nils-herrmann/clean_scirepeval huggingface dataset:
High Throughput Parallel Implementation of Aho-Corasick Algorithm on a GPU

Pattern matching is an important operation in various applications such as computer and network security, bioinformatics, image processing, among many others. Aho-Corasick (AC) algorithm is a multiple patterns matching algorithm commonly used for such applications. In order to meet the highly demanding performance requirements imposed on these applications, achieving high performance for AC algorithm is crucial. In this paper, we present a high performance parallel implementation of AC algorithm on a Graphic Processing Unit (GPU) which efficiently utilizes the high degree of on-chip parallelism and the memory hierarchy of the GPU so that the aggregate performance (or throughput) of the GPU can be maximized. For this purpose our approach carefully places and caches the input text data and the reference pattern data used for pattern matching in the on-chip shared memories and the texture caches of the GPU. Furthermore, it efficiently schedules the off-chip global memory loads and the shared memory stores in order to minimize the overheads in loading the input data to the shared memories and also to minimize the shared memory bank conflicts. The proposed approach leads to a significant cut-down of the effective memory access latencies and leads to impressive performance improvements. Experimental results on Nvidia GeForce GTX 285 GPU show that our approach delivers up to 127Gbps throughput performance and up to 222-times speedup compared with a serial version running on 2.2Ghz Core2Duo Intel processor.
Attachment theory and John Bowlby: some reflections.

The 100th anniversary of Edward John Mostyn Bowlby's birth (February 26th, 1907) was celebrated at the Tavistock Clinic in London by his family and colleagues, with presentations of ongoing research as well as reflections on both the person and his theory. My own reflections include the influence of ethological thinking on the development of attachment theory, Bowlby's focus on observations followed by explanation, his appreciation of emotional communication as well as behavior, and his recognition of the role of the family as well as the child/caregiver dyad. While always remaining open to new avenues of research, John Bowlby was firmly insistent on the precise use of attachment terminology, and quite rightly too!
Learn and play with interactive TV

Despite the criticism concerning the value of TV content, research reveals several worthwhile aspects -- one of them is the opportunity to learn. In this article we explore the characteristics of interactive TV applications that facilitate education and interactive entertainment. In doing so we analyze research methods and empirical results from experimental and field studies. The findings suggest that interactive TV applications provide support for education and entertainment for children and young people, as well as continuous education for all. In particular, interactive TV is especially suitable for (1) informal learning and (2) for engaging and motivating its audience. We conclude with an agenda for future interactive TV research in entertainment and education.
Relevance of breast cancer hormone receptors and other factors to the efficacy of adjuvant tamoxifen: patient-level meta-analysis of randomised trials

As trials of 5 years of tamoxifen in early breast cancer mature, the relevance of hormone receptor measurements (and other patient characteristics) to long-term outcome can be assessed increasingly reliably. We report updated meta-analyses of the trials of 5 years of adjuvant tamoxifen.



We undertook a collaborative meta-analysis of individual patient data from 20 trials (n=21,457) in early breast cancer of about 5 years of tamoxifen versus no adjuvant tamoxifen, with about 80% compliance. Recurrence and death rate ratios (RRs) were from log-rank analyses by allocated treatment.



In oestrogen receptor (ER)-positive disease (n=10,645), allocation to about 5 years of tamoxifen substantially reduced recurrence rates throughout the first 10 years (RR 0·53 [SE 0·03] during years 0-4 and RR 0·68 [0·06] during years 5-9 [both 2p<0·00001]; but RR 0·97 [0·10] during years 10-14, suggesting no further gain or loss after year 10). Even in marginally ER-positive disease (10-19 fmol/mg cytosol protein) the recurrence reduction was substantial (RR 0·67 [0·08]). In ER-positive disease, the RR was approximately independent of progesterone receptor status (or level), age, nodal status, or use of chemotherapy. Breast cancer mortality was reduced by about a third throughout the first 15 years (RR 0·71 [0·05] during years 0-4,  during years 5-9, and 0·68 [0·08] during years 10-14; p<0·0001 for extra mortality reduction during each separate time period). Overall non-breast-cancer mortality was little affected, despite small absolute increases in thromboembolic and uterine cancer mortality (both only in women older than 55 years), so all-cause mortality was substantially reduced. In ER-negative disease, tamoxifen had little or no effect on breast cancer recurrence or mortality.



5 years of adjuvant tamoxifen safely reduces 15-year risks of breast cancer recurrence and death. ER status was the only recorded factor importantly predictive of the proportional reductions. Hence, the absolute risk reductions produced by tamoxifen depend on the absolute breast cancer risks (after any chemotherapy) without tamoxifen.
Towards spoken clinical-question answering: evaluating and adapting automatic speech-recognition systems for spoken clinical questions

To evaluate existing automatic speech-recognition (ASR) systems to measure their performance in interpreting spoken clinical questions and to adapt one ASR system to improve its performance on this task.



The authors evaluated two well-known ASR systems on spoken clinical questions: Nuance Dragon (both generic and medical versions: Nuance Gen and Nuance Med) and the SRI Decipher (the generic version SRI Gen). The authors also explored language model adaptation using more than 4000 clinical questions to improve the SRI system's performance, and profile training to improve the performance of the Nuance Med system. The authors reported the results with the NIST standard word error rate (WER) and further analyzed error patterns at the semantic level.



Nuance Gen and Med systems resulted in a WER of 68.1% and 67.4% respectively. The SRI Gen system performed better, attaining a WER of 41.5%. After domain adaptation with a language model, the performance of the SRI system improved 36% to a final WER of 26.7%.



Without modification, two well-known ASR systems do not perform well in interpreting spoken clinical questions. With a simple domain adaptation, one of the ASR systems improved significantly on the clinical question task, indicating the importance of developing domain/genre-specific ASR systems.
Aggregation and Degradation in JetStream: Streaming Analytics in the Wide Area

We present JetStream, a system that allows real-time analysis of large, widely-distributed changing data sets. Traditional approaches to distributed analytics require users to specify in advance which data is to be backhauled to a central location for analysis. This is a poor match for domains where available bandwidth is scarce and it is infeasible to collect all potentially useful data. JetStream addresses bandwidth limits in two ways, both of which are explicit in the programming model. The system incorporates structured storage in the form of OLAP data cubes, so data can be stored for analysis near where it is generated. Using cubes, queries can aggregate data in ways and locations of their choosing. The system also includes adaptive filtering and other transformations that adjusts data quality to match available bandwidth. Many bandwidth-saving transformations are possible; we discuss which are appropriate for which data and how they can best be combined. We implemented a range of analytic queries on web request logs and image data. Queries could be expressed in a few lines of code. Using structured storage on source nodes conserved network bandwidth by allowing data to be collected only when needed to fulfill queries. Our adaptive control mechanisms are responsive enough to keep end-to-end latency within a few seconds, even when available bandwidth drops by a factor of two, and are flexible enough to express practical policies.
Biological and health effects of exposure to kerosene-based jet fuels and performance additives.

Over 2 million military and civilian personnel per year (over 1 million in the United States) are occupationally exposed, respectively, to jet propulsion fuel-8 (JP-8), JP-8 +100 or JP-5, or to the civil aviation equivalents Jet A or Jet A-1. Approximately 60 billion gallon of these kerosene-based jet fuels are annually consumed worldwide (26 billion gallon in the United States), including over 5 billion gallon of JP-8 by the militaries of the United States and other NATO countries. JP-8, for example, represents the largest single chemical exposure in the U.S. military (2.53 billion gallon in 2000), while Jet A and A-1 are among the most common sources of nonmilitary occupational chemical exposure. Although more recent figures were not available, approximately 4.06 billion gallon of kerosene per se were consumed in the United States in 1990 (IARC, 1992). These exposures may occur repeatedly to raw fuel, vapor phase, aerosol phase, or fuel combustion exhaust by dermal absorption, pulmonary inhalation, or oral ingestion routes. Additionally, the public may be repeatedly exposed to lower levels of jet fuel vapor/aerosol or to fuel combustion products through atmospheric contamination, or to raw fuel constituents by contact with contaminated groundwater or soil. Kerosene-based hydrocarbon fuels are complex mixtures of up to 260+ aliphatic and aromatic hydrocarbon compounds (C(6) -C(17+); possibly 2000+ isomeric forms), including varying concentrations of potential toxicants such as benzene, n-hexane, toluene, xylenes, trimethylpentane, methoxyethanol, naphthalenes (including polycyclic aromatic hydrocarbons [PAHs], and certain other C(9)-C(12) fractions (i.e., n-propylbenzene, trimethylbenzene isomers). While hydrocarbon fuel exposures occur typically at concentrations below current permissible exposure limits (PELs) for the parent fuel or its constituent chemicals, it is unknown whether additive or synergistic interactions among hydrocarbon constituents, up to six performance additives, and other environmental exposure factors may result in unpredicted toxicity. While there is little epidemiological evidence for fuel-induced death, cancer, or other serious organic disease in fuel-exposed workers, large numbers of self-reported health complaints in this cohort appear to justify study of more subtle health consequences. A number of recently published studies reported acute or persisting biological or health effects from acute, subchronic, or chronic exposure of humans or animals to kerosene-based hydrocarbon fuels, to constituent chemicals of these fuels, or to fuel combustion products. This review provides an in-depth summary of human, animal, and in vitro studies of biological or health effects from exposure to JP-8, JP-8 +100, JP-5, Jet A, Jet A-1, or kerosene.
Diagnosis and management of the metabolic syndrome: an American Heart Association/National Heart, Lung, and Blood Institute scientific statement.

The metabolic syndrome has received increased attention in the past few years. This statement from the American Heart Association (AHA) and the National Heart, Lung, and Blood Institute (NHLBI) is intended to provide up-to-date guidance for professionals on the diagnosis and management of the metabolic syndrome in adults. The metabolic syndrome is a constellation of interrelated risk factors of metabolic origin—metabolic risk factors—that appear to directly promote the development of atherosclerotic cardiovascular disease (ASCVD).1 Patients with the metabolic syndrome also are at increased risk for developing type 2 diabetes mellitus. Another set of conditions, the underlying risk factors, give rise to the metabolic risk factors. In the past few years, several expert groups have attempted to set forth simple diagnostic criteria to be used in clinical practice to identify patients who manifest the multiple components of the metabolic syndrome. These criteria have varied somewhat in specific elements, but in general they include a combination of both underlying and metabolic risk factors. The most widely recognized of the metabolic risk factors are atherogenic dyslipidemia, elevated blood pressure, and elevated plasma glucose. Individuals with these characteristics commonly manifest a prothrombotic state and a proinflammatory state as well. Atherogenic dyslipidemia consists of an aggregation of lipoprotein abnormalities including elevated serum triglyceride and apolipoprotein B (apoB), increased small LDL particles, and a reduced level of HDL cholesterol (HDL-C). The metabolic syndrome is often referred to as if it were a discrete entity with a single cause. Available data suggest that it truly is a syndrome, ie, a grouping of ASCVD risk factors, but one that probably has more than one cause. Regardless of cause, the syndrome identifies individuals at an elevated risk for ASCVD. The magnitude of the increased risk can vary according to which components of the syndrome are present plus the other, non–metabolic syndrome risk factors in a particular person.
Limited Preemptive Scheduling for Real-Time Systems. A Survey

The question whether preemptive algorithms are better than nonpreemptive ones for scheduling a set of real-time tasks has been debated for a long time in the research community. In fact, especially under fixed priority systems, each approach has advantages and disadvantages, and no one dominates the other when both predictability and efficiency have to be taken into account in the system design. Recently, limited preemption models have been proposed as a viable alternative between the two extreme cases of fully preemptive and nonpreemptive scheduling. This paper presents a survey of the existing approaches for reducing preemptions and compares them under different metrics, providing both qualitative and quantitative performance evaluations.
A Review of Analytics and Clinical Informatics in Health Care

Federal investment in health information technology has incentivized the adoption of electronic health record systems by physicians and health care organizations; the result has been a massive rise in the collection of patient data in electronic form (i.e. “Big Data”). Health care systems have leveraged Big Data for quality and performance improvements using analytics—the systematic use of data combined with quantitative as well as qualitative analysis to make decisions. Analytics have been utilized in various aspects of health care including predictive risk assessment, clinical decision support, home health monitoring, finance, and resource allocation. Visual analytics is one example of an analytics technique with an array of health care and research applications that are well described in the literature. The proliferation of Big Data and analytics in health care has spawned a growing demand for clinical informatics professionals who can bridge the gap between the medical and information sciences.
Wafer-scale graphene integrated circuit.

A wafer-scale graphene circuit was demonstrated in which all circuit components, including graphene field-effect transistor and inductors, were monolithically integrated on a single silicon carbide wafer. The integrated circuit operates as a broadband radio-frequency mixer at frequencies up to 10 gigahertz. These graphene circuits exhibit outstanding thermal stability with little reduction in performance (less than 1 decibel) between 300 and 400 kelvin. These results open up possibilities of achieving practical graphene technology with more complex functionality and performance.
Pharmacokinetics and pharmacogenetics of 13-cis retinoic acid in Indian high-risk neuroblastoma patients

To compare the pharmacokinetics of 13-cis retinoic acid (13-cisRA) between Indian and UK neuroblastoma patients receiving comparable treatment, alongside measures of toxicity and response. 13-cisRA (160 mg/m2/day) was administered to 36 patients ≤16 years in two divided doses. Plasma 13-cisRA concentrations were determined on days 1 and 14 of cycles 1 and 4 of treatment. Area under the plasma concentration–time curve (AUC0–6h) was estimated using non-compartment modelling. Patients were genotyped for UGT2B7, CYP3A5*3, CYP3A7*2 and *2, *3 and *4 variants of CYP2C8. Marked inter-patient variability in 13-cisRA pharmacokinetics was observed. There was a trend towards a higher AUC0–6h on day 1 versus day 14 for both treatment cycles studied. Children who swallowed 13-cisRA capsules (n = 18) achieved higher AUC0–6h values compared to those who could not (n = 16) (Mean AUC 21.53 vs. 9.35 µM h, P < 0.05). Patients who were event free at 1 year tended to have higher AUC0–6h on C1D1 compared to those patients who progressed, although this did not reach significance with the number of patients studied (P = 0.08). Similarly, patients who achieved a 13-cisRA C max of ≥2 µM on C1D1 tended to have higher median EFS compared to those who did not (17.0 vs. 8.1 months). UGT2B7, CYP2C8*2/*3/*4 or CYP3A5*3 genotype did not have any effect on 13-cisRA pharmacokinetics. Method of administration markedly affects 13-cisRA pharmacokinetics in Indian neuroblastoma patients, supporting similar findings in UK patients. An appropriate oral liquid formulation of 13-cisRA that can be administered to all children with neuroblastoma is urgently needed on an international level.
Scalable all-pairs similarity search in metric spaces

Given a set of entities, the all-pairs similarity search aims at identifying all pairs of entities that have similarity greater than (or distance smaller than) some user-defined threshold. In this article, we propose a parallel framework for solving this problem in metric spaces. Novel elements of our solution include: i) flexible support for multiple metrics of interest; ii) an autonomic approach to partition the input dataset with minimal redundancy to achieve good load-balance in the presence of limited computing resources; iii) an on-the- fly lossless compression strategy to reduce both the running time and the final output size. We validate the utility, scalability and the effectiveness of the approach on hundreds of machines using real and synthetic datasets.
Trajectory planning and following for UAVs with nonlinear dynamics

In this paper, we introduce a Matlab-based toolbox called OPTIPLAN, which is intended to formulate, solve and simulate problems of obstacle avoidance based on model predictive control (MPC). The main goal of the toolbox is that it allows the users to simply set up even complex control problems without loss in efficiency only in few lines of code. Slow mathematical and technical details are fully automated allowing researchers to focus on problem formulation. It can easily perform MPC based closed-loop simulations followed by fetching visualizations of the results. From the theoretical point of view, non-convex obstacle avoidance constraints are tackled in two ways in OPTIPLAN: either by solving mixed-integer program using binary variables, or using time-varying constraints, which leads to a suboptimal solution, but the problem remains convex.
Edge Computing in IoT Ecosystems for UAV-Enabled Early Fire Detection

Unmanned Aerial Vehicles (UAV) facilitate the development of Internet of Things (IoT) ecosystems for smart city and smart environment applications. This paper proposes the adoption of Edge and Fog computing principles to the UAV based forest fire detection application domain through a hierarchical architecture. This three-layer ecosystem combines the powerful resources of cloud computing, the rich resources of fog computing and the sensing capabilities of the UAVs. These layers efficiently cooperate to address the key challenges imposed by the early forest fire detection use case. Initial experimental evaluations measuring crucial performance metrics indicate that critical resources, such as CPU/RAM, battery life and network resources, can be efficiently managed and dynamically allocated by the proposed approach.
The influence of driving current on the LED modulation bandwidth indoor VLC

This paper discusses the effect of driving current on frequency response of the two types of light emitting diodes (LEDs), namely, phosphor-based LED and single color LED. The experiments show that the influence of the change of driving current on frequency response of phosphor-based LED is not obvious compared with the single color LED(blue, red and green). The experiments also find that the bandwidth of the white LED was expanded from 1MHz to 32MHz by the pre-equalization strategy and 26Mbit/s transmission speed was taken under Bit Error Ratio of 7.55×10-6 within 3m by non-return-to-zero on-off-keying modulation. Especially, the frequency response intensity of the phosphor-based LED is little influenced by the fluctuation of the driving current, which meets the requirements that the indoor light source needs to be adjusted in real-time by driving current. As the bandwidth of the single color LED is changed by the driving current obviously, the LED modulation bandwidth should be calculated according to the minimum driving current while we consider the requirement of the VLC transmission speed.
A Passive Elastic Ankle Exoskeleton Using Controlled Energy Storage and Release to Reduce the Metabolic Cost of Walking

Purely passive devices (e.g. dynamic ankle-foot orthoses (DAFOs)) can store and release elastic energy in rigid, non-hinged frames to assist walking without assistance from motors. This lightweight, simplistic approach has been shown to cause small increases in both walking speed and economy poststroke [6-8]. However there are downsides to current DAFO designs. First, rigid, non-hinged DAFOs restrict full ankle joint range of motion, allowing only limited rotation in the sagittal plane. Second, and perhaps more crucialcurrent DAFOs do not allow free ankle rotation during swing, making it difficult to dorsiflex in preparation for heel strike. Inability to dorsiflex freely during swing could impose a significant metabolic penalty, especially in healthy populations .
Self-Contained Photoacid Generator Triggered by Photocyclization of Triangle Terarylene Backbone.

We herein propose a new type of efficient neutral photoacid generator. A photoinduced 6π-electrocyclization reaction of photochromic triangle terarylenes triggers subsequent release of a Brønsted acid, which took place from the photocyclized form. A H-atom and its conjugate base were introduced at both sides of a 6π-system to form the self-contained photoacid generator. UV irradiation to the 6π-system produces a cyclohexa-1,3-diene part with a H-atom and a conjugate base on the sp(3) C-atoms at 5- and 6-positions, respectively, which spontaneously release an acid molecule quantitatively forming a polyaromatic compound. A net quantum yield of photoacid generation as high as 0.52 under ambient conditions and a photoinitiated cationic polymerization of an epoxy monomer are demonstrated.
Bifurcation of nontrivial periodic solutions for an impulsively controlled pest management model

In this paper, we investigate the existence of nontrivial periodic solutions for an integrated pest management model which is impulsively controlled by means of biological and chemical controls used in a periodic fashion. For this model, a nonlinear incidence rate is employed to describe the transmission of the disease which is induced through the use of the biological control, while the chemical control is used with the same periodicity as the biological control, although not at the same time. Our problem is treated by means of an operator theoretic approach, being reduced first to a fixed point problem. It is then shown that once a threshold condition is reached, the trivial periodic solution loses its stability and a nontrivial periodic solution appears via a supercritical bifurcation.