Miracle-dz/UniFAR-FTUs huggingface dataset:
Homo- and hetero-oligomerization of hydrophobic pulmonary surfactant proteins SP-B and SP-C in surfactant phospholipid membranes

Pulmonary surfactant is a lipid/protein mixture that reduces surface tension at the respiratory air–water interface in lungs. Among its nonlipidic components are pulmonary surfactant-associated proteins B and C (SP-B and SP-C, respectively). These highly hydrophobic proteins are required for normal pulmonary surfactant function, and whereas past literature works have suggested possible SP-B/SP-C interactions and a reciprocal modulation effect, no direct evidence has been yet identified. In this work, we report an extensive fluorescence spectroscopy study of both intramolecular and intermolecular SP-B and SP-C interactions, using a combination of quenching and FRET steady-state and time-resolved methodologies. These proteins are compartmentalized in full surfactant membranes but not in pure 1-palmitoyl-2-oleoylphosphatidylcholine (POPC) vesicles, in accordance with their previously described preference for liquid disordered phases. From the observed static self-quenching and homo-FRET of BODIPY-FL labeled SP-B, we conclude that this protein forms homoaggregates at low concentration (lipid:protein ratio, 1:1000). Increases in polarization of BODIPY-FL SP-B and steady-state intensity of WT SP-B were observed upon incorporation of under-stoichiometric amounts of WT SP-C. Conversely, Marina Blue-labeled SP-C is quenched by over-stoichiometric amounts of WT SP-B, whereas under-stoichiometric concentrations of the latter actually increase SP-C emission. Time-resolved hetero-FRET from Marina Blue SP-C to BODIPY-FL SP-B confirm distinct protein aggregation behaviors with varying SP-B concentration. Based on these multiple observations, we propose a model for SP-B/SP-C interactions, where SP-C might induce conformational changes on SP-B complexes, affecting its aggregation state. The conclusions inferred from the present work shed light on the synergic functionality of both proteins in the pulmonary surfactant system.
Feeding preference of the shredder Phylloicus sp. for plant leaves of Chrysophyllum oliviforme or Miconia chartacea after conditioning in streams from different biomes.

Macroinvertebrate shredders consume preferably leaves conditioned by fungi and bacteria which offer greater palatability to them. Plant species in Cerrado present high concentration of chemical elements such as lignin and cellulose, phenols and tanins thus making them less attractive for shredders consumption and limiting the palatability. This study aimed to evaluate the feeding preference of a macroinvertebrate shredder of the genus Phylloicus for plant material from two different biomes (Cerrado and Mata Atlântica), after conditioning in a stream of Mata Atlântica and observing their physical and chemical characteristics. Senescent leaves were collected, monthly from the litterfall of riparian vegetation in a 500 m stretch of a stream in each biome from August 2014 to January 201. The most abundant species in each stream was selected for the experiment. The experimental design consisted in with two treatments. The first (T1) comprised leaf discs from Chrysophyllum oliviforme (Cerrado species) together with leaf discs of Miconia chartacea (Atlantic Forest species) which were conditioned in the Atlantic Forest stream. The second treatment (T2) involved leaf discs of Miconia chartacea conditioned in Mata Altlântica and Cerrado streams. Both tests had showed significant differences between the two treatments (T1 and T2). For T1, there was consumption of M. chartacea leaf discs by Phylloicus sp. , but there was no consumption of C. oliviforme discs. For T2, there was preference for M. chartaceae leaves conditioned in a stream of Mata Atlântica than in Cerrado stream. The results showed that Phylloicus sp. , had presented preference for food detritus of the Mata Antlântica biome and rejection to the one from Cerrado biome.
Prognostic significance of transcription factors FOXA1 and GATA-3 in ductal carcinoma in situ in terms of recurrence and estrogen receptor status

Aim: The aim was to analyze the expression of novel biological transcription markers, forkhead-box A1 (FOXA1), GATA binding protein 3 (GATA-3), and established markers such as Ki-67 (MIB-1) and human epidermal growth factor receptor 2 (HER2) in estrogen receptor (ER(+)) and ER(-) ductal carcinoma in situ (DCIS) patients with/without recurrence. Methods: Two hundred and ninety-one cases of DCIS were retrieved from our pathology database, with complete data available for 219 cases. The follow-up period is from 1988 to 2009. Recurrence is defined in terms of DCIS or invasive carcinoma (IC). No recurrence was seen in 88% (196/219) of cases; 12% (26/219) had a recurrence (IC: 13, DCIS: 13). We are reporting the results of biological marker expression in terms of recurrence and ER status. Results: Our study demonstrates strong expression of GATA-3 in the ER(+) DCIS in recurrence and nonrecurrence groups similar to previously described in IC. A reduced expression of GATA-3 was observed in ER(-) recurrence and nonrecurrence groups. A strong HER2 protein expression, as well as high proliferation index, was seen in recurrence group (DCIS and IC). FOXA1 expression is reduced across the groups though not statistically significant. Conclusion: This is the first study to analyze novel transcription markers FOXA1 and GATA-3 in DCIS. Further work needs to be done on a larger cohort of DCIS cases with recurrence to better understand, which variables are best able to predict recurrence and guide therapy decision strategies. Maintenance of FOXA1 and GATA-3 expression in ER(-) DCIS may offer new promising targets for therapy in future.
The Response to and Impact of the Ebola Epidemic: Towards an Agenda for Interdisciplinary Research

Background: The 2013-2016 Ebola virus disease (EVD) epidemic in West Africa was the largest in history and resulted in a huge public health burden and significant social and economic impact in those countries most affected. Its size, duration and geographical spread presents important opportunities for research than might help national and global health and social care systems to better prepare for and respond to future outbreaks. This paper examines research needs and research priorities from the perspective of those who directly experienced the EVD epidemic in Guinea. Methods: The paper reports the findings from a research scoping exercise conducted in Guinea in 2017. This exercise explored the need for health and social care research, and identified research gaps, from the perspectives of different groups. Interviews were carried out with key stakeholders such as representatives of the Ministry of Health, non-governmental organizations (NGOs), academic and health service researchers and members of research ethics committees (N=15); health practitioners (N=12) and community representatives (N=11). Discussion groups were conducted with male and female EVD survivors (N=24) from two distinct communities. Results: This research scoping exercise identified seven key questions for further research. An important research priority that emerged during this study was the need to carry out a comprehensive analysis of the wider social, economic and political impact of the epidemic on the country, communities and survivors. The social and cultural dynamics of the epidemic and the local, national and international response to it need to be better understood. Many survivors and their relatives continue to experience stigma and social isolation and have a number of complex unmet needs. It is important to understand what sort of support they need, and how that might best be provided. A better understanding of the virus and the long-term health and social implications for survivors and non-infected survivors is also needed. Conclusion: This study identified a need and priority for interdisciplinary research focusing on the long-term sociocultural, economic and health impact of the EVD epidemic. Experiences of survivors and other non-infected members of the community still need to be explored but in this broader context.
Effect of Patient Gowns in Digital Radiograph X-ray Imaging: An Evaluation of a Linear Artifact and Lung Field Histogram

The objective of this paper was to assess the artifacts in chest digital radiography of patients as well as those of chest X-ray phantom (Fluke model) and anthropomorphic chest phantom phantom. Through investigative research, it was discovered that patient gowns are suitable when used for filmscreen system X-ray examinations, but not for digital radiography system X-ray examinations. This study investigated the types of artifacts fabricated by a patient gown through normal high tube voltage exposure procedures performed in university hospitals, and then analyzed the lung field histogram, which included the artifact. The value of the human lung field histogram varied from ‘985’ to ‘3,351’, which suggests an inclusion of the patient’s gown, as the patient’s gown presented values that ranged between ‘1,595’ and ‘2,013’. Thus, it can be deduced that new materials that contain low radiolucency levels should be used for patient gowns in order to ensure the absence of overlapping pixel values in key areas of diagnoses
Power-conserving computation of order-statistics over sensor networks

We study the problem of power-conserving computation of order statistics in sensor networks. Significant power-reducing optimizations have been devised for computing simple aggregate queries such as COUNT, AVERAGE, or MAX over sensor networks. In contrast, aggregate queries such as MEDIAN have seen little progress over the brute force approach of forwarding all data to a central server. Moreover, battery life of current sensors seems largely determined by communication costs --- therefore we aim to minimize the number of bytes transmitted. Unoptimized aggregate queries typically impose extremely high power consumption on a subset of sensors located near the server. Metrics such as total communication cost underestimate the penalty of such imbalance: network lifetime may be dominated by the worst-case replacement time for depleted batteries.In this paper, we design the first algorithms for computing order-statistics such that power consumption is balanced across the entire network. Our first main result is a distributed algorithm to compute an ε-approximate quantile summary of the sensor data such that each sensor transmits only O(log2 n/ε) data values, irrespective of the network topology, an improvement over the current worst-case behavior of Ω(n). Second, we show an improved result when the height, h, of the network is significantly smaller than n. Our third result is that we can exactly compute any order statistic (e.g., median) in a distributed manner such that each sensor needs to transmit O(log3 n) values.Further, we design the aggregates used by our algorithms to be decomposable. An aggregate Q over a set S is decomposable if there exists a function, f, such that for all S = S1 ∪ S2, Q(S) = f(Q(S1), Q(S2)). We can thus directly apply existing optimizations to decomposable aggregates that increase error-resilience and reduce communication cost.Finally, we validate our results empirically, through simulation. When we compute the median exactly, we show that, even for moderate size networks, the worst communication cost for any single node is several times smaller than the corresponding cost in prior median algorithms. We show similar cost reductions when computing approximate order-statistic summaries with guaranteed precision. In all cases, our total communication cost over the entire network is smaller than or equal to the total cost of prior algorithms.
The Political Economy of Productivity in Brazil

This paper explores the link between Brazil's political institutions and its disappointing productivity and growth in recent decades. Although political institutions provide the president with incentives and the instruments to pursue monetary stability and fiscal discipline they simultaneously raise the costs of achieving those very objectives. The insulation of certain expenditures from presidential discretion necessitates the use of other policy options, such as high taxation levels and cuts in unprotected expenditures, which put a drag on productivity and growth. In a context of robust checks and balances and interest group fragmentation, a state overburdened by constitutional entitlements has resorted to massive increases in taxation. The resulting environment possesses both essential elements for sustainable economic growth and distortions that conspire against its realization. While some improvements in productivity and growth have occurred in the past decade, the pace has been slow and incremental.
Is The Uncanny Valley An Uncanny Cliff?

The uncanny valley theory proposed by Mori in 1970 has been a hot topic in human robot interaction research, in particular since the development of increasingly human-like androids and computer graphics. In this paper we describe an empirical study that attempts to plot Mori's hypothesized curve. In addition, the influence of framing on the users' perception of the stimuli was investigated. Framing had no significant influence on the measurements. The pictures of robots and humans were rated independently of whether the participants knew a particular picture showed a robot or human. Anthropomorphism had a significant influence on the measurements, but not even pictures of real humans were rated as likeable as the pictures of humanoids or toy robots. As a result we suggest the existence of an uncanny cliff model as an alternative to the uncanny valley model. However, this study focused on the perception of pictures of robots and the results, including the suggested model, may be different for the perception of movies of moving robots or the perception of standing right in front of a moving robot.
Nitrification and ammonium dynamics in Taihu Lake, China: seasonal competition for ammonium between nitrifiers and cyanobacteria

Abstract. Taihu Lake is hypereutrophic and experiences seasonal, cyanobacterial harmful algal blooms. These Microcystis blooms produce microcystin, a potent liver toxin, and are linked to anthropogenic nitrogen (N) and phosphorus (P) loads to lakes. Microcystis spp. cannot fix atmospheric N and must compete with ammonia-oxidizing and other organisms for ammonium (NH4+). We measured NH4+ regeneration and potential uptake rates and total nitrification using stable-isotope techniques. Nitrification studies included abundance of the functional gene for NH4+ oxidation, amoA, for ammonia-oxidizing archaea (AOA) and bacteria (AOB). Potential NH4+ uptake rates ranged from 0.02 to 6.80 µmol L−1 h−1 in the light and from 0.05 to 3.33 µmol L−1 h−1 in the dark, and NH4+ regeneration rates ranged from 0.03 to 2.37 µmol L−1 h−1. Nitrification rates exceeded previously reported rates in most freshwater systems. Total nitrification often exceeded 200 nmol L−1 d−1 and was > 1000 nmol L−1 d−1 at one station near a river discharge. AOA amoA gene copies were more abundant than AOB gene copies (p Regeneration results suggested that cyanobacteria relied extensively on regenerated NH4+ to sustain the bloom. Internal NH4+ regeneration exceeded external N loading to the lake by a factor of 2 but was ultimately fueled by external N loads. Our results thus support the growing literature calling for watershed N loading reductions in concert with existing management of P loads.
Decision-making styles and their associations with decision-making competencies and mental health

This study investigates the psychometric characteristics of the General Decision-Making Scale (GDMS) on a sample of Slovak high-school and university students. Secondly, it addresses the relationship between decision-making styles and a) decision making competencies and b) mental health as validity criteria. Participants were 427 Slovak high school and university students (64.6% females). The GDMS showed a good internal consistency and its original factor structure was confirmed. Low but significant relationships between the decision-making styles were found. Two decision-making styles served as significant predictors of the general decision-making competency (avoidant and spontaneous) and another two were found to predict mental health. The intuitive decision-making style was a protective factor and the avoidant style was a risk factor.
Trophic Conditions and Gradients of the Headwater Reaches of Beaver Lake, Arkansas

Water samples were taken at 10 sampling sites on Beaver Lake, Arkansas, from August 1993 to July 1995 approximately bi-monthly, starting 1 m below the surface and continuing every other meter to the lake bottom. Chlorophyll a concentrations were compared to a study conducted 20 yr earlier. Chlorophyll a concentration in year 1 significantly increased compared to levels 20 yr ago. However, chlorophyll a levels significantly decreased from years 1 to 2. The decrease in primary production could be related to increased lake levels and suspended sediments caused by episodic flood events. The decrease in chlorophyll a was accompanied with an increase in total phosphorus from years 1 to 2 throughout the reservoir. The trophic status throughout the reservoir indicated by chlorophyll a, total phosphorus, and Secchi depth varied spatially (longitudinal gradients) and temporally. The relationship between chlorophyll a and phosphorus was weakened because other factors were controlling phytoplankton growth. The dynamic nature of this reservoir can undermine traditional relationships between nutrients and primary production from year to year.  1999 Oklahoma Academy of Sciences
Ultrabroadband Perfect Reflectors by All-Dielectric Single-Layer Super Cell Metamaterial

All-dielectric metamaterials (MMs) realize low-loss high efficiency reflector by utilizing Mie resonances in high-permittivity resonators. A single-negative all-dielectric near-perfect reflector is realized by a single layer of silicon (Si) cylinder resonators MM. The average reflection over 99% across 150.6-nm wide bandwidth in near infrared wavelength is achieved. Ultrabroadband perfect reflector was proposed by all dielectric single-layer super cell MM. It consists of four Si nanocylinders with different radius in single unit cell, which possesses peak reflection over 99% and a 313.3 nm wide near-perfect reflection (>95%) bandwidth. In order to achieve the required reflection bandwidth, we controlled the spectral separation of the electric and magnetic resonances.
Comparative Metabolism of Free‐living Bodo saltans and Parasitic Trypanosomatids

Comparison of the genomes of free‐living Bodo saltans and those of parasitic trypanosomatids reveals that the transition from a free‐living to a parasitic life style has resulted in the loss of approximately 50% of protein‐coding genes. Despite this dramatic reduction in genome size, B. saltans and trypanosomatids still share a significant number of common metabolic traits: glycosomes; a unique set of the pyrimidine biosynthetic pathway genes; an ATP‐PFK which is homologous to the bacterial PPi‐PFKs rather than to the canonical eukaryotic ATP‐PFKs; an alternative oxidase; three phosphoglycerate kinases and two GAPDH isoenzymes; a pyruvate kinase regulated by fructose‐2,6‐bisphosphate; trypanothione as a substitute for glutathione; synthesis of fatty acids via a unique set of elongase enzymes; and a mitochondrial acetate:succinate coenzyme A transferase. B. saltans has lost the capacity to synthesize ubiquinone. Among genes that are present in B. saltans and lost in all trypanosomatids are those involved in the degradation of mureine, tryptophan and lysine. Novel acquisitions of trypanosomatids are components of pentose sugar metabolism, pteridine reductase and bromodomain‐factor proteins. In addition, only the subfamily Leishmaniinae has acquired a gene for catalase and the capacity to convert diaminopimelic acid to lysine.
Effect of Metal Ions on Kinetics and Thermo Stability of α-Amylase Isolated from Aspergillus oryzae

Alpha amylase produced from Aspergillus oryzae after thermal treatment has been rarely investigated. The purpose of current research was to study the effect of metalson the activity and stability of α-amylase. Supplementation of Ca and Co improved the enzyme activity up to 2 folds, while rest of the metals did not affect the enzyme activity. The Michaelis-Menten constants (Vmax, Km and Vmax/Km) for soluble starch hydrolysis by α-apo-amylase were 65 Umin mg, 2.01% (w/v) and 32.26 Umg, respectively. The thermodynamics constants (ΔH*, ΔG* and ΔS*) of irreversible thermal inactivation for Ca bonded amylase were 154.49 kJ mol, 106.09 kJ mol and -147 J mol K, respectively. The Ca ions made the α-amylase about 53 folds more stable as compared to the control. The thermostability of α-amylase was also increased after thermal treatment and become more heat tolerant which is necessary requirement for α-amylase to perform ideal result in different industries. © 2018 Friends Science Publishers
Self-perceived balance disability/handicap in the presence of bilateral peripheral vestibular system impairment.

The purpose of this report was to characterize the self-perceived balance disability/handicap of patients with bilateral reductions and bilateral complete losses of peripheral vestibular system function. Data from 72 patients whose electronystagmography and rotational examinations suggested normal, unilateral, or bilateral reductions in peripheral vestibular system function were used in the first investigation. Patients also completed a Dizziness Handicap Inventory (DHI). Results demonstrated significant group differences for DHI total and physical subscale scores. There were significant differences between normal and bilateral weakness groups for the total DHI score and between normal and unilateral and normal and bilateral weakness groups for the physical subscale score. In a second investigation, an item analysis of the DHI is presented for five patients with bilateral complete losses of peripheral vestibular system function. Results show that, predictably, these patients have difficulty engaging in activities requiring an intact vestibulocular reflex (e.g., physical activities such as sports, household chores).
Efficient Second-Order Gradient Boosting for Conditional Random Fields

Conditional random elds (CRFs) are an important class of models for accurate structured prediction, but eective design of the feature functions is a major challenge when applying CRF models to real world data. Gradient boosting, which is used to automatically induce and select feature functions, is a natural candidate solution to the problem. However, it is non-trivial to derive gradient boosting algorithms for CRFs due to the dense Hessian matrices introduced by variable dependencies. Existing approaches thus use only rst-order information when optimizing likelihood, and hence face convergence issues. We incorporate second-order information by deriving a Markov Chain mixing rate bound to quantify the dependencies, and introduce a gradient boosting algorithm that iteratively optimizes an adaptive upper bound of the objective function. The resulting algorithm induces and selects features for CRFs via functional space optimization, with provable convergence guarantees. Experimental results on three real world datasets demonstrate that the mixing rate based upper bound is eective for learning CRFs with non-linear potentials.