Miracle-dz/UniFAR-FTUs huggingface dataset:
Metformin prevents the development of monocrotaline-induced pulmonary hypertension by decreasing serum levels of big endothelin-1

Pulmonary hypertension (PH) is a disease with poor prognosis, and it is characterized by the progressive elevation of pulmonary vascular resistance and pressure. Various factors are associated with the pathology of PH, including AMP-activated protein kinase (AMPK) deficiency. The present study aimed to evaluate the therapeutic effect of metformin, an AMPK activator, in a monocrotaline (MCT)-induced PH rat model. Rats were randomly divided into the following three groups: i) Saline-injected group (sham group); ii) monocrotaline (MCT)-injected group (PH group); iii) MCT-injected and metformin-treated group (MT group). Four weeks following MCT injection, cardiac ultrasonography, invasive hemodynamic measurements, measurement of serum levels of big endothelin-1 (big ET-1) and histological analysis were performed to evaluate the effect of metformin treatment in PH. Pulmonary arterial pressure and serum big ET-1 concentrations were reduced in the MT group compared with the PH group. Medial wall thickness and wall area of the pulmonary arterioles in the MT group were decreased compared with the PH group. Comparing the right heart functional parameters among groups revealed that the acceleration time/ejection time ratio improved in the MT group compared with the PH group. Thus, the present study demonstrated the efficacy of metformin in an MCT-induced PH rat model and suggested that metformin may be a valuable, potential novel therapeutic for the treatment of PH.
Antigen-Specific Immunoadsorption With the Glycosorb® ABO Immunoadsorption System as a Novel Treatment Modality in Pure Red Cell Aplasia Following Major and Bidirectional ABO-Incompatible Allogeneic Hematopoietic Stem Cell Transplantation

Pure red cell aplasia (PRCA) after ABO-incompatible allogeneic hematopoietic stem cell transplantation (HSCT) is caused by persisting host-derived isohemagglutinins directed against donor red blood cell (RBC) antigens. ABO antigen-specific immunoadsorption (ABO-IA) with Glycosorb®, commonly used for desensitization therapy in ABO-incompatible living donor renal transplantation, specifically eliminates circulating isohemagglutinins and might represent a novel treatment option for post-HSCT PRCA. In this prospective observational (n = 3) and retrospective (n = 3) analysis of six adult HSCT-recipients with PRCA, ABO-IA was initiated at 159 (range: 104–186) days following HSCT. The median treatment frequency was 4.5 (range: 3.9–5.5) sessions/week. ABO-IA-treatment led to a continuous decrease in isohemagglutinin titers. Reticulocytes increased to ≥30 G/L after 17.5 (range: 4–37) immunoadsorption sessions over 28.5 (range: 6–49) days and continued to rise after that. By the end of the 3-month follow-up period after discontinuation of ABO-IA, all patients showed a sustained remission of PRCA and were independent of erythropoietin-stimulating agents and transfusions. No case of infection or graft-versus-host disease was observed. After a median follow-up of 22.03 (range: 6.08–149.00) months after ABO-IA-treatment, all patients were alive and showed a stable RBC engraftment of the donor blood group. Our data provide the first evidence for ABO-IA as an effective treatment for post-HSCT PRCA.
Stalling chromophore maturation of the fluorescent protein Venus reveals the molecular basis of the final oxidation step

Fluorescent proteins (FPs) have revolutionised the life sciences but the mechanism of chromophore maturation is still not fully understood. Incorporation of a photo-responsive non-canonical amino acid within the chromophore stalls maturation of Venus, a yellow FP, at an intermediate stage; the crystal structure reveals the presence of O2 located above a dehydrated enolate imidazolone (I) ring, close to the strictly conserved Gly67 that occupies a twisted conformation. His148 adopts an “open” conformation, potentially allowing O2 access to the chromophore. Absorption spectroscopy supported by QM/MM simulations suggest that the first oxidation step involves formation of a hydroperoxyl intermediate in conjunction with dehydrogenation of the methylene bridge. A fully conjugated mature chromophore is formed through release of H2O2 upon irradiation of this intermediate, both in vitro and in vivo. The possibility of interrupting and photochemically restarting chromophore maturation, and the mechanistic insights opens up new approaches for engineering optically controlled fluorescent proteins.
Influence Maximization on Dynamic Social Networks with Conjugate Learning Automata

Selecting the optimal subset from all vertices as seeds to maximize the influence in a social network has been a task of interest. Various methods have been proposed to select the optimal vertices in a static network, however, they are challenged by the dynamics, i.e. the time-dependent variation of the social network structure. Such dynamics hinder the paradigm for static networks and leaves a seemingly unbridgeable gap between algorithms of influence maximization on static networks and those on dynamic ones. In this paper, we extend our previous work and demonstrate that conjugate learning automata (an elementary variant of reinforcement learning) that have been successfully applied to maximize influence on static networks can be applied to dynamic networks as well. The network dynamics is measured by the variation of the influence range and absorbed into the learning procedure. Our proposal delicately formulates the effect of network dynamics: the more the influence range varies, the more likely the seeds are to be learned from scratch. Under this assumption, the continuity of the network variation is fully taken advantage of. Experimental results on both synthetic and real-world networks verify the privileges of our proposal against alternative methods.
On Application of Block Kaczmarz Methods in Matrix Factorization

Matrix factorization techniques compute low-rank product approximations of high dimensional data matrices and as a result, are often employed in recommender systems and collaborative filtering applications. However, many algorithms for this task utilize an exact least-squares solver whose computation is time consuming and memory-expensive. In this paper we discuss and test a block Kaczmarz solver that replaces the least-squares subroutine in the common alternating scheme for matrix factorization. This variant trades a small increase in factorization error for significantly faster algorithmic performance. In doing so we find block sizes that produce a solution comparable to that of the least-squares solver for only a fraction of the runtime and working memory requirement.
Learning to Decouple Relations: Few-Shot Relation Classification with Entity-Guided Attention and Confusion-Aware Training

This paper aims to enhance the few-shot relation classification especially for sentences that jointly describe multiple relations. Due to the fact that some relations usually keep high co-occurrence in the same context, previous few-shot relation classifiers struggle to distinguish them with few annotated instances. To alleviate the above relation confusion problem, we propose CTEG, a model equipped with two novel mechanisms to learn to decouple these easily-confused relations. On the one hand, an Entity -Guided Attention (EGA) mechanism, which leverages the syntactic relations and relative positions between each word and the specified entity pair, is introduced to guide the attention to filter out information causing confusion. On the other hand, a Confusion-Aware Training (CAT) method is proposed to explicitly learn to distinguish relations by playing a pushing-away game between classifying a sentence into a true relation and its confusing relation. Extensive experiments are conducted on the FewRel dataset, and the results show that our proposed model achieves comparable and even much better results to strong baselines in terms of accuracy. Furthermore, the ablation test and case study verify the effectiveness of our proposed EGA and CAT, especially in addressing the relation confusion problem.
Invertible Low-Divergence Coding

Several applications in communication, control, and learning require approximating target distributions to within small informational divergence. The additional requirement of invertibility usually leads to using encoders that are one-to-one mappings, also known as distribution matchers. However, even the best one-to-one encoders have divergences that grow logarithmically with the block length. To overcome this limitation, an encoder is proposed that has an invertible one-to-many mapping and a low-rate random number generator (RNG). Two algorithms are developed to design the mapping by assigning strings in either a most-likely first or least-likely first order. Both algorithms give information rates approaching the entropy of the target distribution with exponentially decreasing divergence and with vanishing RNG rate in the block length.
In Pursuit of a Better Broiler: Growth, Efficiency and Mortality of 16 Strains of Broiler Chickens

To meet the growing consumer demand for chicken meat, the poultry industry has selected broiler chickens for increasing efficiency and breast yield. While this high productivity means affordable and consistent product, it has come at a cost to broiler welfare. There has been increasing advocacy and consumer pressure on primary breeders, producers, processors and retailers to improve the welfare of the billions of chickens processed annually. Several small-scale studies have reported better welfare outcomes for slower growing strains compared to fast growing, conventional strains. However, these studies often housed birds with range access or used strains with vastly different growth rates. Additionally, there may be traits other than growth, such as body conformation, that influence welfare. As the global poultry industries consider the implications of using slower growing strains, there was a need for a comprehensive, multidisciplinary examination of broiler chickens with a wide range of genotypes differing in growth rate and other phenotypic traits. To meet this need, our team designed a study to benchmark data on conventional and slower growing strains of broiler chickens reared in standardized laboratory conditions. Over a two-year period, we studied 7,528 broilers from 16 different genetic strains. In this paper, we compare the growth, efficiency and mortality of broilers to one of two target weights (TW): 2.1 kg (TW1) and 3.2 kg (TW2). We categorized strains by their growth rate to TW2 as conventional (CONV), fastest slow strains (FAST), moderate slow strains (MOD) and slowest slow strains (SLOW). When incubated, hatched, housed, managed and fed the same, the categories of strains differed in body weights, growth rates, feed intake and feed efficiency. At 48 days of age, strains in the CONV category were 835-1264 g heavier than strains in the other categories. By TW2, differences in body weights and feed intake resulted in a 22 to 43-point difference in feed conversion ratios. Categories of strains did not differ in their overall mortality rates.
Multivariate Interpolation on Unisolvent Nodes - Lifting the Curse of Dimensionality

We present generalizations of the classic Newton and Lagrange interpolation schemes to arbitrary dimensions. The core contribution that enables this new method is the notion of unisolvent nodes, i.e., nodes on which the multivariate polynomial interpolant of a function is unique. We prove that by choosing these nodes in a proper way, the resulting interpolation schemes become generic, while approximating all continuous Sobolev functions. If in addition the function is analytical in the Trefethen domain then, by validation, we achieve the optimal exponential approximation rate given by the upper bound in Trefethen's Theorem. The number of interpolation nodes required for computing the optimal interpolant depends sub-exponentially on the dimension, hence resisting the curse of dimensionality. Based on this, we propose an algorithm that can efficiently and numerically stably solve arbitrary-dimensional interpolation problems, and approximate non-analytical functions, with at most quadratic runtime and linear memory requirement.
Analysis of the Promoter Region of the Gene Encoding Sodium/Hydrogen Exchanger 1 Protein

Understudying gene regulatory network in different plants is essential to engineer plants against biotic/abiotic stress. Here, we analyzed 5’UTR to determine which cis-acting elements present at the promoter of canola NHX1 gene, a salt responsive gene. Arabidopsis NHX1 gene sequence was searched in canola (Brassica napus) genome. The putative sequence of NHX1 gene was extracted and analyzed. Many elements were identified that some of them discussed here.
Combining Auditory and Mid-Air Haptic Feedback for a Light Switch Button

As Mid-Air Haptic (MAH) feedback, which provides a sensation of touch without direct physical contact, is a relatively new technology, research investigating MAH feedback in home usage as well as multi-sensory integration with MAH feedback is still scarce. To address this gap, we propose a possible usage context for MAH feedback, perform an experiment by manipulating auditory and haptic feedback in various physical qualities and suggest possible combinations for positive experiences. Certain sensory combinations led to changes in the emotional responses, as well as the responses regarding utilitarian (e.g. clarity) and perceptual (sensory match) qualities. The results show an added value of MAH feedback when added to sensory compositions, and an increase in the positive experiences induced by MAH length and multimodality.
iTRAQ-Based Proteomic Profiling of PLC-Mediated Expression of 20E-Induced Protein in Apolygus lucorum (Meyer-Dür)

The polyphagous pest Apolygus lucorum has become the dominant insect in Bacillus thuringiensis (Bt) cotton fields. The hormone 20-hydroxyecdysone (20E) regulates multiple events in insect development and physiology. 20E responses are controlled by pathways triggered by phospholipase C (PLC)-associated proteins. However, 20E-modulated genes whose expression is affected by PLC remain unknown. Here, isobaric tag for relative and absolute quantitation (iTRAQ) and immunoblot were carried out for comparing differentially expressed proteins (DEPs) in A. lucorum in response to 20E and the PLC inhibitor U73122, respectively. Totally 1624 DEPs were, respectively, found in the 20E/control, U73122/control, and 20E+U73122/control groups. Venn diagram analysis further revealed 8 DEPs that were shared among the three groups. Immunoblot validated these findings, which corroborated and highlighted the reliability of proteomics. KEGG enrichment analysis showed that the DEPs were included in diverse signaling pathways. The largest portion of DEPs among the three groups were categorized in metabolic pathways. In addition, DEPs among the three groups were also found to regulate the Ras-MAPK and PI3K-AKT pathways. This is the first time that iTRAQ was carried out to assess proteome alteration in A. lucorum nymphs in response to 20E and a PLC inhibitor. These findings provide novel insights into protein expression in A. lucorum in response to 20E, and a more comprehensive understanding of the function of PLC in 20E signal transduction.
The effect of the humic substances, garlic (Allium sativum L.), wormwood (Artemisia absinthium) and walnut (Juglans regia) on growth parameters and mortality of broiler chickens

The aim of this experiment was to determine the influence of humic substances, garlic ( Allium sativum L.), wormwood ( Artemisia absinthium ) and walnut ( Juglans regia ) on growth performance and mortality of broiler chickens. A total of 60 Ross 308 broiler chickens were divided into 3 groups (n=20). The control group of chickens was fed with complete feed mixtures without any additives. Chickens in the first experimental group E1 were fed a diet containing 1.5% of humic substances, 0.4% of garlic powder and 0.1% of wormwood. Chickens in the second experimental group E2 were fed a diet containing 1.5% of humic substances, 0.4% of garlic powder and 0.1% of walnut. The body weight, feed intake, feed conversion and total mortality were recorded in 42 day of fattening. At the end of the experiment was average body weight significantly higher (P≤0.01) in the first experimental group compared to the control group (values in the order of the groups: 1801.04±166.25; 1928.26±226.37 and 1850.24 g±SD). The feed intake was in the control group 3.59 kg per chicken, in the first experimental group E1 3.58 kg per chicken and in the second experimental group E2 3.45 kg per chicken. Feed conversion was in control group 1.95 kg, in the first experimental group E1 1.87 kg and in the second experimental group E2 1.84 kg with no significant different (P≥0.05) compared to the control group. Total mortality in 42 day was positive affected in the second experimental group, but with no significant different (P≥0.05) compared to the control group.
Geniposide Alleviates Oxidative Stress of Mice With Depression-Like Behaviors by Upregulating Six3os1

Depression is a major cause of disease burden and severely impairs well-being of patients around the globe. Geniposide (GP) has been revealed to play a significant role in depression treatment. Of note, RNA sequencing of this study identified highly expressed long non-coding RNA Six3os1 in response to GP treatment. Thus, we aim to explore how GP affected chronic unpredictable mild stress (CUMS)-induced depression-like behaviors in mice in vivo and in vitro and the downstream molecular mechanism related to Six3os1. The relationship of Six3os1, miR-511-3p and Fezf1 was evaluated by dual-luciferase reporter gene assay, RIP assay, and RNA pulling down assay. Ectopic expression and knockdown experiments were developed in CUMS-induced mice and neurons with or without GP treatment. In vitro experiments and behavioral tests were conducted to examine alteration of CUMS-triggered oxidative stress following different interferences. The experimental data validated that GP treatment resulted in high expression of Six3os1 and Fezf1 and poor expression of miR-511-3p in CUMS-induced neurons. Six3os1 activated the AKT signaling pathway by upregulating miR-511-3p-targeted Fezf1. Either GP treatment or overexpression of Six3os1 or Fezf1 alleviated depression-like behaviors of CUMS-induced mice. GP treatment, miR-511-3p inhibition or overexpression of Six3os1 or Fezf1 not only reduced oxidative stress in CUMS-induced mice and neurons, but also reduced CUMS-induced neuronal apoptosis. Collectively, GP treatment-mediated Six3os1 upregulation ameliorated oxidative stress of mice with depression-like behaviors via the miR-511-3p/Fezf1/AKT axis.
2-categorical opfibrations, Quillen's Theorem B, and $S^{-1}S$

In this paper we show that the strict and lax pullbacks of a 2-categorical opfibration along an arbitrary 2-functor are homotopy equivalent. We give two applications. First, we show that the strict fibers of an opfibration model the homotopy fibers. This is a version of Quillen's Theorem B amenable to applications. Second, we compute the $E^2$ page of a homology spectral sequence associated to an opfibration and apply this machinery to a 2-categorical construction of $S^{-1}S$. We show that if $S$ is a symmetric monoidal 2-groupoid with faithful translations then $S^{-1}S$ models the group completion of $S$.
Predictors of cough-specific and generic quality of life in sarcoidosis patients

Background: Cough is frequent symptom in sarcoidosis and its impact on patient’s quality of life (QoL) has not been adequately addressed so far. Objectives: The goal of this study was to determine the significant predictors of cough-specific and generic QoL in sarcoidosis patients. Methods: In the prospective study 275 sarcoidosis patients administered Patient Reported Outcomes instruments for measurement of dyspnea (Borg and MRC scales) and fatigue (Fatigue Assessment Scale (FAS) and Daily Activity List (DAL)), as well as patients’ QoL (cough-specific Leicester Cough Questionnaire (LCQ) and generic tool – 15D). The LCQ contains 3 domains covering physical, psychological and social aspects of chronic cough. Pulmonary function tests (spirometry and diffusing capacity for carbon monoxide) and serum angiotensin converting enzyme (sACE) were also measured. Results: Dyspnea measured by Borg scale and impairment of daily activities determined by DAL instrument as well as sACE were the strongest predictors of all cough-specific QoL domains. Mental aspect of patients’ fatigue was significantly correlated with all domains except with psychological LCQ domain. Regarding the generic QoL, the following significant predictors were: dyspnea measured by MRC scale, overall fatigue determined by FAS and physical domain of the LCQ. Conclusion: It is important to measure both cough-specific and generic QoL in sarcoidosis patients since they measure different health aspects and their predictors can be different. We demonstrated that physical domain of cough-specific QoL is significant predictor of generic QoL. (Sarcoidosis Vasc Diffuse Lung Dis 2020; 37 (2): 158-168)
Detecting Media Bias in News Articles using Gaussian Bias Distributions

Media plays an important role in shaping public opinion. Biased media can influence people in undesirable directions and hence should be unmasked as such. We observe that feature-based and neural text classification approaches which rely only on the distribution of low-level lexical information fail to detect media bias. This weakness becomes most noticeable for articles on new events, where words appear in new contexts and hence their “bias predictiveness” is unclear. In this paper, we therefore study how second-order information about biased statements in an article helps to improve detection effectiveness. In particular, we utilize the probability distributions of the frequency, positions, and sequential order of lexical and informational sentence-level bias in a Gaussian Mixture Model. On an existing media bias dataset, we find that the frequency and positions of biased statements strongly impact article-level bias, whereas their exact sequential order is secondary. Using a standard model for sentence-level bias detection, we provide empirical evidence that article-level bias detectors that use second-order information clearly outperform those without.