red blood cells (RBCs), part I: methodology development and application to healthy RBCs (2014)

Deformation characteristics of red blood cells (RBCs) are closely linked to disease progression and hold promise as a tool for disease diagnosis. Recent studies have been conducted to measure these deformation characteristics using optical tweezers. Models of RBCs are developed to reproduce some of these measurements and to gain insights into the mechanical behaviour of RBCs. In this paper, a new inverse analysis approach, SelfSim (Self-Learning Simulations), is introduced to extract RBC material stress–strain behaviour from complementary boundary measurements of forces and displacements obtained by optical tweezers. SelfSim inverse analysis approach allows the user to discover new material stress–strain relationships to best reproduce the global force-displacement measurements. SelfSim is verified using simulated RBC experiments and then applied to physical measurements on healthy RBC. SelfSim reveals that in order to capture the interrelationship between measured axial and transverse deformations, the stress–strain relationship for healthy RBCs has to be anisotropic and thus differs from commonly assumed isotropic hyperelastic response.
Augmented reality kanji learning (2003)

ARToolKit programmers are familiar with the kanji symbols supplied with the distribution. Most of them do not know what these kanji symbols mean. We propose a piece of educational software that uses collaborative augmented reality (AR) to teach users the meaning of kanji symbols. The application is laid out as a two player augmented reality computer game. The novelty of our approach is that we do not use regular workstations or laptops to host the AR (augmented reality) application. Instead we use fully autonomous PDAs, running the application together with an optical marker-based tracking module that makes this application not only available for a broad audience but also optimally mobile.
Assessment of general applicability of ego noise estimation (2011)

Noise generated due to the motion of a robot deteriorates the quality of the desired sounds recorded by robot-embedded microphones. On top of that, a moving robot is also vulnerable to its loud fan noise that changes its orientation relative to the moving limbs where the microphones are mounted on. To tackle the non-stationary ego-motion noise and the direction changes of fan noise, we propose an estimation method based on instantaneous prediction of ego noise using parameterized templates. We verify the ego noise suppression capability of the proposed estimation method on a humanoid robot by evaluating it on two important applications in the framework of robot audition: (1) automatic speech recognition and (2) sound source localization. We demonstrate that our method improves recognition and localization performance during both head and arm motions considerably.
The Impact of Paricalcitol on Left Ventricular Hypertrophy (2011)

Cardiovascular (CV) morbidity and mortality are significantly higher in patients with chronic kidney disease (CKD). Mineral metabolism disorders, such as hyperphosphatemia, hypocalcemia, and vitamin D deficiency, have been deeply associated not only with bone disease, but also with vascular calcification and CV disease. In addition, the decrease in vitamin D production stimulates the renin-angiotensin-aldosterone system, resulting in vasoconstriction and salt and water retention, which further promotes arterial stiffening. Several studies have shown that supplementation with vitamin D ameliorates some of these issues and is associated with improved survival. However, vitamin D also elevates serum levels of calcium and phosphorus. Selective vitamin D receptor (VDR) activators, such as paricalcitol, provide similar efficacy but are not associated with elevated serum concentrations of calcium and phosphorus. By selectively activating VDR, paricalcitol should enhance cardiorenal protection and provide significant clinical benefit. Therefore, paricalcitol may offer a novel and interesting approach to supplement and potentially enhance the standard of care in CKD patients.
Photoconductivity of Zn-Doped GaN (1974)

As the Zn concentration in GaN is increased, a drastic change is observed in the electron concentration and in the photoconductivity spectrum.
Human Cytomegalovirus IE1 Protein Enhances Herpes Simplex Virus Type 1-induced Syncytial Formation in U373MG Cells (2008)

Co-infection of herpes simplex virus type 1 (HSV-1) and human cytomegalovirus (HCMV) is not uncommon in immunocompromised hosts. Importantly, organ transplant recipients concurrently infected with HSV-1 and HCMV have a worse clinical outcome than recipients infected with a single virus. However, factors regulating the pathologic response in HSV-1, HCMV co-infected tissues are unclear. We investigated the potential biologic role of HCMV gene product immediate early 1 (IE1) protein in HSV-1-induced syncytial formation in U373MG cells. We utilized a co-infection model by infecting HSV-1 to U373MG cells constitutively expressing HCMV IE1 protein, UMG1-2. Syncytial formation was assessed by enumerating nuclei number per syncytium and number of syncytia. HSV-1-induced syncytial formation was enhanced after 24 hr in UMG1-2 cells compared with U373MG controls. The amplified phenotype in UMG1-2 cells was effectively suppressed by roscovitine in addition to inhibitors of viral replication. This is the first study to provide histological evidence of the contribution of HCMV IE1 protein to enhanced cytopathogenic responses in active HSV-1 infection.
Immersive visual analytics for transformative neutron scattering science (2016)

The ORNL Spallation Neutron Source (SNS) provides the most intense pulsed neutron beams in the world for scientific research and development across a broad range of disciplines. SNS experiments produce large volumes of complex data that are analyzed by scientists with varying degrees of experience using 3D visualization and analysis systems. However, it is notoriously difficult to achieve proficiency with 3D visualizations. Because 3D representations are key to understanding the neutron scattering data, scientists are unable to analyze their data in a timely fashion resulting in inefficient use of the limited and expensive SNS beam time. We believe a more intuitive interface for exploring neutron scattering data can be created by combining immersive virtual reality technology with high performance data analytics and human interaction. In this paper, we present our initial investigations of immersive visualization concepts as well as our vision for an immersive visual analytics framework that could lower the barriers to 3D exploratory data analysis of neutron scattering data at the SNS.
Propagation Modeling and Analysis of Molecular Motors in Molecular Communication (2016)

Molecular motor networks (MMNs) are networks constructed from molecular motors to enable nanomachines to perform coordinated tasks of sensing, computing, and actuation at the nano- and micro- scales. Living cells are naturally enabled with this same mechanism to establish point-to-point communication between different locations inside the cell. Similar to a railway system, the cytoplasm contains an intricate infrastructure of tracks, named microtubules, interconnecting different internal components of the cell. Motor proteins, such as kinesin and dynein, are able to travel along these tracks directionally, carrying with them large molecules that would otherwise be unreliably transported across the cytoplasm using free diffusion. Molecular communication has been previously proposed for the design and study of MMNs. However, the topological aspects of MMNs, including the effects of branches, have been ignored in the existing studies. In this paper, a physical end-to-end model for MMNs is developed, considering the location of the transmitter node, the network topology, and the receiver nodes. The end-to-end gain and group delay are considered as the performance measures, and analytical expressions for them are derived. The analytical model is validated by Monte-Carlo simulations and the performance of MMNs is analyzed numerically. It is shown that, depending on their nature and position, MMN nodes create impedance effects that are critical for the overall performance. This model could be applied to assist the design of artificial MMNs and to study cargo transport in neurofilaments to elucidate brain diseases related to microtubule jamming.
Dynamic load-balancing on multi-FPGA systems: a case study (2007)

In this case study, we investigate the impact of workload balance on the performance of multi-FPGA codes. We start with an application in which two distinct kernels run in parallel on two SRC-6 MAP processors. We observe that one of the MAP processors is idle 18% of the time while the other processor is fully utilized. We investigate a task redistribution schema which serializes the execution of the two kernels, yet parallelizes execution of each individual kernel by spreading the workload between two MAP processors. This implementation results in a near 100% utilization of both MAP processors and the overall application performance is improved by 9%.
Preparation and certification of the new reference material fly-ash (JSAC0501) for dioxin analysis. (2001)

(社) 日本分析化学会ではダイオキシン類標準物質作成小委員会を組織し, フライアッシュのダイオキシン類分析用組成認証標準物質を開発した. 19の分析測定機関が参加して共同実験を実施した. 統計処理にはロバストーzスコア法を適用した. 開発されたダイオキシン類認証標準物質 (CRM) は, ダイオキシン類分析値の信頼性, 客観性を評価するための精度管理, 品質管理などで有効活用が期待される.
Spotlight synthetic aperture radar : signal processing algorithms (1995)

Part 1 Introduction: spotlight SAR SAR modes importance of spotlight SAR early SAR chronology. Part 2 Synthetic aperture radar fundamentals: SAR system overview imaging considerations pulse compression and range resolution synthetic aperture technique for Azimuth resolution SAR coherence requirements signal phase equation inverse SAR (ISAR) SAR sensor parametric design. Part 3 Spotlight SAR and polar format algorithm: scope of processing task polar format overview polar data storage as a two-dimensional signal correction for non-planar motion polar format algorithm limitations Taylor series expansion procedures phase of image pixels image geometric distortion image focus error equations displacements and absolute positioning. Part 4 Digital polar format processing: sampling rate conversion polyphase filters polar interpolation image scale factors image distortion correction signal history projections stabilized scene polar interpolation subpatch processing and mosaicking. Part 5 Phase errors: classification of phase error management of phase error magnitude of phase error requirements on a practical SAR motion sensor moving target effects. Part 6 Autofocus techniques: mapdrift multiple aperture mapdrift phase difference phase gradient prominent point processing considerations for space-variant refocus. Part 7 Processor design examples: the common UNIX SAR processor the ground to air imaging radar processor. Part 8 SAR system performance: image quality metrics system performance budgeting requirements on system impulse response requirements on system noise geometric distortion secondary image quality metrics test arrays. Part 9 Spotlight processing applications: spotlight processing of scan and stripmap SAR data interferometric SAR forward look SAR vibrating target detection. Part 10 Range migration algorithm: model algorithm overview analytical development discussion efficient algorithms for range migration processing. Part 11 Chirp scaling algorithm: non-dechirped signal model algorithm overview analytical development discussion. Part 12 Comparison of image formation algorithms: image formation algorithm models computational complexity memory requirements other considerations.
Investigation of Triamcinolone in Acute Phonotrauma (2011)

Objective Investigate the effects of triamcinolone on transcript levels of the inflammatory markers (COX‐2, TGF‐β1, IL‐1β) and tight junction proteins (zonula occludin‐1 (ZO‐1), occludin, E‐cadherin, β‐catenin) in an in vivo model of acute phonotrauma. We hypothesized that triamcinolone downregulates inflammatory mediator gene expression and upregulates tight junction gene expression. Method Eight New Zealand white rabbits received intralaryngeal triamcinolone acetonide at the following concentrations: saline control, 100 µg/25 µL, 400 µg/25 µL, and 800 µg/25 mL followed by 30 minutes of raised intensity phonation. Quantitative polymerase chain reaction (qPCR) was used to investigate gene expression levels of inflammatory markers and epithelial tight junction proteins. Results Results of qPCR revealed dose‐dependent changes in COX‐2, TGF‐β1, and IL‐1β. Higher concentrations of triamcinolone showed an inverse relationship with transcription of these gene products. For tight junction proteins, qPCR showed upregulated gene expression of ZO‐1, occludin, and E‐cadherin in rabbits receiving 100 µg/25 µL triamcinolone compared to controls. However, higher concentrations of triamcinolone resulted in decreased levels of tight junction gene expression. Conclusion Triamcinolone is used for treatment of laryngeal disorders. However, the anti‐inflammatory properties of triamcinolone have not been demonstrated in the larynx. Results of this experiment provide support for the hypothesis that triamcinolone downregulates inflammatory mediator gene expression and upregulates tight junction gene expression at lower concentrations in acute phonotrauma.
On the Monte Carlo Boolean decision tree complexity of read-once formulae (2002)

In the Boolean decision tree model there is at least a linear gap between the Monte Carlo and the Las Vegas complexity of a function depending on the error probability. The author proves for a large class of read-once formulae that this trivial speed-up is the best that a Monte Carlo algorithm can achieve. For every formula F belonging to that class it is shown that the Monte Carlo complexity of F with two-sided error p is (1-2p)R(F), and with one-sided error p is (1-p)R(F), where R(F) denotes the Las Vegas complexity of F. The result follows from a general lower bound that is derived on the Monte Carlo complexity of these formulae.< <ETX xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink">&gt;</ETX>
Deciphering the Bacterial Microbiome in Huanglongbing-Affected Citrus Treated with Thermotherapy and Sulfonamide Antibiotics (2016)

Huanglongbing (HLB) is a serious citrus disease that threatens the citrus industry. In previous studies, sulfonamide antibiotics and heat treatment suppressed 'Candidatus Liberibacter asiaticus' (Las), but did not completely eliminate the Las. Furthermore, there are few reports studying the bacterial microbiome of HLB-affected citrus treated by heat and sulfonamide antibiotics. In this study, combinations of heat (45°C or 40°C) and sulfonamide treatment (sulfathiazole sodium-STZ, or sulfadimethoxine sodium-SDX) were applied to HLB-affected citrus. The bacterial microbiome of HLB-affected citrus following thermotherapy and/or chemotherapy was characterized by PhyloChipTMG3-based metagenomics. Our results showed that the combination of thermotherapy at 45°C and chemotherapy with STZ and SDX was more effective against HLB than thermotherapy alone, chemotherapy alone, or a combination of thermotherapy at 40°C and chemotherapy. The PhyloChipTMG3-based results indicated that 311 empirical Operational Taxonomic Units (eOTUs) were detected in 26 phyla. Cyanobacteria (18.01%) were dominant after thermo-chemotherapy. Thermotherapy at 45°C decreased eOTUs (64.43%) in leaf samples, compared with thermotherapy at 40°C (73.96%) or without thermotherapy (90.68%) and it also reduced bacterial family biodiversity. The eOTU in phylum Proteobacteria was reduced significantly and eOTU_28, representing "Candidatus Liberibacter," was not detected following thermotherapy at 45°C. Following antibiotic treatment with SDX and STZ, there was enhanced abundance of specific eOTUs belonging to the families Streptomycetaceae, Desulfobacteraceae, Chitinophagaceae, and Xanthomonadaceae, which may be implicated in increased resistance to plant pathogens. Our study further develops an integrated strategy for combating HLB, and also provides new insight into the bacterial microbiome of HLB-affected citrus treated by heat and sulfonamide antibiotics.
‘Conditioning’ the heart during surgery (2009)

Coronary heart disease (CHD) is the leading cause of death worldwide. Coronary artery bypass graft (CABG) surgery remains the procedure of choice for coronary artery revascularisation in a large number of patients with severe CHD. However, the profile of patients undergoing CABG surgery is changing with increasingly higher-risk patients being operated upon, resulting in significant morbidity and mortality in this patient group. Myocardial injury sustained during cardiac surgery, most of which can be attributed to acute myocardial ischaemia-reperfusion injury, is associated with worse short-term and long-term clinical outcomes. Clearly, new treatment strategies are required to protect the heart during cardiac surgery in terms of reducing myocardial injury and preserving left ventricular systolic function, such that clinical outcomes can be improved. 'Conditioning' the heart to harness its endogenous cardioprotective capabilities using either brief ischaemia or pharmacological agents, provides a potentially novel approach to myocardial protection during cardiac surgery, and is the subject of this review article.
SURVEILLANCE METHODS FOR VIRUSES IN FOODS1 (1969)

Viruses contaminate foods and sometimes cause illnesses in consumers. Methods have been needed for detection of foodborne viruses both in routine field samples and in samples associated with outbreaks of disease. Viruses are detected by inoculating living hosts such as tissue cultures or laboratory animals. Food samples, made fluid if necessary, can be inoculated directly into the test host. This approach has resulted in several isolations of viruses from field samples of foods. If greater sensitivities are desired, larger samples must be tested. This usually requires that the sample be concentrated before inoculation into the test host, and concentration can be performed only if food solids in the suspension are at a minimum. A family of methods has been developed for extraction and detection of enteroviruses from food samples. More recently, a procedure for dislodging enteroviruses from food surfaces has been devised. These procedures do not possess all of the desired properties of an ideal test method. In particular, they cannot detect all of the viruses known to be transmitted in foods. They do offer the possibility that several samples could be tested per day, with good sensitivity, at a moderate cost per sample. The means for routine surveillance of foods for virus contamination are at hand. Growing points for further development of surveillance methods are discussed.
Chimeric Antigen Receptor–Modified T Cells and T Cell–Engaging Bispecific Antibodies: Different Tools for the Same Job (2021)

By now there are multiple approaches combining the advantages of BiAb and CAR T cells. A major area of research is the application of both formats for solid tumor entities. This includes improving the infiltration of T cells into the tumor, counteracting immunosuppression in the tumor microenvironment, targeting antigen heterogeneity, and limiting off-tumor on-target effects. BiAb come with the major advantage of being an off-the-shelf product and are more controllable because of their half-life. They have also been reported to induce less frequent and less severe adverse events. CAR T cells in turn demonstrate superior response rates, have the potential for long-term persistence, and can be additionally genetically modified to overcome some of their limitations, e.g., to make them more controllable.
Expression of E3 Ubiquitin Ligases in Multiple Myeloma Patients after Treatment with the Proteasome Inhibitor Bortezomib (2015)

Aim: Clinical success of the proteasome inhibitor bortezomib for multiple myeloma (MM) treatment highlights the potential of therapeutically targeting the ubiquitin (Ub) + proteasome system. However, bortezomib treatment invariably leads to therapeutic resistance through mechanisms that remain elusive and that limit long-term clinical efficacy. We hypothesized that individual E3 Ub ligases were differentially expressed in MM patients that did or did not respond to bortezomib. E3 ligases bind intracellular protein substrates leading to their subsequent ubiquitination that then triggers proteasomal degradation of the substrate. The aim of the present study was to analyze the gene expression profiles (GEPs) from MM patients and identify E3 Ub ligases that correlated with clinical response to bortezomib. \nMethods: MM tumor cells were collected by bone marrow biopsy from newly diagnosed patients, and RNA isolated and GEPs were correlated with individual patient response to bortezomib. \nResults: Expression of the E3 Ub ligase Skp1-Cullin-1-F-box (SCF)-Skp2 was significantly increased in MM patients that did not respond to bortezomib. However, SCF-Skp2 expression was not increased in GEPs from patients that did not respond to other anti-myeloma agents.\nConclusion: Drugs that target the E3 Ub ligase SCF-Skp2 may overcome bortezomib resistance and display refined specificity with reduced adverse toxicities.
In Vivo Analysis of Wnt Signaling in Bone (2007)

Bone remodeling requires osteoblasts and osteoclasts working in concert to maintain a constant bone mass. The dysregulation of signaling pathways that affect osteoblast or osteoclast differentiation or function leads to either osteopenia or high bone mass. The discovery that activating and inactivating mutations in low-density lipoprotein receptor-related protein 5, a putative Wnt coreceptor, led to high bone mass and low bone mass in human beings, respectively, generated a tremendous amount of interest in the possible role of the Wnt signaling pathway in the regulation of bone remodeling. A number of mouse models have been generated to study a collection of Wnt signaling molecules that have been identified as regulators of bone mass. These mouse models help establish the canonical Wnt signaling pathway as a major regulator of chondrogenesis, osteoblastogenesis, and osteoclastogenesis. This review will summarize these advances.
Real-Time Component Integration Using Runnable Virtual Nodes (2012)

We present the concept of runnable virtual nodes (RVNs) as means to achieve predictable integration and temporal error-containment of real-time software components. An RVN exploits the latest techniques for hierarchical scheduling and is intended as a coarse-grained component for single-node deployment, that provides functional and temporal isolations with respect to its environment. It uses a two-level deployment process, i.e. deploying functional entities to RVNs and then deploying RVNs to physical nodes. The two-level deployment process not only gives development benefits with respect to compos ability, system integration, testing, validation and certification but also leverages the hierarchical scheduling to preserve the validity of an RVN's internal temporal behaviour when integrated with other components. We have applied our approach to a simple case study, implemented in the ProCom component-technology executing on top of FreeRTOS-based hierarchical scheduling and present our initial results as a proof-of-concept.