Miracle-dz/UniFAR-FTUs huggingface dataset:
Indexing Internal Memory with Minimal Perfect Hash Functions

A perfect hash function (PHF) is an injective function that maps keys from a set S to unique values, which are in turn used to index a hash table. Since no collisions occur, each key can be retrieved from the table with a single probe. A minimal perfect hash function (MPHF) is a PHF with the smallest possible range, that is, the hash table size is exactly the number of keys in S. MPHFs are widely used for memory efficient storage and fast retrieval of items from static sets. Differently from other hashing schemes, MPHFs completely avoid the problem of wasted space and wasted time to deal with collisions. In the past, the amount of space to store an MPHF description was O(log n) bits per key and therefore similar to the overhead of space of other hashing schemes. Recent results on MPHFs by [Botelho et al. 2007] changed this scenario: in their work the space overhead of an MPHF is approximately 2.6 bits per key. The objective of this paper is to show that MPHFs are a good option to index internal memory when static key sets are involved and both successful and unsuccessful searches are allowed. We have shown that MPHFs provide the best tradeoff between space usage and lookup time when compared with linear hashing, quadratic hashing, double hashing, dense hashing, cuckoo hashing and sparse hashing. For example, MPHFs outperforms linear hashing, quadratic hashing and double hashing when these methods have a hash table occupancy of 75% or higher (if the MPHF fits in the CPU cache the same happens for hash table occupancies greater than or equal to 55%). Furthermore, MPHFs also have a better performance in all measured aspects when compared to sparse hashing, which has been designed specifically for efficient memory usage.
A New Statistic to Evaluate Imputation Reliability

Background As the amount of data from genome wide association studies grows dramatically, many interesting scientific questions require imputation to combine or expand datasets. However, there are two situations for which imputation has been problematic: (1) polymorphisms with low minor allele frequency (MAF), and (2) datasets where subjects are genotyped on different platforms. Traditional measures of imputation cannot effectively address these problems. Methodology/Principal Findings We introduce a new statistic, the imputation quality score (IQS). In order to differentiate between well-imputed and poorly-imputed single nucleotide polymorphisms (SNPs), IQS adjusts the concordance between imputed and genotyped SNPs for chance. We first evaluated IQS in relation to minor allele frequency. Using a sample of subjects genotyped on the Illumina 1 M array, we extracted those SNPs that were also on the Illumina 550 K array and imputed them to the full set of the 1 M SNPs. As expected, the average IQS value drops dramatically with a decrease in minor allele frequency, indicating that IQS appropriately adjusts for minor allele frequency. We then evaluated whether IQS can filter poorly-imputed SNPs in situations where cases and controls are genotyped on different platforms. Randomly dividing the data into “cases” and “controls”, we extracted the Illumina 550 K SNPs from the cases and imputed the remaining Illumina 1 M SNPs. The initial Q-Q plot for the test of association between cases and controls was grossly distorted (λ = 1.15) and had 4016 false positives, reflecting imputation error. After filtering out SNPs with IQS<0.9, the Q-Q plot was acceptable and there were no longer false positives. We then evaluated the robustness of IQS computed independently on the two halves of the data. In both European Americans and African Americans the correlation was >0.99 demonstrating that a database of IQS values from common imputations could be used as an effective filter to combine data genotyped on different platforms. Conclusions/Significance IQS effectively differentiates well-imputed and poorly-imputed SNPs. It is particularly useful for SNPs with low minor allele frequency and when datasets are genotyped on different platforms.
Do different formulations of botulinum toxin type A really have different migration characteristics?

Do different formulations of botulinum toxin type A really have different migration characteristics? The dose units of the two main botulinum toxin A products are not equivalent, and there is continuing controversy about the appropriate dose conversion ratio. Cliff et al . 1 report on a study of anhidrotic halos after injections of Dysport and Botox to the forehead at a dose ratio of 3 : 1. They note that the areas of the halos are significantly greater after Dysport and conclude that this product diffuses more. Similar results and conclusions have been published by de Almeida and De Boulle. 2 Both studies were sponsored by Allergan. We performed a non-commercially sponsored study on the effects of Dysport and Botox at a dose ratio of 3 : 1 on forehead wrinkles and electromyographic activity, and found Dysport to have significantly more effect on both. 3 We therefore agree with the results of Cliff et al . but not their conclusion. The simplest explanation for both sets of results is that the dose of Dysport is higher (i.e., a ratio 3 : 1 is too high). In this context, it should be noted that the registered doses of Dysport and Botox/Vistabel for glabellar frown lines are 50 and 20 units, respectively (i.e., a unit ratio of 2.5 : 1). Although higher ratios are often quoted in the literature, more modern investigations in human models suggest that the correct conversion ratio is around 2.5 : 1 or lower and physicians using both products should be aware of this issue and not overdose with Dysport. Syrus Karsai, MD 1 & Christian Raulin, MD 1,2 1 Laserklinik Karlsruhe, Karlsruhe, Germany, 2 Department of Dermatology, University of Heidelberg, Heidelberg, Germany
Modulation of Schwann cell P0 glycoprotein and galactocerebroside by the surface organization of axolemma

The nature of the axon signal for the induction of proliferation and differentiation of peripheral glial cells is still unknown. Besides the existence of interactions among surface molecules the cellular responses can also be regulated by physicochemical parameters of the membrane. We have previously reported that planar axolemma monolayers coated on glass coverslips at different defined surface molecular packing affected the Schwann cell (SC) morphology and their proliferative response (Calderon et al.: J Neurosci Res 34:206–218, 1993). In this paper we report that relative to SC cultured on uncoated coverslips, the level of expression of both glycoprotein P0 and galactocerebroside (GC) (as revealed by immunofluorescence) was increased 2–4 times in SC cultured on axolemma monolayers with either high or low molecular packing. However, the cellular distribution of these antigens was profoundly influenced by the molecular packing density of the axolemma monolayer. SC cultured on an axolemma monolayer at high molecular packing showed preferential expression of P0 at the SC surface whereas GC was concentrated intracellularly. On the other hand, SC grown on an axolemma monolayer at low molecular density GC showed preferential expression at the cell surface whereas P0 was concentrated intracellularly. © 1995 Wiley‐Liss, Inc.
The Dynamics of Cognition and Intersubjectivity

What the participants share, their common “sense” of the world, creates a foundation, a framing, an orientation, that enables human actors to see and act in coordination with one another. The methods the participants use to understand each other as they act, also produce, either intentionally or unintentionally, partial understandings, lack of understandings, and misunderstandings, which are also a part of what makes for intersubjectivity. Further complicating matters is the idiosyncratic and historical character of each interaction. Nevertheless, the intersubjective space in which actors operate can become richer and easier to produce with the recurrence of behavior. The first part of this paper develops a cognitive model of intersubjectivity that accounts for the sameness of, and changes between, two similar types of encounters occurring at different times. The second part of the paper presents a ethnographic study of an online cooperation that documents the interactive, constructive, and productive parts of the model.
Statistical methods for analyzing physical activity data

Physical activity is any bodily movement that results in caloric expenditure. One important aspect of physical activity research is the assessment of usual (i.e., long-term average) physical activity in the population, in order to better understand the links between physical activity and health outcomes. Daily or weekly measurements of physical activity taken from a sample of indivuals are prone to measurement errors and nuisance effects, which can lead to biased estimates of usual physical activity parameters. Fortunately, statistical models can be used to account and adjust for these errors in order to give more accurate estimates of usual physical activity parameters. In this dissertation we develop statistical methods for estimating parameters of usual physical activity. In Chapter 1 we outline metrics and instruments used for physical activity assessment, and review current approaches for modeling usual physical activity and usual dietary intake for regularly consumed food components. In Chapter 2 we develop a model for physical activity data from the National Health and Nutrition Examination Survey (NHANES). A linear regression is defined to model objective monitor-based physical activity as a function of self-reported physical activity variables and demographic variables. The fitted model is used to estimate mean daily physical activity levels for demographic groups in the population. In Chapter 3 we develop a method for estimating usual daily energy expenditure parameters from data collected using a self-report instrument and an objective monitoring device. Our method is an extension of existing methods that utilize measurement error models. We illustrate our method with preliminary data from the Physical Activity Measurement Survey (PAMS) collected using a SenseWear Pro armband monitor and a 24-hour physical activity recall.
Non-Linear Relationship between Economic Growth and CO2 Emissions in China: An Empirical Study Based on Panel Smooth Transition Regression Models

The non-linear relationship between provincial economic growth and carbon emissions is investigated by using panel smooth transition regression (PSTR) models. The research indicates that, on the condition of separately taking Gross Domestic Product per capita (GDPpc), energy structure (Es), and urbanisation level (Ul) as transition variables, three models all reject the null hypothesis of a linear relationship, i.e., a non-linear relationship exists. The results show that the three models all contain only one transition function but different numbers of location parameters. The model taking GDPpc as the transition variable has two location parameters, while the other two models separately considering Es and Ul as the transition variables both contain one location parameter. The three models applied in the study all favourably describe the non-linear relationship between economic growth and CO2 emissions in China. It also can be seen that the conversion rate of the influence of Ul on per capita CO2 emissions is significantly higher than those of GDPpc and Es on per capita CO2 emissions.
Young Core-Collapse Supernova Remnants and Their Supernovae

Massive star supernovae can be divided into four categories, depending on the amount of mass loss from the progenitor star and the star's radius: red supergiant stars with most of the H envelope intact (SN IIP), stars with some H but most lost (IIL and IIb), stars with all H lost (Ib and Ic), and blue supergiant stars with a massive H envelope (SN 1987A-like). Various aspects of the immediate aftermath of the supernova are expected to develop in different ways, depending on the supernova category: mixing in the supernova, fallback on the central compact object, expansion of any pulsar wind nebula, interaction with circumstellar matter, and photoionization by shock breakout radiation. The observed properties of young supernova remnants allow many of them to be placed in one of the supernova categories; all the categories are represented except for the SN 1987A-like type. Of the remnants with central pulsars, the pulsar properties do not appear to be related to the supernova category. There is no evidence that the supernova categories form a mass sequence, as would be expected in a single-star scenario for the evolution. Models for young pulsar wind nebulae expanding into supernova ejecta indicate initial pulsar periods of 10-100 ms and approximate equipartition between particle and magnetic energies. Ages are obtained for pulsar nebulae, including an age of 2400 ± 500 yr for 3C 58, which is not consistent with an origin in SN 1181. There is no evidence that mass fallback plays a role in neutron star properties.
Value of Ultrasound in Rheumatologic Diseases

The use of musculoskeletal ultrasound in rheumatology clinical practice has rapidly increased over the past decade. Ultrasound has enabled rheumatologists to diagnose, prognosticate and monitor disease outcome. Although international standardization remains a concern still, the use of ultrasound in rheumatology is expected to grow further as costs fall and the opportunity to train in the technique improves. We present a review of value of ultrasound, focusing on major applications of ultrasound in rheumatologic diseases.
Abnormal activation of the social brain during face perception in autism

ASD involves a fundamental impairment in processing social‐communicative information from faces. Several recent studies have challenged earlier findings that individuals with autism spectrum disorder (ASD) have no activation of the fusiform gyrus (fusiform face area, FFA) when viewing faces. In this study, we examined activation to faces in the broader network of face‐processing modules that comprise what is known as the social brain. Using 3T functional resonance imaging, we measured BOLD signal changes in 10 ASD subjects and 7 healthy controls passively viewing nonemotional faces. We replicated our original findings of significant activation of face identity‐processing areas (FFA and inferior occipital gyrus, IOG) in ASD. However, in addition, we identified hypoactivation in a more widely distributed network of brain areas involved in face processing [including the right amygdala, inferior frontal cortex (IFC), superior temporal sulcus (STS), and face‐related somatosensory and premotor cortex]. In ASD, we found functional correlations between a subgroup of areas in the social brain that belong to the mirror neuron system (IFC, STS) and other face‐processing areas. The severity of the social symptoms measured by the Autism Diagnostic Observation Schedule was correlated with the right IFC cortical thickness and with functional activation in that area. When viewing faces, adults with ASD show atypical patterns of activation in regions forming the broader face‐processing network and social brain, outside the core FFA and IOG regions. These patterns suggest that areas belonging to the mirror neuron system are involved in the face‐processing disturbances in ASD. Hum Brain Mapp, 2007. © 2006 Wiley‐Liss, Inc.
From the first intention movement to the last joiner: macaques combine mimetic rules to optimize their collective decisions

Mechanisms related to collective decision making have recently been found in almost all animal reigns from amoebae to worms, insects and vertebrates, including human beings. Decision-making mechanisms related to collective movements—including pre-departure and joining—have already been studied at different steps of the movement process, but these studies were always carried out separately. We therefore have no understanding of how these different processes are related when they underlie the same collective decision-making event. Here, we consider the whole departure process of two groups of Tonkean macaques (Macaca tonkeana), using a stochastic model. When several exclusive choices are proposed, macaques vote and choose the majority. Individuals then join the movement according to a mimetism based on affiliative relationships. The pre-departure quorum and the joining mimetic mechanism are probably linked, but we have not yet identified which transition mechanism is used. This study shows that decision-making related to macaque group movements is governed by a quorum rule combined with a selective mimetism at departure. This is the first time that transition mechanisms have been described in mammals, which consequently helps understand how a voting process leads to social amplification. Our study also provides the first complete proof that there is continuity in the decision-making processes underlying collective movements in mammals from the first intention movement right through to the last joiner.
Prevalence and Trends of Transfusion-Transmissible Viral Infections among Blood Donors in South of Iran: An Eleven-Year Retrospective Study

Background Blood transfusion is considered a potential risk factor for transmission of life-threatening viral infections, including HIV, HCV and HBV infections. This study was performed to find out the prevalence and trends of these infections among blood donors in Southern Iran. Methods The blood donor data recorded in twelve regional blood transfusion centers from 2004 to 2014 were analyzed in an anonymous way with respect to the results of serological screening for HBV, HCV, and HIV infections. Overall, 293454 donors were screened for viral infections. Results Most of the donors were male, married, aged between 20–40 years, educated, and regular donors. The overall seroprevalence rates of HBV, HCV and HIV were 0.15%, 0.1% and 0.004%, respectively. The highest seroprevalence was found for HBV, followed by HCV and HIV. These infections were more prevalent in male, low educated and first time donors. The highest HCV seroprevalence was observed among donors aged 20 to 40 years, while HBV seroprevalence increased with age. The seroprevalence rates of HBV and HCV from 2004 to 2014 showed significant decreasing trends from 0.460% to 0.060% (P < 0.001) and 0.329% to 0.045% (P < 0.001), respectively. Whereas HIV infection had a slight but not significant decline from 0.0173% in 2004 to 0.0028% in 2014 (P = 0.087). Conclusions The decreasing trends of transfusion-transmissible viral infections in blood donations indicate that the attempts of IBTO were successful in improving the safety of the blood supply, since the prevalence rates of viral infections have been reduced to very low levels in blood donations over the years. However, still more effective techniques such as polymerase chain reaction (PCR) are needed to guarantee blood safety.
Polyfunctional T-Cell Signatures to Predict Protection from Cytomegalovirus after Lung Transplantation.

RATIONALE Cytomegalovirus (CMV), which is one of the most common infections after lung transplantation, is associated with chronic lung allograft dysfunction and worse post-transplantation survival. Current approaches for at-risk patients include a fixed duration of antiviral prophylaxis despite the associated cost and side effects. OBJECTIVES We sought to identify a specific immunologic signature that predicted protection from subsequent CMV. METHODS CMV-seropositive lung transplantation recipients were included in the discovery (n = 43) and validation (n = 28) cohorts. Polyfunctional CMV-specific immunity was assessed by stimulating peripheral blood mononuclear cells with CMV pp65 or IE-1 peptide pools and then by measuring T-cell expression of CD107a, IFN-γ, tumor necrosis factor-α (TNF-α), and IL-2. Recipients were prospectively monitored for subsequent viremia. A Cox proportional hazards regression model that considered cytokine responses individually and in combination was used to create a predictive model for protection from CMV reactivation. This model was then applied to the validation cohort. MEASUREMENTS AND MAIN RESULTS Using the discovery cohort, we identified a specific combination of polyfunctional T-cell subsets to pp65 that predicted protection from subsequent CMV viremia (concordance index 0.88 [SE, 0.087]). The model included both protective (CD107a(-)/IFN-γ(+)/IL-2(+)/TNF-α(+) CD4(+) T cells, CD107a(-)/IFN-γ(+)/IL-2(+)/TNF-α(+) CD8(+) T cells) and detrimental (CD107a(+)/IFN-γ(+)/IL-2(-)/TNF-α(-) CD8(+) T cells) subsets. The model was robust in the validation cohort (concordance index 0.81 [SE, 0.103]). CONCLUSIONS We identified and validated a specific T-cell polyfunctional response to CMV antigen stimulation that provides a clinically useful prediction of subsequent cytomegalovirus risk. This novel diagnostic approach could inform the optimal duration of individual prophylaxis.
Banks' Reserve Management, Transaction Costs, and the Timing of Federal Reserve Intervention

We use daily data on bank reserves and overnight interest rates to document a striking pattern in the high-frequency behavior of the U.S. market for federal funds: depository institutions tend to hold more reserves during the last few days of each "reserve maintenance period," when the opportunity cost of holding reserves is typically highest. We then propose and analyze a model federal funds market where uncertain liquidity flows transaction costs induce banks to delay trading bid up interest rates at end each period. In this context, central bank's interest-rate-smoothing policy causes high supply liquid be associated with around settlement days.
Subjective wellbeing as an affective construct

The affective component of Subjective Wellbeing (SWB) was investigated according to the Circumplex model of affect. Structural equation modelling demonstrated that affect is the dominant component of SWB and it is concluded that core affect is the central component of SWB, and the driving force behind SWB homeostasis.
Blocking Junctional Adhesion Molecule C Enhances Dendritic Cell Migration and Boosts the Immune Responses against Leishmania major

The recruitment of dendritic cells to sites of infections and their migration to lymph nodes is fundamental for antigen processing and presentation to T cells. In the present study, we showed that antibody blockade of junctional adhesion molecule C (JAM-C) on endothelial cells removed JAM-C away from junctions and increased vascular permeability after L. major infection. This has multiple consequences on the output of the immune response. In resistant C57BL/6 and susceptible BALB/c mice, we found higher numbers of innate immune cells migrating from blood to the site of infection. The subsequent migration of dendritic cells (DCs) from the skin to the draining lymph node was also improved, thereby boosting the induction of the adaptive immune response. In C57BL/6 mice, JAM-C blockade after L. major injection led to an enhanced IFN-γ dominated T helper 1 (Th1) response with reduced skin lesions and parasite burden. Conversely, anti JAM-C treatment increased the IL-4-driven T helper 2 (Th2) response in BALB/c mice with disease exacerbation. Overall, our results show that JAM-C blockade can finely-tune the innate cell migration and accelerate the consequent immune response to L. major without changing the type of the T helper cell response.