Miracle-dz/UniFAR-FTUs huggingface dataset:
DNA methylation analysis of Homeobox genes implicates HOXB7 hypomethylation as risk factor for neural tube defects

Neural tube defects (NTDs) are common birth defects of complex etiology. Though family- and population-based studies have confirmed a genetic component, the responsible genes for NTDs are still largely unknown. Based on the hypothesis that folic acid prevents NTDs by stimulating methylation reactions, epigenetic factors, such as DNA methylation, are predicted to be involved in NTDs. Homeobox (HOX) genes play a role in spinal cord development and are tightly regulated in a spatiotemporal and collinear manner, partly by epigenetic modifications. We have quantified DNA methylation for the different HOX genes by subtracting values from a genome-wide methylation analysis using leukocyte DNA from 10 myelomeningocele (MMC) patients and 6 healthy controls. From the 1575 CpGs profiled for the 4 HOX clusters, 26 CpGs were differentially methylated (P-value < 0.05; β-difference > 0.05) between MMC patients and controls. Seventy-seven percent of these CpGs were located in the HOXA and HOXB clusters, with the most profound difference for 3 CpGs within the HOXB7 gene body. A validation case-control study including 83 MMC patients and 30 unrelated healthy controls confirmed a significant association between MMC and HOXB7 hypomethylation (-14.4%; 95% CI: 11.9–16.9%; P-value < 0.0001) independent of the MTHFR 667C>T genotype. Significant HOXB7 hypomethylation was also present in 12 unaffected siblings, each related to a MMC patient, suggestive of an epigenetic change induced by the mother. The inclusion of a neural tube formation model using zebrafish showed that Hoxb7a overexpression but not depletion resulted in deformed body axes with dysmorphic neural tube formation. Our results implicate HOXB7 hypomethylation as risk factor for NTDs and highlight the importance for future genome-wide DNA methylation analyses without preselecting candidate pathways.
Ketamine inhibits c-Jun protein expression in mouse hippocampus following cerebral ischemia/reperfusion injury

A model of cerebral ischemia and reperfusion was established in mice. Mice were treated with ketamine via intraperitoneal injection immediately following ischemia or ischemia/reperfusion. Ketamine did not remarkably change infarct volume in mice immediately following ischemia, but injection immediately following ischemia/reperfusion significantly decreased infarct volume. Ketamine injection immediately after ischemia or ischemia/reperfusion inhibited c-Jun protein expression in mouse hippocampus, but nuclear factor kappa B expression was unaltered. In addition, the Longa scale score for neural impairment was not reduced in mice following cerebral ischemia/reperfusion. These results indicate that ketamine can protect mice against cerebral ischemia and reperfusion injury by modulating c-Jun protein expression in mouse hippocampus.
Grape seed proanthocyanidins inhibit the proliferation, migration and invasion of tongue squamous cell carcinoma cells through suppressing the protein kinase B/nuclear factor-κB signaling pathway

Tongue squamous cell carcinoma (TSCC) is the most common oral squamous cell carcinoma. Despite significant advances in combined therapies, the 5-year survival rate of patients with TSCC has not notably improved; this is due to regional recurrences and lymph node metastasis. Grape seed proanthocyanidins (GSPs) are consumed as dietary supplements worldwide and possess anticancer activity against several different types of cancer. However, their effect on TSCC and the underlying mechanisms by which they function remain unclear. In the present study, it was identified that GSPs significantly inhibited the viability and induced the apoptosis of Tca8113 cells in a dose-dependent manner. This was associated with a significantly increased expression of the pro-apoptosis regulator BAX protein and a significantly decreased expression of the anti-apoptosis regulator Bcl-2 protein at 100 µg/ml GSPs. In addition, at non-toxic concentrations GSPs significantly inhibited the secretion of matrix metalloproteinase-2 (MMP-2) and MMP-9 from Tca8113 cells, as well as their migration and invasion. Furthermore, it was demonstrated that GSPs significantly inhibited the phosphorylation of protein kinase B (Akt) and IκB kinase, as well as the translocation of nuclear factor-κB (NF-κB) into the nucleus of Tca8113 cells. Taken together, these results suggest that GSPs inhibit the proliferation, migration and invasion of Tca8113 cells through suppression of the Akt/NF-κB signaling pathway. This indicates that GSPs may be developed as a novel potential chemopreventive agent against TSCC.
Are People Willing to Pay for a Community-Based Preventive Program

Abstract This pilot study is the first known attempt to test the willingness-to-pay or willingness-to-accept (WTP/WTA) method of assessment on a community-based primary prevention program against cardiovas cular disease. The results indicate that the population's perceived WTA outweighs the program's costs by at least three to one. However, the methodological problems of using the WTP/WTA method in community-based programs are far from solved, and further research in this area is required.
Contrasting Proteomic and Metabolomic Responses of Bermudagrass to Drought and Salt Stresses

Bermudagrass (Cynodon dactylon) is one of tolerant grass species to drought and salt. The comparative analyses of bermudagrass in response to drought and salt stresses at the physiological, proteomic, and metabolomic levels were performed in this study. The physiological results indicated that osmolytes accumulation, ROS level and antioxidant enzyme activities were extensively changed by drought and salt stresses. Through comparative proteomic analyses, we successfully identified a total of 77 proteins involved in photosynthesis, oxidative pentose phosphate, glycolysis, and redox metabolic pathways when exposed to drought and salt stresses. Among them, 36 proteins were commonly regulated by both treatments, while other 40 and 13 proteins were specifically regulated by drought and salt, respectively. Totally 15 proteins were involved in carbon metabolic pathway. Moreover, contents of 37 metabolites including amino acids, organic acids, sugars, and sugar alcohols were regulated by drought and salt treatments. Among them, 18 commonly modulated metabolites were involved in carbon and amino acid metabolic pathways. Drought treatment for 21 days caused less accumulation of sugars and sugar alcohols and increased ROS level in bermudagrass which led to relatively more severe cell membrane reflected by high EL-value and lower survival rate when compared to 400 mM salt treatment for 21 days. These results suggested that drought and 400 mM NaCl stresses for 21 days treatment affected common and specific changes in bermudagrass, which would provide new insights to understand the underlying molecular mechanisms and metabolic homeostasis of bermudagrass in responses to abiotic stresses.
Imidacloprid is hydroxylated by Laodelphax striatellus CYP6AY3v2

Laodelphax striatellus (Fallén) is one of the most destructive pests of rice, and has developed high resistance to imidacloprid. Our previous work indicated a strong association between imidacloprid resistance and the overexpression of a cytochrome P450 gene CYP6AY3v2 in a L. striatellus imidacloprid resistant strain (Imid‐R). In this study, a transgenic Drosophila melanogaster line that overexpressed the L. striatellus CYP6AY3v2 gene was established and was found to confer increased levels of imidacloprid resistance. Furthermore, CYP6AY3v2 was co‐expressed with D. melanogaster cytochrome P450 reductase (CPR) in Spodoptera frugiperda 9 (SF9) cells. A carbon monoxide difference spectra analysis indicated that CYP6AY3v2 was expressed predominately in its cytochrome P450 (P450) form, which is indicative of a good‐quality functional enzyme. The recombinant CYP6AY3v2 protein efficiently catalysed the model substrate P‐nitroanisole to p‐nitrophenol with a maximum velocity (Vmax) of 60.78 ± 3.93 optical density (mOD)/min/mg protein. In addition, imidacloprid itself was metabolized by the recombinant CYP6AY3v2/nicotinamide adenine dinucleotide 2'‐phosphate reduced tetrasodium salt (NADPH) CPR microsomes in in vitro assays (catalytic constant (Kcat) = 0.34 pmol/min/pmol P450, michaelis constant (Km) = 41.98 μM), and imidacloprid depletion and metabolite peak formation were with a time dependence. The data provided direct evidence that CYP6AY3v2 is capable of hydroxylation of imidacloprid and conferring metabolic resistance in L. striatellus.
Coping trajectories in later life: A 20-year predictive study

Objectives and method: Information about aging-related change in coping is limited mainly to results of cross-sectional studies of age differences in coping, and no research has focused on predictors of aging-related change in coping behavior. To extend research in this area, we used longitudinal multilevel modeling to describe older adults’ (n = 719; baseline M = 61 years) 20-year, intraindividual approach and avoidance coping trajectories, and to determine the influence of two sets of predictors (threat appraisal and stressor characteristics; gender and baseline personal and social resources) on level and rate of change in these trajectories. Results: Over the 20-year study interval, participants declined in the use of approach coping and most avoidance coping strategies, but there was significant variation in this trend. In simultaneous predictive models, female gender, more threat appraisal, stressor severity, social resources, and depressive symptoms, and fewer financial resources were independently associated with higher initial levels of coping responses. Having more social resources, and fewer financial resources, at baseline in late-middle-age predicted faster decline over time in approach coping. Having more baseline depressive symptoms, and fewer baseline financial resources, hastened decline in use of avoidance coping. Independent of other variables in these models, decline over time in approach coping and avoidance coping remained statistically significant. Conclusion: Overall decline in coping may be a normative pattern of coping change in later life. However, it also is modifiable by older adults’ stressor appraisals, their stressors, and the personal and social resources they possess at entry to later life, in late-middle-age.
Prediction of acute hypotensive episodes using random forest based on genetic programming

At Intensive Care Unit (ICU), acute hypotensive episode (AHE) can cause serious consequences. It can make the organs broken, or even the patient dead. Generally AHE is predicted by the doctor clinically. In order to forecast the AHE automatically, this paper proposes an algorithm based on the genetic programming (GP) and random forest (RF). The algorithm obtains features of the signal through the Intrinsic Mode Function (IMF) signal produced by applying empirical mode decomposition (EMD) to the arterial blood pressure (MAP) signal. Then the feature sets and the data sets are grouped to evolve decision functions via GP. Finally, a random forest is formed and the classification result is obtained by voting. The achieved accuracy of the proposed method is 77.55%, the sensitivity is 80.55% and specificity is 75.14% after the five-fold cross-validation.
PAX2 mutations in fetal renal hypodysplasia

Papillorenal syndrome also known as renal‐coloboma syndrome (OMIM 120330) is an autosomal dominant condition comprising optic nerve anomaly and renal oligomeganephronic hypoplasia. This reduced number of nephron generations with compensatory glomerular hypertrophy leads towards chronic insufficiency with renal failure. We report on two fetuses with PAX2 mutations presenting at 24 and 18 weeks' gestation, respectively, born into two different sibships. In our first patient, termination of pregnancy was elected for anhydramnios and suspicion of renal agenesis in the healthy couple with an unremarkable previous clinical history. This fetus had bilateral asymmetric kidney anomalies including a small multicystic left kidney, and an extremely hypoplastic right kidney. Histology showed dysplastic lesions in the left kidney, contrasting with rather normal organization in the hypoplastic right kidney. Ocular examination disclosed bilateral optic nerve coloboma. The association of these anomalies, highly suggestive of the papillorenal syndrome, led us to perform the molecular study of the PAX2 gene. Direct sequencing of the PAX2 coding sequence identified a de novo single G deletion of nucleotide 935 in exon 3 of the PAX2 resulting in a frameshift mutation (c.392delG, p.Ser131Thrfs*28). In the second family, the presence of a maternally inherited PAX2 mutation led to a decision for termination of pregnancy. The 18‐week gestation fetus presented the papillorenal syndrome including hypoplastic kidneys and optic nerve coloboma. In order to address the PAX2 involvement in isolated renal “disease,” 18 fetuses fulfilling criteria were screened: 10/18 had uni‐ or bilateral agenesis, 6/18 had bilateral multicystic dysplasia with enlarged kidneys, and 2/18 presented bilateral severe hypodysplasia confirmed on fetopathological examination. To the best of our knowledge, our first patient represents an unreported fetal diagnosis of papillorenal syndrome, and another example of the impact of oriented fetopathological examination in genetic counseling of the parents. © 2010 Wiley‐Liss, Inc.
Supplemental lysine for sows nursing large litters.

A cooperative experiment involving 501 litters was conducted at four stations to assess the effects of supplemental lysine on lactational performance of sows nursing large litters. Basal diets were formulated to contain . 60% lysine from corn or sorghum and soybean meal. Lysine.HCl (78.8% lysine) was substituted for grain to achieve dietary lysine levels of . 75 and . 90%. First-parity sows nursed a minimum of nine pigs per litter and older sows a minimum of 10 pigs per litter by d 3 of lactation. Overall mean litter size at 21 d of age was 9.7 pigs. Sows remained on treatment for three successive parities unless culled for structural unsoundness or reproductive failure. Dietary lysine did not affect body weight or backfat loss during lactation, sow ADFI, interval from weaning to estrus, or litter size at birth or at 21 d of age. Mean pig weights at birth and at 21 d of age increased quadratically to increasing lysine, with improvements found at all stations from increasing lysine from . 60 to . 75%. Twenty-one-day pig weights did not increase at the highest lysine level at stations feeding corn, but did improve at the station feeding sorghum, which resulted in a treatment x station interaction (P < .05). The different responses to lysine on different grain sources indicates intake of one or more other amino acid may have limited lactation performance at the highest level of lysine. These data indicate that a 13% CP corn-soybean meal containing . 60% lysine is inadequate for sows nursing large litters and that supplemental synthetic lysine beyond . 15% additional lysine will not be beneficial due to a deficiency of one or more other amino acids.
Selection and analysis of galactose metabolic pathway variants of a mouse liver cell line

To study the genetic expression and regulation of galactose-metabolizing enzymes, we mutagenized the mouse liver H2.35 cell line and selected for cell clones resistant to the toxic galactose analog, 2-deoxy-D-galactose (2-DOG). One cloned line, designated H12.10, was stably resistant to high levels of 2-DOG and was completely deficient in galactokinase activity. Galactokinase activity and growth sensitivity to 2-DOG could be restored by transfecting H12.10 cells with a plasmid containing the Escherichia coli galactokinase (galK) gene fused to a eucaryotic promoter; thus, the 2-DOG selection could be directed against transfected recombinant constructs in a liver cell line. We also found that H2.35 cells could not utilize galactose as a primary carbon source because of a deficiency in galactose-1-phosphate uridyltransferase; a variant line of H2.35 cells selected in galactose medium expressed higher levels of uridyltransferase activity. Finally, we found that in all mammalian cell lines tested, galactokinase expression was the same whether the medium contained glucose, galactose, or both sugars. These studies demonstrate differences between mammalian cells and yeast cells in the regulation of gal enzymes, and they define different schemes for obtaining altered expression of genes in the galactose metabolic pathway. The isogenic liver cell lines described here can also serve as model systems for studying galactosemias, which are inherited disorders of galactose metabolism in humans.
Zebrafish atoh1 genes: classic proneural activity in the inner ear and regulation by Fgf and Notch

Hair cells of the inner ear develop from an equivalence group marked by expression of the proneural gene Atoh1. In mouse, Atoh1 is necessary for hair cell differentiation, but its role in specifying the equivalence group (proneural function) has been questioned and little is known about its upstream activators. We have addressed these issues in zebrafish. Two zebrafish homologs, atoh1a and atoh1b, are together necessary for hair cell development. These genes crossregulate each other but are differentially required during distinct developmental periods, first in the preotic placode and later in the otic vesicle. Interactions with the Notch pathway confirm that atoh1 genes have early proneural function. Fgf3 and Fgf8 are upstream activators of atoh1 genes during both phases, and foxi1, pax8 and dlx genes regulate atoh1b in the preplacode. A model is presented in which zebrafish atoh1 genes operate in a complex network leading to hair cell development.
Discovery of users' authority ranking in a community question answering website

With the arrival of the era of “we media”, Community Question Answering(CQA) websites become a special “we media” platforms gradually. In this type of platforms, it has evolved as an interesting problem of discover the most authoritative answer provider in different fields because the number of authoritative answer providers is a key influential factor in a successful CQA system. Recently, there are some methods mining the authoritative users who focus on the quality of the answers provided. However, the contents of answers vary a lot and will become complex if they include images or videos, which makes the works hardly can be applied in real-time applications. To address this issue, this proposal aims to mine the most authoritative answer providers, which has attracted considerable research attentions recently. In particular, we first construct a graph with every asker or answer provider being a vertex and their relationships being edges, and then propose a novel approach to compute an appropriate weight for each answer provider based on the PageRank algorithm widely used in social network search area for ranking the users preferred answers on the top. Finally, we will rank the top authoritative answer providers according to their weights to obtain the most influence ones. We still conduct extensive experiments to sufficiently evaluate the performance of our proposal.
Induction of labour after a previous caesarean section: A retrospective study in a district general hospital

Summary A retrospective study was undertaken in a district general hospital to identify factors associated with vaginal delivery, as opposed to caesarean section, in women undergoing induction of labour after a previous caesarean section. The study was undertaken over 9 years (April 1994 – May 2003) and included patients in their second or subsequent pregnancy who had previously had one lower segment caesarean delivery and in whom labour had been induced. Records were extracted from a database and anonymised. Vaginal delivery after induction of labour was attempted in 81 patients of whom 64 (79.0%) subsequently delivered vaginally. There were few complications and no cases of uterine rupture. Two factors had a statistical significant relationship with vaginal birth after induction of labour; occipito-anterior position (OR 10.18, 95% CI 1.42 – 112.7, Yates corrected χ2; p = 0.001) and more than one previous birth (OR 4.76, 95% CI 1.28 – 21.67, p = 0.017). Other associations were explored but were not statistically significant. This paper contributes to the literature on factors associated with vaginal delivery after induction of labour and previous caesarean section, which may inform the selection of cases, and consequent success rates for vaginal delivery.
JWA Gene is Involved in Cadmium-induced Growth Inhibition and Apoptosis in HEK-293T Cells

Cadmium (Cd) is widely dispersed in the environment due to occupational and personal (cigarette) emissions. Exposure of human embryonic kidney 293T (HEK-293T) cells to CdCl2 resulted in growth inhibition and apoptosis. Our previous studies demonstrated that JWA, a novel retinoic acid-inducible and cytoskeleton-associated gene, is a potential environmental-responsive gene with increased expression attributed to oxidative and heat-shock stresses. In the present study, JWA was also found to be responsive to Cd exposure. After treatment with 20 μM CdCl2 for 12 h, the expression level of JWA was increased with accompanied growth inhibition and apoptosis. In addition, knock-down JWA protein expression by using transient transfecting of HEK-293T cells with antisense JWA express vector showed a protective effect against Cd-induced apoptosis. To determine whether the upregulation of JWA by Cd involved regulation by transcriptional mechanisms, further reporter gene assays were employed, which demonstrated a marked increase in JWA promoter activity. In addition, elevated intracellular levels of ROS components (O2 − · and H2O2) and activation of JNK, ERK, and MAPK were found with corresponding upregulation of JWA protein expression. These results suggest that Cd-induced growth inhibition and apoptosis may involve ROS generation and subsequent affect on MAPK signal pathway. JWA responsiveness to CdCl2 might be through both transcriptional and posttranslational mechanisms.
Transnasal Esophagogastroduodenoscopy for Evaluation of Upper Gastrointestinal Non‐Neoplastic Disorders in Patients With Fresh Hypopharyngeal Cancer

Upper gastrointestinal (UGI) tract non‐neoplastic disorders are detrimental to cancer treatment. This study is to evaluate the feasibility of transnasal esophagogastroduodenoscopy in the diagnosis of UGI disorders at the same time as the diagnosis of hypopharyngeal cancer and to provide the prevalence of UGI disorders in patients with fresh hypopharyngeal cancer.
El método de volúmenes finitos aplicado a problemas de ingeniería fluvial y costera

Resumen. El metodo de volumenes finitos es una herramienta ampliamente utilizada en la actualidad para modelar problemas hidrodinamicos de las desembocaduras de rios y estuarios. En este articulo se presenta la aplicacion de este metodo al modelo de aguas someras bidimensional en el estudio de la hidrodinamica y los frentes de seco-mojado para la evaluacion de zonas inundables en desembocaduras de rios y en regiones litorales. Se consideran y analizan los efectos de la turbulencia aplicado al problema de la escala de peces en el contexto de la ingenieria fluvial. Se ilustran las aportaciones realizadas en el campo del Analisis Numerico con sus aplicaciones en los problemas reales, analizando las principales ventajas, inconvenientes y limitaciones del modelo para este tipo de aplicaciones, y se comparan algunos resultados numericoexperimentales.