Miracle-dz/UniFAR-FTUs huggingface dataset:
Effects of retinoids on proliferation and plasminogen activator expression in a bovine mammary epithelial cell line

Effects of two natural (retinol and retinoic acid, RA) and one synthetic N-(4-hydroxyphenyl) retinamide (4-HPR) retinoids on proliferation and expression of urokinase-plasminogen activator (u-PA) by bovine mammary epithelial cells were examined. The BME-UV1 established bovine mammary epithelial cell line was used as a model system. All retinoids tested (retinol, RA and 4-HPR) were effective inhibitors of cell proliferation. When cells were cultured in the absence of fetal bovine calf serum (FBCS), inhibition occurred at concentrations as low as 1 nM for all retinoids tested. The effect of retinoids on cell proliferation was not dose-related when cells were cultured in the absence of FBCS. All retinoids (retinol, RA, 4-HPR), when used in the range 1 nM–10 μM (noncytotoxic concentrations), were equally effective and had identical inhibition patterns. Inhibition of cell proliferation by RA was apparent by 6 h and was higher after 24 h in culture. In contrast, when cells were cultured in the presence of FBCS, the effect of RA and retinol on cell proliferation was dose-related. RA and retinol inhibited cell proliferation (P<0·01) when added to the culture medium in concentrations as low as 10 nM and 100 nM, respectively. 4-HPR was inhibitory (P<0·01) in concentrations as low as 1 nM. Higher concentrations of 4-HPR in the range 1 nM–1 μM had no further effect on cell proliferation. None of the retinoids tested, when added to cultures in the presence or absence of FBCS, could completely arrest cell proliferation at noncytotoxic concentrations. RA at 1 μM inhibited (P<0·05) insulin or IGF-I-induced cell proliferation but had no effect (P>0·05) on u-PA mRNA levels or u-PA activity. Furthermore, RA inhibited cell proliferation in the presence of FBCS but had no effect (P>0·05) on u-PA mRNA levels. Thus, retinoids are effective inhibitors of bovine mammary epithelial cell proliferation and this growth inhibition does not seem to correlate with any changes in u-PA mRNA or u-PA activity.
Effect of chromium on glucose and lipid profiles in patients with type 2 diabetes; a meta-analysis review of randomized trials.

PURPOSE Chromium (Cr) as an essential trace element in metabolism of carbohydrate, lipid and protein is currently prescribed to control diabetes mellitus (DM). The objective of this meta-analysis was to compare the effect of Cr versus placebo (Pl) on glucose and lipid profiles in patients with type 2 DM. METHODS Literature searches in PubMed, Scopus, Scirus, Google Scholar and IranMedex was made by use of related terms during the period of 2000-2012. Eligible studies were randomized clinical trials (RCTs) with intake of Cr higher than 250 µg at least for three months in type 2 DM. Glycated hemoglobin (HbA1c), fasting blood sugar (FBS), total cholesterol (TC), high-density lipoprotein cholesterol (HDL-C), low-density lipoprotein cholesterol (LDL-C), very low-density lipoprotein cholesterol (VLDL-C), triglyceride (TG), and body mass index (BMI) were the main outcomes. RESULTS Seven out of 13 relevant studies met the criteria and were included in the meta-analysis. HbA1c change in diabetic patients in Cr supplement therapy comparing to Pl was -0.33 with 95%CI= -0.72 to 0.06 (P= 0.1). Change of FBG in Cr therapy vs. Pl was -0.95 with 95%CI= -1.42 to -0.49 (P< 0.0001). TC change in Cr therapy vs. Pl was 0.07 with 95%CI= -0.16 to 0.31 (P= 0.54). TG change in diabetic patients in Cr supplement therapy comparing to Pl was -0.15 with 95%CI= -0.36 to 0.07 (P= 0.18). CONCLUSIONS Cr lowers FBS but does not affect HbA1c, lipids and BMI.
Molecular basis of the heat denaturation of photosystem II.

The thermal denaturation of the photosystem II (PSII) membrane protein complex is investigated by assigning the endothermic transitions observed by differential scanning calorimetry (DSC) to the denaturation of particular proteins of the PSII complex. In a prior DSC study of PSII membranes [Thompson, L. K. , Sturtevant, J. M. , & Brudvig, G. W. (1986) Biochemistry 25, 6161], five DSC peaks were observed in the 30-70 degrees C temperature range (A1, A2, B, C, and D). The A2 peak was assigned to denaturation of a component essential for water oxidation and the B peak to denaturation of a component critical to the remainder of the electron-transport chain. We have now extended these studies with thermal gel analysis and electron paramagnetic resonance (EPR) measurements. Thermal gel analysis, a technique which relies on a change in the solubility properties of a membrane protein upon denaturation, has been used to determine the temperatures of denaturation of all of the major membrane proteins of the PSII complex. EPR experiments have been used to monitor chlorophyll photooxidation and the stability of TyrD+. Peaks B, C, and D in the DSC denaturation profile are each assigned to the denaturation of several proteins, which provides information on the organization of the PSII complex into structural and functional units. Peak B corresponds to the denaturation of peripheral core proteins and closely associated antenna proteins, peak C to the PSII core, and peak D to the loosely associated antenna proteins. No membrane protein is observed to denature during the A2 peak. The A2 peak is altered by the presence of catalase, superoxide dismutase, low chloride, and high pH. These results suggest that the abnormally sharp A2 peak occurs when the highly oxidizing, sequestered Mn complex (the active site in water oxidation) becomes accessible to the aqueous phase, at elevated temperatures. We propose a mechanism for the reaction of the Mn complex with hydroxide ions, which involves peroxide or superoxide and results in the reduction and release of Mn. The proposed model provides insight into the well-known instability of the Mn complex and the role of chloride in stabilizing the complex. This may enable the future development of purification procedures and may explain the sensitivity of the water-oxidizing apparatus of PSII to heat denaturation.
Accuracy of vertical height measurements on direct digital panoramic radiographs using posterior mandibular implants and metal balls as reference objects.

OBJECTIVES Conventional panoramic radiography, a widely used radiographic examination tool in implant treatment planning, allows evaluation of the available bone height before inserting posterior mandibular implants. Image distortion and vertical magnification due to projection geometry is well described for rotational panoramic radiographs. To assess the accuracy of vertical height measurements on direct digital panoramic radiographs, implants and metal balls positioned in the posterior mandible were used as radio-opaque reference objects. The reproducibility of the measuring method was assessed by the inter- and intraobserver agreements. METHODS Direct digital panoramic radiographs, performed using a Kodak 8000C (Eastman Kodak Company, Rochester, NY), of 17 partially edentulous patients (10 females, 7 males, mean age 65 years) were selected from an X-ray database gathered during routine clinical evaluation of implant sites. Proprietary software and a mouse-driven calliper were used to measure the radiological length of 25 implants and 18 metal reference balls, positioned in mandibular posterior segments. The distortion ratio (DR) was calculated by dividing the radiological implant length by the implant's real length and the radiological ball height by the ball's real height. RESULTS Mean vertical DR was 0.99 for implants and 0.97 for balls, and was unrelated to mandibular sites, side, age, gender or observer. Inter- and intraobserver agreements were acceptable for both reference objects. CONCLUSIONS Vertical measurements had acceptable accuracy and reproducibility when a software-based calibrated measurement tool was used, confirming that digital panoramic radiography can be reliably utilized to determine the pre-operative implant length in premolar and molar mandibular segments.
Conservative treatment of invasive bladder carcinoma by transurethral resection, protracted intravenous infusion chemotherapy, and hyperfractionated radiotherapy

Organ preservation has been investigated in patients with muscle‐invasive bladder carcinoma over the past decades as an alternative to radical cystectomy. The majority of studies reported that trimodal schedules, including transurethral resection of bladder tumor (TURB), radiotherapy (RT), and chemotherapy, are a feasible and safe organ‐sparing approach without deferring the survival probability. However, to the authors' knowledge the best combination of RT and chemotherapy has yet to be well defined. The current study evaluated the long‐term results of a schedule of concurrent cisplatin and 5‐fluorouracil (5‐FU) administered as protracted intravenous infusions (PVI) during hyperfractionated radiotherapy (HFRT) with organ‐sparing intent in patients with infiltrating transitional cell carcinoma of the bladder (TCCB).
Travel companions and activity preferences of nature-based tourists.

Purpose This paper aims to reveal the similarities and variances in activity patterns among those traveling alone and with a different mix of travel companions in the context of nature-based tourism. Design/methodology/approach In this research, five different travel parties (alone, with small children, with older children, with friends and with partner) and 25 tourist activities are research variables. The study selects Norway as the destination country in relation to activity patterns. Its data, collected from a questionnaire survey of residents from the United Kingdom, Sweden and France, contain 6,935 responses. Findings The study finds that traveling with a partner is the preferred mix for traveling to Norway. A correspondence analysis on activity patterns reveals that traveling with friends and traveling with a partner show some similarities in activity patterns, where the other three groups prove notable differences in activity patterns compared to these two groups. Originality/value The study empirically tests the relationship between the mix of travel party and the choice of tourist activity in the context of nature-based tourism in Norway. It provides new market insights that can assist tourism businesses to further tailor products and services to traveling public involving different types of companions.
Longitudinal Poisson Assessment of Factors Influencing Farmers’ Market Counts

ABSTRACT This study uses secondary longitudinal data and a first difference pooled Poisson regression model to explain annual counts for farmers’ markets in the United States. Data were collected for all 50 states and the District of Columbia for 10 years, from 2004 to 2013, leading to a longitudinal data set with 510 observations. Results indicate that population growth and funds routed toward Women, Infants, and Children (WIC) farmers’ market nutrition programs increase farmers’ markets’ annual counts. The rate ratio of farmers’ markets’ counts for highly populated states that have both WIC and senior farmers’ market nutrition programs is approximately three times greater than their counterparts. Areas with high agriculture output experience a significant increase in counts. States located in the south and in desert areas have lower counts than other regions. This study suggests important recommendations to policy makers, farmers’ market managers, and researchers.
Impairment of Na/K-ATPase Signaling in Renal Proximal Tubule Contributes to Dahl Salt-sensitive Hypertension*

We have observed that, in renal proximal tubular cells, cardiotonic steroids such as ouabain in vitro signal through Na/K-ATPase, which results in inhibition of transepithelial 22Na+ transport by redistributing Na/K-ATPase and NHE3. In the present study, we investigate the role of Na/K-ATPase signaling in renal sodium excretion and blood pressure regulation in vivo. In Sprague-Dawley rats, high salt diet activated c-Src and induced redistribution of Na/K-ATPase and NHE3 in renal proximal tubules. In Dahl salt sensitive (S) and resistant (R) rats given high dietary salt, we found different effects on blood pressure but, more interestingly, different effects on renal salt handling. These differences could be explained by different signaling through the proximal tubular Na/K-ATPase. Specifically, in Dahl R rats, high salt diet significantly stimulated phosphorylation of c-Src and ERK1/2, reduced Na/K-ATPase activity and NHE3 activity, and caused redistribution of Na/K-ATPase and NHE3. In contrast, these adaptations were either much less effective or not seen in the Dahl S rats. We also studied the primary culture of renal proximal tubule isolated from Dahl S and R rats fed a low salt diet. In this system, ouabain induced Na/K-ATPase/c-Src signaling and redistribution of Na/K-ATPase and NHE3 in the Dahl R rats, but not in the Dahl S rats. Our data suggested that impairment of Na/K-ATPase signaling and consequent regulation of Na/K-ATPase and NHE3 in renal proximal tubule may contribute to salt-induced hypertension in the Dahl S rat.
Behavioral and nutritional factors and geohelminth infection among two ethnic groups in the Terai region, Nepal

Geohelminthiasis is a major health problem in many developing countries. This study was designed to evaluate the role of behaviors and the nutritional status of people with geohelminth infection in two indigenous ethnic groups in lowland Terai, Nepal. One hundred and fourteen individuals (55 Mushar and 59 Tharu) aged 20–60 years participated, and a structured questionnaire was used to investigate socioeconomic status and behaviors. Nutritional status was assessed by anthropometric measurements. Ninety five stool samples of the participants were collected for parasitological analysis. The results showed that the prevalence of geohelminthiasis was 42.1%: 26.3% of the subjects were infected with roundworm, 9.5% with hookworms, and 6.3% with whipworm. Multivariate logistic regression analysis revealed that “not using soap for hand‐washing” (adjusted OR = 5.27; 95% CI: 1.41–19.78) and height (adjusted OR = 0.88, 95% CI: 0.79–0.99) were associated with the prevalence of roundworm. “Walking barefoot when outdoor” was associated with the prevalence of hookworm (χ‐square test, P = 0.01). Ethnicity was not associated with the prevalence of either of the geohelminths. Because unhygienic behaviors and chronic malnutrition were closely associated with the people's recognition and subsistence pattern, elimination of geohelminth infection in Terai would be possible if deworming campaigns were implemented with in‐depth health education and modern agricultural technology. Am. J. Hum. Biol., 2009. © 2008 Wiley‐Liss, Inc.
Gag Induces the Coalescence of Clustered Lipid Rafts and Tetraspanin-Enriched Microdomains at HIV-1 Assembly Sites on the Plasma Membrane

ABSTRACT The HIV-1 structural protein Gag associates with two types of plasma membrane microdomains, lipid rafts and tetraspanin-enriched microdomains (TEMs), both of which have been proposed to be platforms for HIV-1 assembly. However, a variety of studies have demonstrated that lipid rafts and TEMs are distinct microdomains in the absence of HIV-1 infection. To measure the impact of Gag on microdomain behaviors, we took advantage of two assays: an antibody-mediated copatching assay and a Förster resonance energy transfer (FRET) assay that measures the clustering of microdomain markers in live cells without antibody-mediated patching. We found that lipid rafts and TEMs copatched and clustered to a greater extent in the presence of membrane-bound Gag in both assays, suggesting that Gag induces the coalescence of lipid rafts and TEMs. Substitutions in membrane binding motifs of Gag revealed that, while Gag membrane binding is necessary to induce coalescence of lipid rafts and TEMs, either acylation of Gag or binding of phosphatidylinositol-(4,5)-bisphosphate is sufficient. Finally, a Gag derivative that is defective in inducing membrane curvature appeared less able to induce lipid raft and TEM coalescence. A higher-resolution analysis of assembly sites by correlative fluorescence and scanning electron microscopy showed that coalescence of clustered lipid rafts and TEMs occurs predominately at completed cell surface virus-like particles, whereas a transmembrane raft marker protein appeared to associate with punctate Gag fluorescence even in the absence of cell surface particles. Together, these results suggest that different membrane microdomain components are recruited in a stepwise manner during assembly.
DEXTRA: A Fast Algorithm for Optimization Over Directed Graphs

This paper develops a fast distributed algorithm, termed <italic>DEXTRA</italic>, to solve the optimization problem when <inline-formula><tex-math notation="LaTeX">$n$</tex-math></inline-formula> agents reach agreement and collaboratively minimize the sum of their local objective functions over the network, where the communication between the agents is described by a <italic>directed</italic> graph. Existing algorithms solve the problem restricted to directed graphs with convergence rates of <inline-formula><tex-math notation="LaTeX">$O(\ln k/\sqrt{k})$</tex-math> </inline-formula> for general convex objective functions and <inline-formula><tex-math notation="LaTeX">$O(\ln k/k)$ </tex-math></inline-formula> when the objective functions are strongly convex, where <inline-formula> <tex-math notation="LaTeX">$k$</tex-math></inline-formula> is the number of iterations. We show that, with the appropriate step-size, DEXTRA converges at a linear rate <inline-formula><tex-math notation="LaTeX">$O(\tau ^{k})$ </tex-math></inline-formula> for <inline-formula><tex-math notation="LaTeX">$0<\tau <1$</tex-math> </inline-formula>, given that the objective functions are restricted strongly convex. The implementation of DEXTRA requires each agent to know its local out-degree. Simulation examples further illustrate our findings.
Pathways of protein folding.

Advances in spectroscopy, protein engineering, and peptide synthesis have had a dramatic impact on the understanding of the structures and stabilities of transient folding intermediates. The data available from a variety of proteins point to the existence of three common stages of folding. 1. Initially, the unfolded protein collapses to a presumably more compact form containing substantial nonpolar surfaces and secondary structure. This species has little thermodynamic stability and encompasses an ensemble of conformations that are in dynamic equilibrium and may contain non-native elements of structure. This reaction occurs in less than 5 ms and, from a thermodynamic perspective, may be a noncooperative transition. The relatively high content of secondary structure implies that this manifold of states must be far smaller than the manifold for the unfolded protein. 2. The next phase involves the further development of secondary and the beginnings of specific tertiary structure throughout the protein as well as of measurable stability. Nativelike elements of structure appear, possibly in the form of subdomains that are yet to be properly docked. In many instances, the packing is not as tight as is ultimately found in the native conformation, suggesting that the side chains are in general more mobile. Some elements of surface structure, such as loops and the peripheries of sheets and helices, are not yet well defined. This stage, which may consist of more than a single kinetic step, occurs in the 5-1000 ms time range. The ensemble of conformations is much reduced from the first stage; however, it is far from a single, highly populated form. 3. The final stage in folding corresponds to the concerted formation of many noncovalent interactions throughout the protein. The solidlike interior packing is achieved; the final secondary structure forms and the surface structures settle into place. The breadth of these conformational changes reflects the global cooperativity characteristic of protein folding reactions. A pictorial representation of the kinetic and thermodynamic aspects of this process is shown in Figure 1. This folding scheme emphasizes the progressive development of structure and stability through an ever-slowing set of reactions. Because the product of each stage of folding, with the exception of the final step, is an ensemble of related but not identical species, it is an oversimplification to describe the process as a pathway. Perhaps it is better described as a series of transitions between manifolds of structures that are in dynamic equilibrium within any given set. (ABSTRACT TRUNCATED AT 400 WORDS)
Identification of Chromosomes Associated with Dental Caries Susceptibility Using Quantitative Trait Locus Analysis in Mice

Dental caries is a multifactorial, infectious disease with little known about the host genetic factors influencing susceptibility. This study aimed to identify the major candidate chromosomes for dental caries susceptibility and to detect the relevant regions within these. Quantitative trait locus (QTL) analysis was performed on genetic crosses of C3H/HeJ (caries-resistant) and C57BL/6J (caries-susceptible) mice inoculated with Streptococcus mutans serotype c. In a genomewide scan, three suggestive QTLs were detected on chromosomes 1, 2, and 7, one significant QTL was found on chromosome 2, and one highly significant QTL was detected on chromosome 8. The likelihood ratio statistic (LRS) was raised around the marker D1Mit21 in the middle region of chromosome 1, between D2Mit255 and D2Mit311 in the distal region of chromosome 2, and the region distal to D7Mit31 on chromosome 7. A significant QTL was located between the markers D2Mit237 and D2Mit101 on chromosome 2. The LRS was highly significantly raised between markers D8Mit208 and D8Mit280 on chromosome 8, and exceeded a highly significant level between markers D8Mit211 and D8Mit280. These results suggest that major gene(s) responsible for dental caries susceptibility or resistance are located in one or more of these regions.
Secrecy outage performance of cooperativ e relay network with diversity combining

In this paper, the secrecy outage probability of threshold-based decode-and-forward (DF) cooperative relay network is evaluated. Unlike other works to date, we assume combining of direct and relayed signals both at the destination and the eavesdropper. All the links undergo Rayleigh fading and the relay can perfectly decode the message, only if the received SNR meets a particular threshold. The secrecy performance is compared for the system with either selection combining (SC), or with maximal ratio combining (MRC) or with the combination of both, at the destination and eavesdropper. We have shown that the eavesdropper channel quality, required secrecy rate, pre-defined threshold and the choice of diversity scheme significantly affects the secrecy performance of the system.