Miracle-dz/UniFAR-FTUs huggingface dataset:
The Nuclear Argonaute NRDE-3 Contributes to Transitive RNAi in Caenorhabditis elegans

The Caenorhabditis elegans nuclear RNA interference defective (Nrde) mutants were identified by their inability to silence polycistronic transcripts in enhanced RNAi (Eri) mutant backgrounds. Here, we report additional nrde-3-dependent RNAi phenomena that extend the mechanisms, roles, and functions of nuclear RNAi. We show that nrde-3 mutants are broadly RNAi deficient and that overexpressing NRDE-3 enhances RNAi. Consistent with NRDE-3 being a dose-dependent limiting resource for effective RNAi, we find that NRDE-3 is required for eri-dependent enhanced RNAi phenotypes, although only for a subset of target genes. We then identify pgl-1 as an additional limiting RNAi resource important for eri-dependent silencing of a nonoverlapping subset of target genes, so that an nrde-3; pgl-1; eri-1 triple mutant fails to show enhanced RNAi for any tested gene. These results suggest that nrde-3 and pgl-1 define separate and independent limiting RNAi resource pathways. Limiting RNAi resources are proposed to primarily act via endogenous RNA silencing pathways. Consistent with this, we find that nrde-3 mutants misexpress genes regulated by endogenous siRNAs and incompletely silence repetitive transgene arrays. Finally, we find that nrde-3 contributes to transitive RNAi, whereby amplified silencing triggers act in trans to silence sequence-similar genes. Because nrde-dependent silencing is thought to act in cis to limit the production of primary transcripts, this result reveals an unexpected role for nuclear processes in RNAi silencing.
Shelbourne's update of the O'Donoghue knee triad in a 17-year-old male Rugby player

Acute athletic knee injuries are often caused by a combination of valgus impact with external rotation of the tibia leading to a triad of injuries involving medial collateral and anterior cruciate ligament disruption with associated meniscal damage. This injury pattern has been greatly discussed in the literature with conflicts of opinion and evidence as to whether medial or lateral meniscal pathology has a higher incidence. This case report introduces a 17-year-old male athlete with this unhappy triad It will evaluate the clinical assessment which suggested a medial meniscal lesion follow the patient through arthroscopy revealing a lateral meniscal tear in addition to complete anterior cruciate ligament rupture and grade 2 medial collateral ligament tear. It will go on to look at the evidence base for the relative incidence of lateral and medial meniscal injuries and will evaluate the role of MRI in assessing acute athletic knee injuries.
A low TC, supply independent and process compensated current reference

This paper presents a 10-μA, trim-free, low temperature coefficient, supply independent current reference with process compensation feature. Based on the proposed structure, a 130 ppm/°C temperature coefficient current reference across -40°C to 80°C temperature range is achieved. The proposed circuit can work at supply voltage varying from 2.4 to 3.0 V, while only has 30-nA drift at room temperature. The proposed current reference is implemented in 0.18-μm CMOS process occupying an area of 0.005 mm2.
Phosphorylation of the Pro-apoptotic Protein BIK

BIK is a pro-apoptotic BCL-2 family member and is the founding member of a subfamily of pro-apoptotic proteins known as “BH3-alone” proteins. Ectopic expression of BIK induces apoptosis in variety of mammalian cells. BIK complexes with various anti-apoptotic BCL-2 family proteins such as adenovirus E1B-19K and BCL-2 via the BH3 domain. However, the heterodimerization activity of BIK alone is insufficient for its apoptotic activity. Previous studies have shown that phosphorylation regulates the functional activity of both anti-apoptotic and pro-apoptotic members of the BCL-2 family. Here, we have examined phosphorylation of BIK and its effect on the apoptotic activity of BIK. We show that BIK exists as a phosphoprotein and is phosphorylated at residues 33 (threonine) and 35 (serine). Mutation of the phosphorylation sites, in which the Thr and Ser residues were changed to alanine residues, reduced the apoptotic activity of BIK without significantly affecting its ability to heterodimerize with BCL-2. Our results suggest that phosphorylation of BIK is required for eliciting efficient apoptotic activity. Partial purification of the protein kinase from HeLa cell cytoplasmic extracts suggest that BIK may be phosphorylated by a casein kinase II-related enzyme.
A simple method for the determination of the respiratory quotient of soils.

A simple method for the determination of the respiratory quotient of soils is described. The advantages of this method over those previously described are: (1) Variability between identical treatments is minimized. (2) Errors arising from non-uniform respiration of replicated treatments are eliminated. (3) Soil moisture contents are maintained at a constant level. (4) R.Q. 's can be correlated directly with microbial activity as indicated by CO2 evolution and both parameters are collected from a single soil sample for extended periods of time. (5) C14-enriched substrates may be used. (6) The composition of the ambient atmosphere can be easily controlled. A brief comparison of different methods is presented.
Detection and Classification of Mu Rhythm using Phase Synchronization for a Brain Computer Interface

Phase synchronization in a brain computer interface based on Mu rhythm is evaluated by means of phase lag index and weighted phase lag index. In order to detect and classify the important features reflected in brain signals during execution of mental tasks (imagination of left and right hand movement), the proposed methods are implemented on two datasets. The classification is performed using linear discriminant classifier, quadratic discriminant classifier, Mahalanobis distance classifier, k nearest neighbor and support vector machine. Classification accuracies up to 74% and 61% for phase lag index and weighted phase lag index were achieved. The results indicate that phase synchronization measures are relevant for classifying mental tasks recorded in the active state and the relaxation state from additional motor area and from the sensorimotor area. Phase lag index and weighted phase lag index methods are easy to implement, efficient, provide relevant features for the classification and can be used as an offline methods for motor imagery paradigms.
Acute Unilateral Renal Infarction in the Setting of an Inherited Thrombophilia and Atrial Septal Defect

We present a case of renal infarction in a 43-year-old female with history of stroke at age 14. She was found to be heterozygous for the prothrombin G20210A gene mutation. Loop monitoring revealed no atrial fibrillation. Transthoracic and transesophageal echocardiograms showed no thrombus. However, there was a small shunt due to an atrial septal defect (ASD). She was treated with warfarin and had device closure of her ASD. This was a suspected case of paradoxical embolism through an ASD leading to renal infarction.
Mechanisms of endothelial senescence

When endothelial cells from different vascular beds are grown in culture they show a limited capacity to divide, eventually entering into a permanent and phenotypically distinctive non‐dividing state referred to as ‘replicative senescence’. Replicative senescence is thought to result from progressive shortening of telomeric DNA and consequent telomere dysfunction. More recently, it has been realised that senescence can also be induced by a variety of insults, including those causing intracellular oxidative stress. In this report, we review evidence for the occurrence of endothelial cell senescence in vivo. We will also examine the causes, mechanisms and regulation of this process as they emerge from our studies in cell culture, focusing in particular on the roles of oxidative stress, telomerase, growth factors and nitric oxide.
Weekly excretion of the mammalian lignan enterolactone in milk of dairy cows fed flaxseed meal

Flaxseed meal (FM) is rich in the plant lignan secoisolariciresinol diglucoside (SDG) which is converted to the mammalian lignans enterodiol and enterolactone (EL) by ruminal microbiota. Feeding FM to dairy cows increases linearly EL concentration in milk but enterodiol is not detected. The objectives of the study were to determine the length of time to obtain peak EL concentration in the milk of dairy cows fed 20% FM and the length of time to return to EL baseline level in milk when cows are switched from high to low intake of flax SDG. A total of 12 multiparous lactating Holstein cows were assigned randomly to one of two feeding regimens: the control (CO) diet was fed for 6 weeks or the FM diet was fed from week 0 to 3 inclusive and then cows were switched to the control diet from week 3 to 6 inclusive. Milk samples were taken weekly for EL analysis. There was a significant interaction between feeding regimen and week for milk concentration of EL as a result of higher concentration of EL from week 1 to 3 for cows on the FM regimen compared with those on the CO regimen. Concentrations of milk EL on the FM regimen maintained uniform high levels from week 1 to 3 and they decreased significantly from week 3 to 4 when the CO diet was reintroduced in week 3. This study suggests that the conversion of SDG to the mammalian lignan EL and the transfer of EL to the mammary gland are well established after one week of feeding 20% FM in the diet of dairy cows and that milk concentration of EL returns to baseline level after one week of FM deprivation.
Engineering Mechanics for Successive States in Canine Left Ventricular Myocardium: I. CAVITY AND WALL GEOMETRY

The relations between end-diastolic (D) and end-systolic (S) cavitary volumes (Vc), wall volumes (V10), and cavitary dimensions have been studied in the canine and human left ventricle. However, the models selected for left ventricular myocardium do not represent the real heart adequately for a fiber-by-fiber analysis of fiber orientation and sarcomere length during successive states of the ejection cycle. In this study, the endocardial and epicardial surfaces were postulated to be a nested set of truncated ellipsoidal shells of revolution where wall volumes were preserved from D to S. Shell dimensions on the semiminor and semimajor axes, R and Z, respectively, were related to Vc and Vw by two representations: confocal and nonconfocal. If the focal length C = (Z2 − R2)½ and C is the same for each shell, then the shells are confocal, otherwise they are nonconfocal. From measured Vc, Vw, and epicardial Z in D, shell dimensions were calculated for states D and S, using both confocal and nonconfocal representations, and compared with the measured dimensions. When no empirical corrections were made, the calculated endocardial R in S underestimated the measured R in S by 12%; moreover, the calculated epicardial R in S overestimated the measured R in S by 4%. Endocardial and epicardial C measured 3.73 ± 0.33 (SE) cm and 3.79 ±0.34 cm, respectively, in D and 3.77±0.11 cm and 3.71 ±0.10 cm, respectively, in S.
The Effect of Ketone Bodies and Fatty Acid on Intestinal Glucose Metabolism during Development

Summary: Glucose oxidation by developing rat intestine changed dramatically during the period of suckling and weaning. After weaning, glucose oxidation to CO2 by intestinal slices increased over 3-fold. This was associated with an increase in lactate production from glucose and an increase in the rate of pyruvate decarboxylation.Active pyruvate dehydrogenase in intestine of developing rats also increases in activity at the time of weaning, suggesting that the suppression of glucose oxidation during the suckling period is controlled by pyruvate dehydrogenase. Glucose oxidation to CO2 and pyruvate decarboxylation to CO2 by intestinal slices of postweaned animals was inhibited by exogenous 3-hydroxybutyrate. But exogenous 3-hydroxybutyrate did not inhibit glucose and pyruvate oxidation in intestine of suckling animals which have higher levels of endogenous 3-hydroxybutyrate than intestine of postweaned rats. Palmitate, in contrast, inhibited glucose and pyruvate oxidation by both pre-and postweaned intestine.
Suppression of tumor formation in vivo by expression of the JE gene in malignant cells

The early growth response gene JE encodes a monocyte chemoattractant, MCP-1. The JE/MCP-1 protein attracts and stimulates human monocytes and induces monocyte-mediated inhibition of tumor cell growth in vitro. Expression of human or murine JE/MCP-1 in Chinese hamster ovary (CHO) cells completely suppressed their ability to form tumors in nude mice. Coinjection of JE/MCP-1-expressing cells with nonexpressing CHO cells or with HeLa cells also prevented tumor formation. Since JE/MCP-1 expression had no discernible effect on the tranformed phenotype of these cells in vitro, the suppressive effect depends on host animal factors. These factors are likely to be components of the inflammatory response, because JE/MCP-1-expressing cells elicited a predominantly monocytic infiltrate at the site of injection. Our results suggest that JE/MCP-1 protein may be useful in cancer therapy.
Quality of care from patients' perspective: impact of the combination of person-related and external objective care conditions.

AIMS AND OBJECTIVES To describe patients' perceptions of quality of care and to explore combinations of person-related and external objective care conditions as potential predictors of these perceptions. BACKGROUND Several studies have examined various single factors of person-related and external objective care conditions in relation to quality of care. None of these has included the effect of over-occupancy on patients' perception of quality of care. Furthermore, little is known about how combinations of different factors are related to each other and to the perception of quality of care using multivariate analysis. DESIGN A cross-sectional design. METHOD A total of 528 patients (83·7%) from 12 medical, surgical or medical-surgical wards in five hospitals in Norway participated. Perceptions of quality of care and person-related conditions were measured with the 'Quality from Patient's Perspective' instrument. Data on external objective care conditions was collected from ward statistics provided by head nurses. Multivariate general linear modelling was used (p < 0·05). RESULTS The combination of person-related and external objective care conditions revealed five factors that predict patients' perception of quality of care. Three of these are person-related conditions: sex, age and self-reported psychological well-being and two of them are external objective care conditions: RNs (headcount) on the wards and frequency of over-occupancy. These five factors explained 55% of the model. Patients rated the quality of care high. CONCLUSIONS Sex, age, psychological well-being, frequency of over-occupancy and the number of RNs are important factors that must be emphasised if patients are to perceive the quality of care as high. Relevance to clinical practice. Head nurses and healthcare authorities must continually prepare the wards for over-occupancy and they must consider the number of RNs working on the wards.
Effects of different maturity stages and growing locations on changes in chemical, biochemical and aroma volatile composition of 'Wonderful' pomegranate juice.

BACKGROUND This study investigated the changes in chemical attributes of pomegranate fruit such as total soluble solids (TSS), titratable acidity (TA), TSS/TA ratio, pH, individual compounds (organic acids and sugars) and volatile composition as affected by fruit maturity status and growing location (Kakamas, Koedoeshoek and Worcester in South Africa). Headspace solid phase microextraction coupled with gas chromatography/mass spectrometry was used for volatile analysis. RESULTS A significant increase in TSS from 14.7 ± 0.6 to 17.5 ± 0.6 °Brix was observed with advancement in fruit maturity, while TA decreased from 2.1 ± 0.7 to 1.1 ± 0.3 g citric acid per 100 mL across all agro-climatic locations investigated. Fruit TSS/TA ratio and pH increased from 7.8 ± 2.6 to 16.6 ± 2.8 and from 3.3 ± 0.1 to 3.6 ± 0.2 respectively during fruit maturation across all agro-climatic locations. Fructose and glucose concentrations increased continually with fruit maturity from 69.4 ± 4.9 to 91.1 ± 4.9 g kg(-1) and from 57.1 ± 4.7 to 84.3 ± 5.2 g kg(-1) respectively. A total of 13 volatile compounds were detected and identified, belonging to five chemical classes. The most abundant volatile in unripe and mid-ripe fruit was 1-hexanol, while 3-hexen-1-ol was highest at commercial maturity. CONCLUSION Knowledge on the impact of fruit maturity and agro-climatic locations (with different altitudes) on biochemical and aroma volatile attributes of pomegranate fruit provides a useful guide for selecting farm location towards improving fruit quality and the maturity stage best for juice processing.
CYTOTOXICITY AND MUTAGENICITY OF ‘AL‐KOHL’, AN EYE COSMETIC COMMONLY USED IN JORDAN

We examined 50 samples of ‘Al‐Kohl’, collected from northern Jordanian provinces, for their cytotoxicity and mutagenicity using the brine shrimp and Ames Salmonella mutagenicity bioassays, respectively. Twenty were unopened, ready‐to‐use, samples purchased from retail outlets, 20 were in‐use samples obtained from ladies of different socioeconomic standards, and 10 samples were from the original stones used to prepare Al‐Kohl. The frequency of positive samples for both cytotoxicity and mutagenicity was much higher in the ready‐to‐use and in‐use samples of Al‐Kohl than in the original stones. Out of the 50 samples examined, 20 (40%) showed some degree of cytotoxicity almost all involving ready‐to‐use or in‐use samples. Among those samples, 12 (24%) were strongly cytotoxic, while eight samples (16%) showed mild cytotoxic activity in the brine shrimp bioassay. The results of the mutagenicity testing were obtained, without using any metabolic activation, with four test strains of Salmonella, namely TA97, TA98, TA100 and TA102. Wide variability in results was observed depending on the type of samples tested and the Salmonella strain used. More than 80% of the original stone samples were negative and the positive ones were mildly mutagenic while the ready‐to‐use and in‐use samples showed similar mutagenicity, which was much more than the original stones against the four strains of Salmonella typhimurium used. Strain TA97 was particularly sensitive to the samples tested. Twelve per cent of the ready‐to‐use and in‐use samples of Al‐Kohl showed a strong mutagenic effect against the pre‐mentioned strains. We recommended abandoning Al‐Kohl as a cosmetic for application to the eye areas, based on these findings and the previous microbial contamination studies (2).
Hawkes Processes for Invasive Species Modeling and Management

The spread of invasive species to new areas threatens the stability of ecosystems and causes major economic losses in agriculture and forestry. We propose a novel approach to minimizing the spread of an invasive species given a limited intervention budget. We first model invasive species propagation using Hawkes processes, and then derive closed-form expressions for characterizing the effect of an intervention action on the invasion process. We use this to obtain an optimal intervention plan based on an integer programming formulation, and compare the optimal plan against several ecologically-motivated heuristic strategies used in practice. We present an empirical study of two variants of the invasive control problem: minimizing the final rate of invasions, and minimizing the number of invasions at the end of a given time horizon. Our results show that the optimized intervention achieves nearly the same level of control that would be attained by completely eradicating the species, with a 20% cost saving. Additionally, we design a heuristic intervention strategy based on a combination of the density and life stage of the invasive individuals, and find that it comes surprisingly close to the optimized strategy, suggesting that this could serve as a good rule of thumb in invasive species management.
Exposure to Suicide in the Community: Prevalence and Correlates in One U.S. State

Objective. Suicide has been identified as a major public health issue. Exposure to suicide (i.e., knowing someone who died by suicide) is far more pervasive than previously considered and might be associated with significant adverse outcomes. As suicide becomes more commonly discussed in the public arena, a compelling need exists to determine who is exposed to suicide and how this exposure affects those left behind. This study estimated the proportion of the population exposed to suicide and delineated factors that predict significant psychiatric and psychosocial morbidity following that exposure. Methods. A dual-frame random-digit-dial survey was conducted on a sample of 1,736 U.S. adults in the Commonwealth of Kentucky. Depression and anxiety were compared in suicide-exposed and suicide-unexposed individuals. Relationships were examined between psychiatric outcomes and perceptions of closeness to the decedent. Results. Forty-eight percent of weighted participants (n=816/1,687) reported lifetime exposure to suicide. Current depression and anxiety symptoms were higher in suicide-exposed than in suicide-unexposed individuals. Suicide-exposed individuals were twice as likely as suicide-unexposed individuals to have diagnosable depression and almost twice as likely to have diagnosable anxiety. Suicide-exposed individuals were more likely than suicide-unexposed individuals to report suicide ideation (9% vs. 5%). Closeness to the decedent increased the odds of depression and anxiety and almost quadrupled the odds of posttraumatic stress disorder. Conclusion. Exposure to suicide is pervasive and occurs beyond family; as such, it is imperative to identify those with perceived closeness to the decedent. This hidden cohort of suicide-exposed people is at elevated risk for psychopathology and suicidal ideation.
Platelet functions beyond hemostasis

Summary. Although their central role is in the prevention of bleeding, platelets probably contribute to diverse processes that extend beyond hemostasis and thrombosis. For example, platelets can recruit leukocytes and progenitor cells to sites of vascular injury and inflammation; they release proinflammatory and anti‐inflammatory and angiogenic factors and microparticles into the circulation; and they spur thrombin generation. Data from animal models suggest that these functions may contribute to atherosclerosis, sepsis, hepatitis, vascular restenosis, acute lung injury, and transplant rejection. This article represents an integrated summary of presentations given at the Fourth Annual Platelet Colloquium in January 2009. The process of and factors mediating platelet–platelet and platelet–leukocyte interactions in inflammatory and immune responses are discussed, with the roles of P‐selectin, chemokines and Src family kinases being highlighted. Also discussed are specific disorders characterized by local or systemic platelet activation, including coronary artery restenosis after percutaneous intervention, alloantibody‐mediated transplant rejection, wound healing, and heparin‐induced thrombocytopenia.