Miracle-dz/UniFAR-FTUs huggingface dataset:
Selectome update: quality control and computational improvements to a database of positive selection

Selectome (http://selectome.unil.ch/) is a database of positive selection, based on a branch-site likelihood test. This model estimates the number of nonsynonymous substitutions (dN) and synonymous substitutions (dS) to evaluate the variation in selective pressure (dN/dS ratio) over branches and over sites. Since the original release of Selectome, we have benchmarked and implemented a thorough quality control procedure on multiple sequence alignments, aiming to provide minimum false-positive results. We have also improved the computational efficiency of the branch-site test implementation, allowing larger data sets and more frequent updates. Release 6 of Selectome includes all gene trees from Ensembl for Primates and Glires, as well as a large set of vertebrate gene trees. A total of 6810 gene trees have some evidence of positive selection. Finally, the web interface has been improved to be more responsive and to facilitate searches and browsing.
Yes, but are they happy? Effects of trait self-control on affective well-being and life satisfaction.

Does trait self-control (TSC) predict affective well-being and life satisfaction--positively, negatively, or not? We conducted three studies (Study 1: N = 414, 64% female, Mage = 35.0 years; Study 2: N = 208, 66% female, Mage = 25.24 years; Study 3: N = 234, 61% female, Mage = 34.53 years). The key predictor was TSC, with affective well-being and life satisfaction ratings as key outcomes. Potential explanatory constructs including goal conflict, goal balancing, and emotional distress also were investigated. TSC is positively related to affective well-being and life satisfaction, and managing goal conflict is a key as to why. All studies, moreover, showed that the effect of TSC on life satisfaction is at least partially mediated by affect. Study 1's correlational study established the effect. Study 2's experience sampling approach demonstrated that compared to those low in TSC, those high in TSC experience higher levels of momentary affect even as they experience desire, an effect partially mediated through experiencing lower conflict and emotional distress. Study 3 found evidence for the proposed mechanism--that TSC may boost well-being by helping people avoid frequent conflict and balance vice-virtue conflicts by favoring virtues. Self-control positively contributes to happiness through avoiding and dealing with motivational conflict.
The influence of first language polysemy and first language and second language lexical frequencies on second language learners’ use of false cognates

Aims and objectives: This study examines second language (L2) bilinguals’ use of words that have the same or similar forms in their two languages but whose meaning extensions differ – that is, false cognates. We examine the conditions under which L2 speakers inappropriately use false cognates in the L2. How do frequency of the relevant words in each language and polysemy of the word in the first language (L1) affect L2 learners’ use of such words? Design: Fifty Spanish L1–English L2 adults translated 80 words in context from Spanish (S) to English (E). The words involved polysemous Spanish words that had several translations in English, one of which was a cognate form. Words were strictly balanced for L1 polysemy (high versus low), frequency of the S word, frequency of the E cognate form, and frequency of the E non-cognate translation. The words were presented in unambiguous contextual frames that pushed for the non-cognate translation in English. Data and analysis: Analyses of variance were used to analyze participants’ translations relative to the variables of Spanish polysemy and the frequencies of the forms in question. Findings: The findings show that the relative transparency or opacity of the mapping between the L1 and L2 influences word choice: the use of a false cognate instead of a competing correct lexical item depends on the complex interaction of L1 polysemy and the lexical frequencies of the L1 and L2 forms in the bilingual’s two languages. Originality: This study strictly controls for several factors crucial to L2 users’ choice of a word in the L2: polysemy in the L1, frequency of the L1 word, and frequencies of the L2 words involved. Significance: When these variables are viewed together, the data reveal a complex interaction showing factors that contribute to the transparency or opacity of the L1–L2 lexical semantic linkages.
A Segmentation-based Tempo Induction Method

The automatized beat detection and localization have been the subject of multiple research in the field of music information retrieval. Most of the methods are based on onset detection. We propose an alternative approach: Our method is based on the “Forward-Backward segmentation”: the segments may be interpreted as attacks, decays, sustains and releases of notes. We process the segment boundaries as a weighted Dirac signal. Three methods devived from its spectral analysis are proposed to find a periodicity which corresponds to the tempo. The experiments are carried out on a corpus of 100 songs of the RWC database. The performances of our system on this base demonstrate a potential in the use of a “ ForwardBackward Segmentation” for temporal information retrieval in musical signals.
Attention Drainage Effect: How Background Music Effects Concentration in Taiwanese College Students.

The purpose of this study was to see whether different types of background music affect the performance of a reading comprehension task in Taiwanese college students. There are two major research questions in this study. First, this study tries to find out whether listening to music affect the learner's concentration when they are doing a task such as reading. The second research question is whether light classical music is more distracting or less distracting than hip hop music during a reading comprehension task. An experiment involving 133 participants from a medium-size college in southern Taiwan was conducted where the participants performed a reading comprehension task with either light classical music, hip hop music, or with no music in the background. The result of the study showed that music with a higher intensity is more distracting and has a greater effect on task performance and concentration. The result helped formulate the Attention Drainage Effect theory, which is based on Kahneman's (1973) capacity model of attention.
Rethinking Nigeria''s conflicts of state building and the legal imperatives beyond chinua Achebe''s ‘there was a country: a personal history of Biafra’

Among the lasting consequences of colonialism is the creation of a hybrid state structure that replaces the legacies of the precolonial indigenous social authority patterns with new western paradigms. Notwithstanding the very few exceptions in Africa, postcolonial states are besieged with conflicts some of which are ethnic-related or struggles to control power and natural resources. My paper examines the Nigerian conflicts as explored in Chinua Achebe's ‘There Was a Country: A Personal History of Biafra’ (2012). The analytical work examines the uncomfortable relationship that exists between the state and the sub-nationalities and how these undermine the politics of state building and the socioeconomic development in Nigeria. It further examines the intersection between political and economic conflicts and how these impact on the construction of law and power paradigm. Although Achebe’s narrative is very in-depth in the analysis of Nigerian colonial and postcolonial problems, it does not reflect on the challenges of over-centralization and effects on state building. My work explores this gap to show how Nigeria's highly centralized state structure subverts all efforts to achieve true democracy and encourages dictatorship. I argue that the practice of true federalism or confederated state structure would restore autonomy of the states and sub-nationalities. Hence, the restoration of sub-national autonomy will create healthier cooperation among Nigeria's fragmented ethnic sub-nationalities and pave way for political stability and functional
Direct and indirect effects of experimental warming on ecosystem carbon processes in a tallgrass prairie

This study was conducted to examine direct and indirect impacts of global warming on carbon processes in a tallgrass prairie in the U.S. Great Plains. Infrared radiators were used to simulate global warming, and clipping was used to mimic hay mowing. Experimental warming caused significant increases in green biomass in spring and autumn and total biomass in summer on most of the measuring dates. Green aboveground biomass showed positive linear correlations with soil temperature in spring and autumn whereas total aboveground biomass in summer was negatively correlated with soil temperature. Experimental warming also affected aboveground biomass indirectly by extending the length of growing season and changing soil nitrogen process. Elevated temperature tended to increase net nitrogen mineralization in the first year but decrease it in the second year, which could be attributable to stimulated plant growth and belowground carbon allocation and consequently enhanced microbial nitrogen immobilization. Warming‐induced changes in soil respiration were proportional to those of total aboveground biomass. Clipping significantly reduced aboveground biomass and increased root biomass, but had no effect on net nitrogen mineralization and annual mean soil respiration. The proportional changes in soil respiration to those of aboveground biomass indicate warming‐stimulated ecosystem carbon uptake could be weakened by increased carbon release through soil respiration.
Red and processed meat consumption and the risk of esophageal and gastric cancer subtypes in The Netherlands Cohort Study.

BACKGROUND Prospective data on red and processed meat in relation to risk of subtypes of esophageal and gastric cancer are scarce. We present analyses of association between red and processed meat and the risk of esophageal and gastric cancer subtypes within The Netherlands Cohort Study on Diet and Cancer. DESIGN 120 852 individuals aged 55-69 years were recruited in 1986, and meat intake was assessed using a 150-item food frequency questionnaire. After 16.3 years of follow-up, 107 esophageal squamous cell carcinomas, 145 esophageal adenocarcinomas, 163 gastric cardia adenocarcinomas, 489 gastric non-cardia adenocarcinomas, and 3923 subcohort members were included in a case-cohort analysis. RESULTS Processed as well as red meat intake was positively associated with esophageal squamous cell carcinoma in men. Hazard ratios for highest versus lowest quintile of processed and red meat were 3.47 [95% confidence intervals (CI): 1.21-9.94; P for trend: 0.04] and 2.66 (95% CI: 0.94-7.48; P for trend: 0.06), respectively. No association was seen for adenocarcinomas or gastric cancer subtypes or for any of the four subtypes among women. CONCLUSION Our findings suggest that red and processed meat consumption is associated with increased risk of esophageal squamous cell carcinoma in men but not with cancers of other esophageal and gastric subtypes.
ASYMPTOTIC EXPANSIONS AND POSITIVITY OF COEFFICIENTS FOR LARGE POWERS OF ANALYTIC FUNCTIONS

We derive an asymptotic expansion as n →∞ for a large range of coefficients of (f (z)) n ,w here f( z) is a power series satisfying | f( z)| <f (|z|) for z ∈ C, z ∉R + . W henf is a polynomial and the two smallest and the two largest exponents appearing in f are consecutive integers, we use the expansion to generalize results of Odlyzko and Richmond (1985) on log concavity of polynomials, and we prove that a power of f has only positive coefficients.
On the sensitivity and specificity of nonword repetition and sentence recall to language and memory impairments in children.

PURPOSE The present study examined the utility of 2 measures proposed as markers of specific language impairment (SLI) in identifying specific impairments in language or working memory in school-age children. METHOD A group of 400 school-age children completed a 5-min screening consisting of nonword repetition and sentence recall. A subset of low (n = 52) and average (n = 38) scorers completed standardized tests of language, short-term and working memory, and nonverbal intelligence. RESULTS Approximately equal numbers of children were identified with specific impairments in either language or working memory. A group about twice as large had deficits in both language and working memory. Sensitivity of the screening measure for both SLI and specific working memory impairments was 84% or greater, although specificity was closer to 50%. Sentence recall performance below the 10th percentile was associated with sensitivity and specificity values above 80% for SLI. CONCLUSIONS Developmental deficits may be specific to language or working memory, or include impairments in both areas. Sentence recall is a useful clinical marker of SLI and combined language and working memory impairments.
Turbulent diffusion in tall tubes. I. Models for Rayleigh-Taylor instability

Rayleigh-Taylor instability in high-aspect-ratio domains has been studied experimentally and a hierarchy of modelling approaches has been used to understand the dynamics of the problem. Part I examines the simplest case of initially homogenous layers above and below the Rayleigh-Taylor unstable interface. Part II examines the more complex case where one layer is stably stratified in density. Here, in Part I, we develop models for turbulent mixing induced by Rayleigh-Taylor instability based on a diffusion equation for density. By considering the force balance in the problem, and using Prandtl’s mixing length hypothesis, we compute a non-constant turbulent diffusivity, and this leads to a non-linear diffusion equation. We reiterate a h~t25 scaling and use this to develop a new similarity solution to the nonlinear diffusion equation in an infinite domain. To match experimental boundary conditions of a finite domain, we use numerical integration, and finally, we compare with implicit large eddy simulation.
Defining the Neural Mechanisms of Probabilistic Reversal Learning Using Event-Related Functional Magnetic Resonance Imaging

Event-related functional magnetic resonance imaging was used to measure blood oxygenation level-dependent responses in 13 young healthy human volunteers during performance of a probabilistic reversal-learning task. The task allowed the separate investigation of the relearning of stimulus–reward associations and the reception of negative feedback. Significant signal change in the right ventrolateral prefrontal cortex was demonstrated on trials when subjects stopped responding to the previously relevant stimulus and shifted responding to the newly relevant stimulus. Significant signal change in the region of the ventral striatum was also observed on such reversal errors, from a region of interest analysis. The ventrolateral prefrontal cortex and ventral striatum were not significantly activated by the other, preceding reversal errors, or when subjects received negative feedback for correct responses. Moreover, the response on the final reversal error, before shifting, was not modulated by the number of preceding reversal errors, indicating that error-related activity does not simply accumulate in this network. The signal change in this ventral frontostriatal circuit is therefore associated with reversal learning and is uncontaminated by negative feedback. Overall, these data concur with findings in rodents and nonhuman primates of reversal-learning deficits after damage to ventral frontostriatal circuitry, and also support recent clinical findings using this task.
Walking through doorways causes forgetting: active and passive interaction

ABSTRACT The current study explored the location updating effect when people passively interacted with an environment. This was assessed experimentally by having one person actively navigate through a virtual environment while picking up and putting objects down. A second person passively viewed the movement. Both participants responded to memory probes for objects they encountered. Probes appeared when the active participant moved halfway across a room or immediately after moving into a new room. Consistent with previous research, a location updating effect was found. That is, memory was worse following a shift to a new room. This effect was found for both active and passive participants but was smaller for the passive group. Thus, the shift from one event to another causes information to be harder to remember, reinforcing the importance of event cognition in memory. However, the more involved a person is in the interactive event, the more pronounced the effects.
The effect of moral foundations in prosocial crowdfunding

Prosocial crowdfunding is a new business phenomenon which is transforming the microfinance sector, as more microloans are posted online for fundraising. Research suggests that prosocial lenders registered on crowdfunding platforms seek non-financial returns from their investments, such as the creation of value for the social good. This article adds moral ethics to the crowdfunding equation by drawing on Moral Foundations Theory (MFT). It is posited that cues of moral foundations embedded within borrower profile descriptions are likely to inform prosocial lenders about a borrower’s potential for social value creation, thus triggering lending decisions. A Computer-Assisted-Text-Analysis (CATA) of 130,964 funded microloan profile descriptions on a crowdfunding platform suggests that prosocial lenders fund borrowers who cue universal moral foundations (Harm/Care and Fairness/Reciprocity) more quickly than those who cue primarily conservative moral foundations (Ingroup/Loyalty, Authority/Respect and Purity/Sanctity).
Consequences of knowledge hiding: The differential compensatory effects of guilt and shame

textabstractThe nature of the consequences of knowledge hiding, defined as an intentional attempt to withhold knowledge that has been requested, and the mechanisms through which knowledge hiding affects outcomes are under-theorized. In this research, we propose that knowledge hiding can evoke guilt and shame in the knowledge hiding perpetrator. We zoom into the three types of knowledge hiding—evasive hiding, playing dumb, and rationalized hiding—and predict that the more deceptive knowledge hiding types, namely evasive hiding and playing dumb, evoke stronger feelings of guilt and shame than rationalized hiding. We further argue that guilt and shame trigger differential emotion-based reparatory mechanisms, such that guilt induces the motivation to correct one’s transgressions through organizational citizenship behavior (OCB), whereas shame induces the tendency to withdraw after hiding knowledge, as reflected in lower levels of OCB. We test the proposed positive indirect relation between knowledge hiding and OCB via guilt, and the proposed negative indirect relation via shame in a scenario-based experiment and a two-wave field study. The studies provided support for most of our hypotheses. We discuss how the proposed emotion pathway can facilitate nuanced theorizing about consequences of knowledge hiding for different types of negative emotions and subsequent compensatory work behaviors.
Inferring Carbon Abatement Costs in Electricity Markets: A Revealed Preference Approach Using the Shale Revolution

This paper examines how much carbon emissions from the electricity industry would decrease in response to a carbon price. We show how both carbon prices and cheap natural gas reduce, in a nearly identical manner, the historic cost advantage of coal-fired power plants. The shale revolution has resulted in unprecedented variation in natural gas prices that we use to estimate the short-run price elasticity of abatement. Our estimates imply that a price of $10 ($60) per ton of carbon dioxide would reduce emissions by 4% (10%). Furthermore, carbon prices are much more effective at reducing emissions when natural gas prices are low. In contrast, modest carbon prices have negligible effects when gas prices are at levels seen prior to the shale revolution.
Them and us: Did Democrat inclusiveness and Republican solidarity lead to the 2016 US presidential election outcome?

This research examined the role that group dynamics played in the 2016 US presidential election. Just prior to the election, participants were assessed on perceived self-similarity to group members’ views, perception of own leader’s prototypicality, perceptions of social values, and strength of support (attitudes). Results indicated that Democrats were more inclusive, seeing more similarity between themselves and members from the outgroup political party, while Republicans displayed more ingroup solidarity and negative attitudes toward outgroup members. Trump was viewed as a more prototypical leader by Republicans than Clinton was by Democrats. These results may help to explain the perhaps surprising fragility of Democrat voters’ support for Clinton.
Comparison of Achilles Tendon Loading Between Male and Female Recreational Runners

Abstract Recreational running is an activity with multiple reported health benefits for both sexes, however, chronic injuries caused by excessive and/or repetitive loading of the Achilles tendon are common. Males have been identified as being at an increased risk of suffering an injury to the Achilles tendon and as such, knowledge of differences in loading between the sexes may provide further information to better understand why this is the case. The aim of the current investigation was to determine whether gender differences in the Achilles tendon load exist in recreational runners. Fifteen male (age 26.74 ± 5.52 years, body height 1.80 ± 0.11 m and body mass 74.22 ± 7.27 kg) and fifteen female (age 25.13 ± 6.39 years, body height 1.68 ± 0.12 m and body mass 67.12 ± 9.11 kg) recreational runners volunteered to take part in the current investigation. Participants completed 10 trials running at 4.0 m·s-1 ±5% striking a force platform (1000 Hz) with their right foot. Ankle joint kinematics were synchronously recorded (250 Hz) using an optoelectric motion capture system. Ankle joint kinetics were computed using Newton-Euler inverse-dynamics. Net external ankle joint moments were then calculated. To estimate Achilles tendon kinetics the plantarflexion moment calculated was divided by an estimated Achilles tendon moment arm of 0.05 m. Differences in Achilles tendon kinetics were examined using independent sample t-tests (p<0.05). The results indicate that males were associated with significantly (p<0.05) greater Achilles tendon loads than females. The findings from this study support the notion that male recreational runners may be at greater risk of Achilles tendon pathology.
Implications of State-Dependent Pricing for Dynamic Macroeconomic Models

State-dependent pricing (SDP) models treat the timing of price changes as a profit-maximizing choice, symmetrically with other decisions of firms. Using quantitative general equilibrium models that incorporate a “generalized (S,s) approach,” we investigate the implications of SDP for topics in two major areas of macroeconomic research: the early 1990s SDP literature and more recent work on persistence mechanisms. First, we show that state-dependent pricing leads to unusual macroeconomic dynamics, which occur because of the timing of price adjustments chosen by firms as in the earlier literature. In particular, we display an example in which output responses peak at about a year, while inflation responses peak at about two years after the shock. Second, we examine whether the persistence-enhancing effects of two New Keynesian model features, namely, specific factor markets and variable elasticity demand curves, depend importantly on whether pricing is state dependent. In an SDP setting, we provide examples in which specific factor markets perversely work to lower persistence, while variable elasticity demand raises it.