Miracle-dz/UniFAR-FTUs huggingface dataset:
Derivation of water quality guidelines for priority pharmaceuticals

Pharmaceuticals can enter freshwater and affect aquatic ecosystem health. Although toxicity tests have been carried out for the commonly used pharmaceuticals, evidence‐based water quality guidelines have not been derived. High‐reliability water quality guideline values have been derived for 4 pharmaceuticals—carbamazepine, diclofenac, fluoxetine, and propranolol—in freshwaters using a Burr type III distribution applied to species sensitivity distributions of chronic toxicity data. Data were quality‐assured and had to meet acceptability criteria for “chronic” no‐observed‐effect concentrations or concentrations affecting 10% of species, endpoints of population relevance (namely, effect endpoints based on development, growth, reproduction, and survival). Biomarker response data (e.g., biochemical, histological, or molecular responses) were excluded from the derivation because they are typically not directly relevant to wildlife population‐related impacts. The derived guideline values for 95% species protection were 9.2 μg/L, 770 μg/L, 1.6 μg/L, and 14 μg/L for carbamazepine, diclofenac, fluoxetine, and propranolol, respectively. These values are significantly higher than the unknown reliability values derived for the European Commission, Switzerland, or Germany that are based on the application of assessment factors to the most sensitive experimental endpoint (which may include biochemical, histological, or molecular biomarker responses) of a limited data set. The guideline values derived in the present study were not exceeded in recent data for Australian rivers and streams receiving pharmaceutical‐containing effluents from wastewater‐treatment plants. Environ Toxicol Chem 2016;35:1815–1824. © 2015 SETAC
Trace element contents in toenails are related to regular physical activity in older adults

The aim was to assess the trace element contents in toenails of older adults and its association with regular physical activity. Cross-sectional multicentre study in Spain, collecting data from a random sample of 380 participants (54% female) aged 55–80 years (men) and 60–80 years (women) with no previously documented cardiovascular disease. Physical activity performed was measured using the Minnesota Leisure-time Physical Activity Questionnaire. The 25 most inactive and 25 most active individuals for each sex were selected for this study (final sample n = 100). Anthropometric measurements were performed and toenail samples collected for calcium (Ca), chromium (Cr), iron (Fe), cobalt (Co), nickel (Ni), zinc (Zn), selenium (Se) and mercury (Hg) analysis. Significant differences between sexes were reported in Ca concentrations, women having lower concentrations than men. No differences were reported in trace element contents between active and inactive men. Active women showed higher Ca, Cr, Fe, Co, and Zn and lower Hg contents than their inactive peers (all p<0.05). Inactive women showed lower Ca and Co levels (735.0 mg/kg and 4.5 μg/kg, respectively) than inactive men (1170.0 mg/kg and 7.9 μg/kg, respectively). Active women had lower Ca and higher levels of Cr (936.0 mg/kg and 1230.0 μg/kg, respectively) than active men (1070.0 mg/kg and 522.0 μg/kg, respectively). The present data added new information on the element contents in toenails of healthy Spanish older adults. The concentration of trace elements was similar in both sexes except for Ca which were lower in women. The trace element contents in women’s toenails, but not in men, were markedly influenced by physical activity, with higher levels of Ca and Fe and lower Hg among active females.
Factorial Invariance of the Five-Factor Model Rating Form Across Gender

The Five-Factor Model Rating Form (FFMRF) provides a brief, one-page assessment of the Five-Factor Model. An important and unique aspect of the FFMRF is that it is the only brief measure that includes scales for the 30 facets proposed by Costa and McCrae. The current study builds on existing validity support for the FFMRF by evaluating its factorial invariance across gender within a sample of 699 undergraduate students. Consistent with other measures of the Five-Factor Model, men scored lower than women on the domains of neuroticism, extraversion, agreeableness, and conscientiousness but slightly higher on openness. The novel contribution of the current study is the use of exploratory structural equation modeling to determine that the FFMRF displayed a five-factor structure that demonstrated strong measurement invariance across gender. This factorial invariance adds important support for the validity of the FFMRF as a self-report measure as it indicates that the scores assess the same latent constructs in men and women. Although future work is needed to clarify some facet-level findings and evaluate for potential predictive biases, the present results add to the increasing body of research supporting the validity of the FFMRF as a self-report measure of personality.
Chinese Graduate Students' Experiences with Writing a Literature Review

Based on interview data, this study investigated four Chinese graduate students' experiences with writing a literature review at a medium-sized university in Canada. These students, from four subject areas, held varying perceptions of a literature review, but all saw the writing challenges that they encountered mainly as linguistic problems, especially regarding vocabulary and accuracy at the sentence level. The strategies that they used in the composing process were diverse, with each individual relying on them to varying degrees. Findings from this study suggest that Chinese graduate students need assistance in adjusting to the new academic environment and writing-genre expectations.
Low heel ultrasound parameters predict mortality in men: results from the European Male Ageing Study (EMAS)

Background: low bone mineral density measured by dual-energy x-ray absorptiometry is associated with increased mortality. The relationship between other skeletal phenotypes and mortality is unclear. The aim of this study was to determine the relationship between quantitative heel ultrasound parameters and mortality in a cohort of European men. Methods: men aged 40–79 years were recruited for participation in a prospective study of male ageing: the European Male Ageing Study (EMAS). At baseline, subjects attended for quantitative ultrasound (QUS) of the heel (Hologic—SAHARA) and completed questionnaires on lifestyle factors and co-morbidities. Height and weight were measured. After a median of 4.3 years, subjects were invited to attend a follow-up assessment, and reasons for non-participation, including death, were recorded. The relationship between QUS parameters (broadband ultrasound attenuation [BUA] and speed of sound [SOS]) and mortality was assessed using Cox proportional hazards model. Results: from a total of 3,244 men (mean age 59.8, standard deviation [SD] 10.8 years), 185 (5.7%) died during the follow-up period. After adjusting for age, centre, body mass index, physical activity, current smoking, number of co-morbidities and general health, each SD decrease in BUA was associated with a 20% higher risk of mortality (hazard ratio [HR] per SD = 1.2; 95% confidence interval [CI] = 1.0–1.4). Compared with those in higher quintiles (2nd–5th), those in the lowest quintile of BUA and SOS had a greater mortality risk (BUA: HR = 1.6; 95% CI = 1.1–2.3 and SOS: HR = 1.6; 95% CI = 1.2–2.2). Conclusion: lower heel ultrasound parameters are associated with increased mortality in European men.
A novel junctionless FinFET structure with sub-5nm shell doping profile by molecular monolayer doping and microwave annealing

For the first time, a novel junctionless (JL) FinFET structure with a shell doping profile (SDP) formed by molecular monolayer doping (MLD) method and microwave annealing (MWA) at low temperature is proposed and studied. Thanks to the ultra thin SDP leading to an easily-depleted channel, the proposed JLFinFET can retain the ideal subthreshold swing (~ 60 mV/dec) at a high doping level according to simulations. Poly Si based JLFinFETs processed with MLD and MWA exhibit superior subthreshold swing (S.S. ~ 67mV/dec) and excellent on-off ratio (>106) for both n and p channel devices. Threshold voltage (VTH) variation due to random dopant fluctuation (RDF) is reduced in MLD-JLFinFETs, which can be attributed to the molecule self-limiting property of MLD on the Si surface and quasi-diffusionless MWA at low temperature. Our results reveal the potential of the proposed SDP enabling a JLFET showing reduced variation and outstanding performance for low power applications.
On the multicast capacity of wireless ad hoc networks with network coding

In this paper, we study the contribution of network coding (NC) in improving the multicast capacity of random wireless ad hoc networks when nodes are endowed with multi-packet transmission (MPT) and multi-packet reception (MPR) capabilities. We show that a per session throughput capacity of Θ(nT3 (n)) can be achieved as a tight bound when each session contains a constant number of sinks where n is the total number of nodes and T(n) is the transmission range1. Surprisingly, an identical order capacity can be achieved when nodes have only MPR and MPT capabilities. This result proves that NC does not contribute to the order capacity of multicast traffic in wireless ad hoc networks when MPR and MPT are used in the network. The result is in sharp contrast to the general belief (conjecture) that NC improves the order capacity of multicast. Furthermore, if the communication range is selected to guarantee the connectivity in the network, i.e., Ω (√(log n/n)) = T(n) = O(log log n/log n), then the combination of MPR and MPT achieves a throughput capacity of Θ(log 3/2 n/√n) which provides an order capacity gain of Θ(log2 n) compared to the point- to-point multicast capacity with the same number of destinations.
P300 and genetic risk for schizophrenia.

BACKGROUND We assessed the suitability of event-related potential frontal and temporoparietal P300 changes as intermediate phenotypes in genetic studies of schizophrenia. We applied a principal component analysis approach based on the notion that P300 abnormalities in siblings of schizophrenic patients may involve a widespread network of relatively weak cortical generators and because an earlier, smaller study that used a topographic analysis of covariance model did not show that localized P300 changes predict risk for schizophrenia. METHODS P300 changes in 66 schizophrenic patients, 115 healthy siblings of schizophrenic patients, and 89 unrelated controls were studied during a standard auditory oddball paradigm. Principal components were calculated across electrodes, revealing frontal and temporoparietal components for latency and amplitude, respectively. For the frontal and temporoparietal P300 amplitude and latency components, the intraclass correlations (ICCs) between sib-pairs (pairs of unaffected siblings and schizophrenic index patients) and the relative risk ratios (lambda) were determined. RESULTS Compared with controls, schizophrenic patients and their unaffected siblings showed significant reductions in the temporoparietal P300 amplitude component. Both groups were also characterized by a significantly higher frontal P300 amplitude component. Significant ICCs and increased relative risk ratios were found for the frontal (ICCU = 0.18; P =.04; lambda = 3.4) and temporoparietal (ICCU = 0.24; P =.01; lambda = 1.7) P300 amplitude components. CONCLUSIONS Temporoparietal P300 amplitude reduction and frontal P300 amplitude increase seem to be quantitative phenotypes associated with increased risk of schizophrenia. Both measures may be useful for increasing the statistical power of genetic studies of schizophrenia.
Cell-Type-Specific Predictive Network Yields Novel Insights into Mouse Embryonic Stem Cell Self-Renewal and Cell Fate

Self-renewal, the ability of a stem cell to divide repeatedly while maintaining an undifferentiated state, is a defining characteristic of all stem cells. Here, we clarify the molecular foundations of mouse embryonic stem cell (mESC) self-renewal by applying a proven Bayesian network machine learning approach to integrate high-throughput data for protein function discovery. By focusing on a single stem-cell system, at a specific developmental stage, within the context of well-defined biological processes known to be active in that cell type, we produce a consensus predictive network that reflects biological reality more closely than those made by prior efforts using more generalized, context-independent methods. In addition, we show how machine learning efforts may be misled if the tissue specific role of mammalian proteins is not defined in the training set and circumscribed in the evidential data. For this study, we assembled an extensive compendium of mESC data: ∼2.2 million data points, collected from 60 different studies, under 992 conditions. We then integrated these data into a consensus mESC functional relationship network focused on biological processes associated with embryonic stem cell self-renewal and cell fate determination. Computational evaluations, literature validation, and analyses of predicted functional linkages show that our results are highly accurate and biologically relevant. Our mESC network predicts many novel players involved in self-renewal and serves as the foundation for future pluripotent stem cell studies. This network can be used by stem cell researchers (at http://StemSight.org) to explore hypotheses about gene function in the context of self-renewal and to prioritize genes of interest for experimental validation.
Local vs. Regional Groundwater Flow Delineation from Stable Isotopes at Western North America Springs

The recharge location for many springs is unknown because they can be sourced from proximal, shallow, atmospheric sources or long‐traveled, deep, regional aquifers. The stable isotope (18O and 2H) geochemistry of springs water can provide cost‐effective indications of relative flow path distance without the expense of drilling boreholes, conducting geophysical studies, or building groundwater flow models. Locally sourced springs generally have an isotopic signature similar to local precipitation for that region and elevation. Springs with a very different isotopic composition than local meteoric inputs likely have non‐local recharge, representing a regional source. We tested this local vs. regional flow derived hypothesis with data from a new, large springs isotopic database from studies across Western North America in Arizona, Nevada, and Alberta. The combination of location‐specific precipitation data with stable isotopic groundwater data provides an effective method for flow path determination at springs. We found springs in Arizona issue from a mix of regional and local recharge sources. These springs have a weak elevation trend across 1588 m of elevation where higher elevation springs are only slightly more depleted than low elevation springs with a δ18O variation of 5.9‰. Springs sampled in Nevada showed a strong elevation‐isotope relationship with high‐elevation sites discharging depleted waters and lower elevation springs issuing enriched waters; only a 2.6‰ difference exists in 18O values over an elevation range of more than 1500 m. Alberta's springs are mostly sourced from local flow systems and show a moderate elevation trend of 1200 m, but the largest range in δ18O, 7.1‰.
A consistent pattern of RIN1 rearrangements in oral squamous cell carcinoma cell lines supports a breakage‐fusion‐bridge cycle model for 11q13 amplification

Gene amplification is a common feature of tumors. Overexpression of some amplified genes plays a role in tumor progression. Gene amplification can occur either extrachromosomally as double‐minute chromosomes (dmin) or intrachromosomally in the form of homogeneously staining regions (hsrs). Approximately one‐half of our oral squamous cell carcinomas (OSCCs) are characterized by amplification of band 11q13, usually as an hsr located entopically (occurring or situated at the normal chromosomal site, as opposed to ectopically). Using chromosomal fluorescence in situ hybridization (FISH), we confirmed the amplification of the cyclin D1 (CCNDx1/PRAD1) and fibroblast growth factor types 3 and 4 (FGF3/INT2 and FGF4/HSTF1) genes within the 11q13 amplicon in our series of primary OSCCs and derived cell lines. The human RIN1 gene was isolated as an RAS interaction/interference protein in a genetic selection in yeast and has been described as a putative effector of both the RAS and ABL oncogenes. We mapped RIN1 to 11q13.2. FISH analysis of 10 11q13‐amplified OSCC cell lines revealed high‐level RIN1 amplification in two cell lines. Three additional cell lines have what appear to be duplications and/or low‐level amplification of RIN1, visible in both interphase and metaphase cells. The hybridization pattern of RIN1 on the metaphase chromosomes is particularly revealing; RIN1 signals flank the 11q13 hsr, possibly as a result of an inverted duplication. The gene amplification model of Coquelle et al. ( 1997 ) predicted that gene amplification occurs by breakage‐fusion‐bridge (BFB) cycles involving fragile sites. Our data suggest that the pattern of gene amplification at 11q13 in OSCC cell lines is consistent with a BFB model. RIN1 appears to be a valuable probe for investigating the process of gene amplification in general and, specifically, 11q13 amplification in oral cancer. Genes Chromosomes Cancer 28:153–163, 2000. © 2000 Wiley‐Liss, Inc.
Enhancing privacy and preserving accuracy of a distributed collaborative filtering

Collaborative Filtering (CF) is a powerful technique for generating personalized predictions. CF systems are typically based on a central storage of user profiles used for generating the recommendations. However, such centralized storage introduces a severe privacy breach, since the profiles may be accessed for purposes, possibly malicious, not related to the recommendation process. Recent researches proposed to protect the privacy of CF by distributing the profiles between multiple repositories and exchange only a subset of the profile data, which is useful for the recommendation. This work investigates how a decentralized distributed storage of user profiles combined with data modification techniques may mitigate some privacy issues. Results of experimental evaluation show that parts of the user profiles can be modified without hampering the accuracy of CF predictions. The experiments also indicate which parts of the user profiles are most useful for generating accurate CF predictions, while their exposure still keeps the essential privacy of the users.
Altruism, Equity, and Reciprocity in a Gift Exchange Experiment: An Encompassing Approach

Considerable experimental evidence suggests that non-pecuniary motives must be addressed when modeling behavior in economic contexts. Recent models of non-pecuniary motives can be classified as either altruism- based, equity-based, or reciprocity-based. We estimate and compare leading approaches in these categories, using experimental data. We then offer a flexible approach that nests the above three approaches, thereby allowing for nested hypothesis testing and for determining the relative strength of each of the competing theories. In addition, the encompassing approach provides a functional form for utility in different settings without the restrictive nature of the approaches nested within it. Using this flexible form for nested tests, we find that intentional reciprocity, distributive concerns, and altruistic considerations all play a significant role in players' decisions.
Irreversible climate change due to carbon dioxide emissions

The severity of damaging human-induced climate change depends not only on the magnitude of the change but also on the potential for irreversibility. This paper shows that the climate change that takes place due to increases in carbon dioxide concentration is largely irreversible for 1,000 years after emissions stop. Following cessation of emissions, removal of atmospheric carbon dioxide decreases radiative forcing, but is largely compensated by slower loss of heat to the ocean, so that atmospheric temperatures do not drop significantly for at least 1,000 years. Among illustrative irreversible impacts that should be expected if atmospheric carbon dioxide concentrations increase from current levels near 385 parts per million by volume (ppmv) to a peak of 450–600 ppmv over the coming century are irreversible dry-season rainfall reductions in several regions comparable to those of the “dust bowl” era and inexorable sea level rise. Thermal expansion of the warming ocean provides a conservative lower limit to irreversible global average sea level rise of at least 0.4–1.0 m if 21st century CO2 concentrations exceed 600 ppmv and 0.6–1.9 m for peak CO2 concentrations exceeding ≈1,000 ppmv. Additional contributions from glaciers and ice sheet contributions to future sea level rise are uncertain but may equal or exceed several meters over the next millennium or longer.
Generation of an ICF Syndrome Model by Efficient Genome Editing of Human Induced Pluripotent Stem Cells Using the CRISPR System

Genome manipulation of human induced pluripotent stem (iPS) cells is essential to achieve their full potential as tools for regenerative medicine. To date, however, gene targeting in human pluripotent stem cells (hPSCs) has proven to be extremely difficult. Recently, an efficient genome manipulation technology using the RNA-guided DNase Cas9, the clustered regularly interspaced short palindromic repeats (CRISPR) system, has been developed. Here we report the efficient generation of an iPS cell model for immunodeficiency, centromeric region instability, facial anomalies syndrome (ICF) syndrome using the CRISPR system. We obtained iPS cells with mutations in both alleles of DNA methyltransferase 3B (DNMT3B) in 63% of transfected clones. Our data suggest that the CRISPR system is highly efficient and useful for genome engineering of human iPS cells.
Plasmodium falciparum Uses gC1qR/HABP1/p32 as a Receptor to Bind to Vascular Endothelium and for Platelet-Mediated Clumping

The ability of Plasmodium falciparum–infected red blood cells (IRBCs) to bind to vascular endothelium, thus enabling sequestration in vital host organs, is an important pathogenic mechanism in malaria. Adhesion of P. falciparum IRBCs to platelets, which results in the formation of IRBC clumps, is another cytoadherence phenomenon that is associated with severe disease. Here, we have used in vitro cytoadherence assays to demonstrate, to our knowledge for the first time, that P. falciparum IRBCs use the 32-kDa human protein gC1qR/HABP1/p32 as a receptor to bind to human brain microvascular endothelial cells. In addition, we show that P. falciparum IRBCs can also bind to gC1qR/HABP1/p32 on platelets to form clumps. Our study has thus identified a novel host receptor that is used for both adhesion to vascular endothelium and platelet-mediated clumping. Given the association of adhesion to vascular endothelium and platelet-mediated clumping with severe disease, adhesion to gC1qR/HABP1/p32 by P. falciparum IRBCs may play an important role in malaria pathogenesis.