nils-herrmann/clean_scirepeval huggingface dataset:
Regulation of glycolysis and gluconeogenesis by acetylation of PKM and PEPCK.
Venue: Cold Spring Harbor symposia on quantitative biology
Year: 2011

Glycolysis is a catabolic process of glucose hydrolysis needed for energy and biosynthetic intermediates, whereas gluconeogenesis is a glucose production process important for maintaining blood glucose levels during starvation. Although they share many enzymes, these two processes are not simply the reverse of each other and are instead reciprocally regulated. Two key enzymes that regulate irreversible steps in these two processes are pyruvate kinase (PK) and phosphoenolpyruvate carboxy kinase (PEPCK) which catalyze the last and first step of glycolysis and gluconeogenesis, respectively, and are both regulated by lysine acetylation. Acetylation at Lys305 of the PKM (muscle form of PK) decreases its activity and also targets it for chaperone mediated autophagy and subsequent lysosome degradation. Acetylation of PEPCK, on the other hand, targets it for ubiquitylation by the HECT E3 ligase, UBR5/EDD1, and subsequent proteasomal degradation. These studies established a model in which acetylation regulates metabolic enzymes via different mechanisms and also revealed cross talk between acetylation and ubiquitination. Given that most metabolic enzymes are acetylated, we propose that acetylation is a major posttranslational modifier that regulates cellular metabolism.
Bringing Market Transition Theory to the Firm
Year: 2009

Market transition theory has specified general mechanisms to explain change in the balance of power between political and economic actors in transition economies. These mechanisms drive the endogenous construction of informal institutions of a market society; moreover, it is within the context of an ongoing change in relative power that the formal institutions of the emerging market economy arise. The theory makes clear predictions on the declining value of political capital as a consequence of progressive marketization, which incrementally results in transformative change in the direction of more relative autonomy between the political and economic spheres, not dissimilar from established market economies (Kornai, 1995; Evans, 1995; Nee, 2000; Lindenberg, 2000; Ricketts, 2000) In sum, the predicted change in relative power between redistributors and producers explains not only bottom up entrepreneurial activity, but also the emergence of a market economy in departures from state socialism.
Effect of warm mix additives on creep and recovery response of conventional and polymer modified asphalt binders
Year: 2017

This study appraised the effect of three warm mix additives (sasobit, evotherm and rediset) on the creep and recovery response of a conventional viscosity graded binder (VG 30) and a polymer modified binder (PMB 40) Multiple stress creep and recovery (MSCR) test was done at five different temperatures (30 70 degC) and two stress levels of 0.1 and 3.2 kPa. The output of MSCR test was simulated using Burger's four element model and time temperature superposition principle (TTSP) was used to assess the long term creep behavior of the binders at a reference temperature of 50 degC. Amongst the three warm mix additives, sasobit improved the resistance to permanent deformation characteristics of the control binders, followed by evotherm. Rediset was found to be ineffective in improving the creep and recovery response of the control binders. Its use led to increase in the unrecoverable creep compliance J nr and reduction in percent recovery. Burger's model was found to be apposite in simulating the measured response for all the binders at different test conditions. The viscous parameter, e M could be correlated with the other model parameters using a power law equation and also had an excellent association with J nr The long term creep behavior of the asphalt binders indicated that the difference in creep strain is more pronounced at higher loading times. Findley's power law model was found to be more appropriate for fitting the creep master curves in comparison to Burger's four element model.
The role of chronobiology in drug resistance epilepsy: The potential use of a variability and chronotherapy based individualized platform for improving the response to anti seizure drugs
Venue: Seizure
Year: 2020

Despite progress in the development of anti seizure drugs, drug resistant epilepsy (DRE) occurs in a third of patients. DRE is associated with poor quality of life and increased risk of sudden, unexplained death. The autonomic nervous system and chronobiology play a role in DRE. In the present paper, we provide a narrative review the mechanisms that underlie DRE and characterize some of the autonomic and chronotherapy associated parameters that contribute to the degree of response to therapy. Variability describes the functions of many biological systems, which are dynamic and continuously change over time. These systems are required for responses to continuing internal and external triggers, in order to maintain homeostasis and normal function. Both intra and inter subject variability in biological systems have been described. We present a platform, which comprises a personalized based machine learning closed loop algorithm built on epilepsy related signatures, autonomic signals, and chronotherapy, as a means for overcoming DRE, improving the response, and reducing the toxicity of current therapies.
Multiple component interventions for preventing falls and fall related injuries among older people: systematic review and meta analysis
Venue: BMC Geriatrics
Year: 2014

BackgroundLimited attention has been paid in the literature to multiple component fall prevention interventions that comprise two or more fixed combinations of fall prevention interventions that are not individually tailored following a risk assessment. The study objective was to determine the effect of multiple component interventions on fall rates, number of fallers and fall related injuries among older people and to establish effect sizes of particular intervention combinations.MethodsMedline, EMBASE, CINAHL, PsychInfo, Cochrane, AMED, UK Clinical Research Network Study Portfolio, Current Controlled Trials register and Australian and New Zealand Clinical Trials register were systematically searched to August 2013 for randomised controlled trials targeting those aged 60 years and older with any medical condition or in any setting that compared multiple component interventions with no intervention, placebo or usual clinical care on the outcomes reported falls, number that fall or fall related injuries. Included studies were appraised using the Cochrane risk of bias tool. Estimates of fall rate ratio and risk ratio were pooled across studies using random effects meta analysis. Data synthesis took place in 2013.ResultsEighteen papers reporting 17 trials were included (5034 participants) There was a reduction in the number of people that fell (pooled risk ratio 0.85, 95% confidence interval (95% CI) 0.80 to 0.91) and the fall rate (pooled rate ratio 0.80, 95% CI 0.72 to 0.89) in favour of multiple component interventions when compared with controls. There was a small amount of statistical heterogeneity (I2 20% across studies for fall rate and no heterogeneity across studies examining number of people that fell.ConclusionsThis systematic review and meta analysis of randomised controlled trials found evidence that multiple component interventions that are not tailored to individually assessed risk factors are effective at reducing both the number of people that fall and the fall rate. This approach should be considered as a service delivery option.
Brain Computer Interface Based Stochastic Navigation and Control of a Semiautonomous Mobile Robot in Indoor Environments
Venue: IEEE Transactions on Cognitive and Developmental Systems
Year: 2019

In this paper, a brain computer interface (BCI) based navigation and control strategy is developed for a mobile robot in indoor environments. It combines the simultaneous localization and mapping to achieve the navigation and positioning for a mobile robot in indoor environments, where the RGB landmarks are regarded as the environmental features learned by the FastSLAM algorithm. The online BCI, based on steady state visually evoked potentials, exploits multivariate synchronization index classification algorithm to analyze the human electroencephalograph (EEG) signals so that the human intention can be recognized accurately, and then the EEG based motion commands are produced for the mobile robot. Probability potential field approach based on the probability density function of 2 D normal distribution is connected with the brain signals to generate a collision free trajectory for the mobile robot. The entire system is semiautonomous, since the robot's low level behaviors are autonomous and the stochastic navigation is executed by the BCI, and it is verified by the extensive experiments involving five volunteers. All the participants can successfully tele operate the mobile robot, and the experimental results have verified the effectiveness of the proposed approach.
Association Between Smoking Status, Preoperative Exhaled Carbon Monoxide Levels, and Postoperative Surgical Site Infection in Patients Undergoing Elective Surgery
Venue: JAMA surgery
Year: 2017

Importance Cigarette smoking is a risk factor for many perioperative complications, including surgical site infection (SSI) The duration of abstinence from smoking required to reduce this risk is unknown.  To evaluate if abstinence from smoking on the day of surgery is associated with a decreased frequency of SSI in patients who smoke cigarettes and to confirm that smoking is significantly independently associated with SSI when adjustment is made for potentially relevant covariates, such as body mass index.  In this observational, nested, matched case control study, 2 analyses were performed at an academic referral center in the upper Midwest. Cases included all patients undergoing elective surgical procedures at Mayo Clinic, Rochester, Minnesota, between January 1, 2009, and July 31, 2014 (inclusive) who subsequently developed an SSI. Controls for both analyses were matched on age, sex, and type of surgery.  Smoking status and preoperative exhaled carbon monoxide level, assessed by nurses in the preoperative holding area. Patients were classified as smoking on the day of surgery if they self reported smoking or if their preoperative exhaled carbon monoxide level was 10 ppm or higher.  Surgical site infection after a surgical procedure at Mayo Clinic, Rochester, as identified by routine clinical surveillance using National Healthcare Safety Network criteria.  Of the 6919 patients in the first analysis, 3282 (47% were men and 3637 (53% were women; median age (interquartile range) for control and SSI cases was 60 (48 70) Of the 392 patients in the second analysis, 182 (46% were men and 210 (54% were women; median age (interquartile range) for controls was 53 (45 49) and for SSI cases was 51 (45 60) During the study period, approximately 2% of surgical patients developed SSI annually. Available for the first analysis (evaluating the influence of current smoking status) were 2452 SSI cases matched to 4467 controls. The odds ratio for smoking and SSI was 1.51 (95% CI, 1.20 1.90; P .001) which remained statistically significant after adjusting for covariates. In the second analysis (evaluating the influence of smoking on the day of surgery) there were 137 SSI cases matched to 255 controls. The odds ratio for smoking on the day of surgery and SSI was 1.96 (95% CI, 1.23 3.13; P .001) which remained statistically significant after adjusting for covariates. Preoperative exhaled carbon monoxide level was not associated with the frequency of SSI, suggesting that the association between smoking on the day of surgery and SSI was not related to preoperative exhaled carbon monoxide levels.  These data cannot distinguish whether abstinence per se reduces risk or whether it is associated with other factors that may be causative.
Economics of Technology, Securities and Capital Markets
Year: 2019

In this survey, I focus on the economic implications of FinTech innovation for securities and capital markets. I outline the key economic issues that have emerged in this area, review the literature that has studied these issues, and discuss open questions. The survey is structured around the key technological developments that affect capital market infrastructure and data analytics. The topics include electronic trading venues and high frequency trading, blockchain technology, cloud computing, and machine learning and artificial intelligence. We further discuss new investment and financing tools, which were enabled by recent technological advances, such as exchange traded funds and blockchain based assets.
The Educational Impact of Traditional Games: the Role of Zurkhaneh Sport in Educating Children
Year: 2017

Games, and in particular traditional games, can be seriously studied as the most important and attractive way of improving physical, mental, affective, and social health of members of society. Playing traditional games maintains physical health, improves spiritual and mental state, and institutionalizes cultural values. Zurkhaneh sports are among the most popular traditional sports that have long been practiced by people of Iran. Iranians' emphasis on magnanimity, bravery, integrity, nobility, and moral fiber has contributed to the long life of a great Iranian heritage, namely zurkhane sport. Zurkhaneh became known as a place where the most elegant characters, like magnanimity, forgiveness, sacrifice, altruism, combating ignorance, and adherence to moral principles and virtues, were fostered. Every single element of zurkhaneh sport is imbued with moral teachings. Respecting veterans, observing moral principles, praying, caring for the needy, and encouraging politeness and sportsmanlike behavior in addition to physical improvements are among the prominent features of this traditional sport. The present paper aims to explore the educational impacts of zurkhaneh sports on children by drawing on attractive features, background, and potentials of this traditional game.
Patient reported health related quality of life for men treated with low dose rate prostate brachytherapy as monotherapy with 125 iodine, 103 palladium, or 131 cesium: Results of a prospective phase II study.
Venue: Brachytherapy
Year: 2018

To compare quality of life (QoL) after brachytherapy with one of the three approved radioactive isotopes.  Patients with mostly favorable intermediate risk prostate cancer were treated on this prospective phase II trial with brachytherapy as monotherapy, without hormonal therapy. QoL was recorded at baseline and each follow up by using the Expanded Prostate Cancer Index Composite instrument. The minimal clinically important difference was defined as half the standard deviation of the baseline score for each domain. Mixed effect models were used to compare the different isotopes, and time driven activity based costing was used to compute costs.  From 2006 to 2013, 300 patients were treated with iodine 125 (I 125, n 98, prescribed dose [PD] 145 Gy) palladium 103 (Pd 103, n 102, PD 125 Gy) or cesium 131 (Cs 131, n 100, PD 115 Gy) Median age was 64.9 years. Median follow up time was 5.1 years for the entire cohort, and 7.1, 4.8 and 3.3 years for I 125, Pd 103, and Cs 131 groups, respectively. All three isotope groups showed an initial drop in QoL at first follow up, which gradually improved over the first 2 years for urinary and bowel domains. QoL profiles were similar between I 125 and Pd 103, whereas Cs 131 showed a statistically significant decrease in QoL regarding bowel and sexual function at 12 months compared with Pd 103. However, these differences did not reach the minimal clinically important difference. Compared with I 125, the use of Pd 103 or Cs 131 resulted in cost increases of 18% and 34% respectively.  The three different isotopes produced a similar QoL profile. Statistically significant differences favored Pd 103/I 125 over Cs 131 for bowel and sexual QoL, but this did not reach clinical significance.
Accuracy or novelty: what can we gain from target specific machine learning based scoring functions in virtual screening?
Venue: Briefings Bioinform.
Year: 2021

Machine learning (ML) based scoring functions (MLSFs) have gradually emerged as a promising alternative for protein ligand binding affinity prediction and structure based virtual screening. However, clouds of doubts have still been raised against the benefits of this novel type of scoring functions (SFs) In this study, to benchmark the performance of target specific MLSFs on a relatively unbiased dataset, the MLSFs trained from three representative protein ligand interaction representations were assessed on the LIT PCBA dataset, and the classical Glide SP SF and three types of ligand based quantitative structure activity relationship (QSAR) models were also utilized for comparison. Two major aspects in virtual screening campaigns, including prediction accuracy and hit novelty, were systematically explored. The calculation results illustrate that the tested target specific MLSFs yielded generally superior performance over the classical Glide SP SF, but they could hardly outperform the 2D fingerprint based QSAR models. Although substantial improvements could be achieved by integrating multiple types of protein ligand interaction features, the MLSFs were still not sufficient to exceed MACCS based QSAR models. In terms of the correlations between the hit ranks or the structures of the top ranked hits, the MLSFs developed by different featurization strategies would have the ability to identify quite different hits. Nevertheless, it seems that target specific MLSFs do not have the intrinsic attributes of a traditional SF and may not be a substitute for classical SFs. In contrast, MLSFs can be regarded as a new derivative of ligand based QSAR models. It is expected that our study may provide valuable guidance for the assessment and further development of target specific MLSFs.
Turnover at the Top: Estimating the Effects of Principal Turnover on Student, Teacher, and School Outcomes
Year: 2019

One in five schools loses its principal each year. Despite the prevalence of principal turnover, little empirical research has examined its effects on school outcomes. Because principal turnover may occur in response to or contemporaneous with a downturn in student achievement, the effect of a turnover is confounded with unobserved school level factors. We employ a novel identification strategy that blocks each potential source of endogeneity to isolate plausibly causal effects of withinand between year principal turnover. Using eight years of North Carolina administrative data from 2009 2018, we find that principal turnover is associated with significant decreases in student achievement and increases in teacher turnover. These effects are similar whether the turnover occurs over the summer or during the school year. EXAMINING THE EFFECTS OF PRINCIPAL TURNOVER 3
Energy router based minimum loss cost routing strategy in energy internet
Venue: 2020 IEEE 1st China International Youth Conference on Electrical Engineering (CIYCEE)
Year: 2020

The energy internet is a multi energy sharing system with the coordinated and optimized operation of "source network load storage" The energy router (ER) is the basic equipment in the future energy internet, so the research on the routing strategy of the ER is of great significance for the energy optimization. The traditional routing strategy based on the minimum loss path (MLP) does not consider the loss cost of different distributed energy resources (DERs) so the DERs with low loss cost have the same transaction priority as the DERs with high loss cost. In addition, power exchange should not be limited to traditional centralized allocation and scheduling, but peer to peer (P2P) transactions between ERs. Therefore, a minimum loss cost path (MLCP) routing strategy that can realize P2P transactions is proposed, which can maximize the benefits and improve the priority of renewable energy by modifying marginal cost coefficient. At the same time, a scheme of congestion management based on "the principle of equal mini rate of loss" is presented, which has less loss cost and can obtain the best optimization effect under the condition of critical congestion. Effectiveness of MLCP routing strategy is proved by simulation, and the superiority of the congestion management scheme is verified by comparing with traditional schemes.
The Effect of Explicit Structure Encoding of Deep Neural Networks for Symbolic Music Generation
Venue: 2019 International Workshop on Multilayer Music Representation and Processing (MMRP)
Year: 2019

With recent breakthroughs in artificial neural networks, deep generative models have become one of the leading techniques for computational creativity. Despite very promising progress on image and short sequence generation, symbolic music generation remains a challenging problem since the structure of compositions are usually complicated. In this study, we attempt to solve the melody generation problem constrained by the given chord progression. In particular, we explore the effect of explicit architectural encoding of musical structure via comparing two sequential generative models: LSTM (a type of RNN) and WaveNet (dilated temporal CNN) As far as we know, this is the first study of applying WaveNet to symbolic music generation, as well as the first systematic comparison between temporal CNN and RNN for music generation. We conduct a survey for evaluation in our generations and implemented Variable Markov Oracle in music pattern discovery. Experimental results show that to encode structure more explicitly using a stack of dilated convolution layers improved the performance significantly, and a global encoding of underlying chord progression into the generation procedure gains even more.
Family Centered Positive Behavior Support Interventions in Early Childhood To Prevent Obesity.
Venue: Child development
Year: 2017

Positive behavior support (PBS) strategies in early childhood, which include proactively structuring environments to support and positively reinforce healthy dietary and physical activity behaviors, are critical for preventing pediatric obesity, particularly among low income, ethnic minority children. Existing evidence based family centered preventive interventions effectively impact parents' use of PBS strategies. Enhancing these programs to more directly target the key mechanisms of change specific to promoting children's healthy lifestyle behaviors could serve as the foundation for the next generation of effective protocols for preventing pediatric obesity. Two established programs that target PBS that can be feasibly implemented in a variety of service delivery systems using a multi tiered, adaptive approach and the next steps of translation are discussed.