Miracle-dz/UniFAR-FTUs huggingface dataset:
Disruption of Nuclear Vitamin D Receptor Gene Causes Enhanced Thrombogenicity in Mice*

Vitamin D metabolites influence the expression of various genes involved in calcium homeostasis, cell differentiation, and regulation of the immune system. Expression of these genes is mediated by the activation of the nuclear vitamin D receptor (VDR). Previous studies have shown that a hormonally active form of vitamin D, 1α,25-dihydroxyvitamin D3, exerts anticoagulant effects in cultured monocytic cells. To clarify whether activation of VDR plays any antithrombotic actions in vivo, hemostatic/thrombogenic systems were examined in normocalcemic VDR knock-out (KO) mice on a high calcium diet and compared with wild type and hypocalcemic VDRKO mice that were fed a regular diet. Platelet aggregation was enhanced significantly in normocalcemic VDRKO mice compared with wild type and hypocalcemic VDRKO mice. Aortic endothelial nitric-oxide (NO) synthase expression and urinary NOx excretions were reduced in hypocalcemic VDRKO mice, but not in normocalcemic VDRKO mice. Northern blot and RT-PCR analyses revealed that the gene expression of antithrombin in the liver as well as that of thrombomodulin in the aorta, liver and kidney was down-regulated in hypo- and normocalcemic VDRKO mice. Whereas tissue factor mRNA expression in the liver and kidney was up-regulated in VDRKO mice regardless of plasma calcium level. Furthermore, VDRKO mice manifested an exacerbated multi-organ thrombus formation after exogenous lipopolysaccharide injection regardless of the calcemic conditions. These results demonstrate that activation of nuclear VDR elicits antithrombotic effects in vivo, and suggest that the VDR system may play a physiological role in the maintenance of antithrombotic homeostasis.
Raman spectroscopy for the detection of cancers and precancers.

Optical spectroscopy has been extensively studied as a potential in vivo diagnostic tool that can provide information about both the chemical and morphologic structure of tissue in near real time. Most in vivo studies have concentrated on elastic scattering and fluorescence spectroscopies since these signals can be obtained with a good signal-to-noise ratio quickly. However, Raman spectroscopy, an inelastic scattering process, provides a wealth of spectrally narrow features that can be related to the specific molecular structure of the sample. Because of these advantages, Raman spectroscopy has been used to study static and dynamic properties of biologically important molecules in solution, in single living cells, in cell cultures, and more recently, in tissues. This article reviews recent developments in the attempt to develop diagnostic techniques for precancers and cancers, based on Raman spectroscopy. The article surveys important transformations that occur as tissues progress from normal to precancer and cancerous stages. We briefly review the extensive literature that summarizes the features and interpretation of Raman spectra of these molecules in solution, and in progressively more complex biological systems. Finally, spectra obtained from intact tissues are comprehensively reviewed and discussed in terms of the molecular and microscopic literature to develop a framework for analyzing Raman signals to yield information about the molecular changes that occur with neoplasia. The article concludes with our perspective on the potential role of Raman spectroscopy in diagnosing precancer and cancerous tissues.
Nitrous oxide production during nitrification from organic solid waste under temperature and oxygen conditions

ABSTRACT Landfill aeration can accelerate the biological degradation of organic waste and reduce methane production; however, it induces nitrous oxide (N2O), a potent greenhouse gas. Nitrification is one of the pathways of N2O generation as a by-product during aerobic condition. This study was initiated to demonstrate the features of N2O production rate from organic solid waste during nitrification under three different temperatures (20°C, 30°C, and 40°C) and three oxygen concentrations (5%, 10%, and 20%) with high moisture content and high substrates’ concentration. The experiment was carried out by batch experiment using Erlenmeyer flasks incubated in a shaking water bath for 72 h. A duplicate experiment was carried out in parallel, with addition of 100 Pa of acetylene as a nitrification inhibitor, to investigate nitrifiers’ contribution to N2O production. The production rate of N2O ranged between 0.40 × 10−3 and 1.14 × 10−3 mg N/g-DM/h under the experimental conditions of this study. The rate of N2O production at 40°C was higher than at 20°C and 30°C. Nitrification was found to be the dominant pathway of N2O production. It was evaluated that optimization of O2 content is one of the crucial parameters in N2O production that may help to minimize greenhouse gas emissions and N turnover during aeration.
SEARCHING THE HUMAN HERPES VIRUS 6 AND 7 (PCR) IN CSF OF CHILDREN ADMITTED IN PEDIATRIC WARD OF RASOUL HOSPITAL, TEHRAN, IRAN

Background and Objectives: Meningoencephalitis in Iranian children is frequent, but encephalitis is rare . The frequency of HHV-6 and HHV-7 in central nervous system diseases of our children is unclear. The aim of this study was searching the DNA-s of HHV-6 & HHV-7 in CSF samples of children with meningoencephalitis Materials and Methods: A cross sectional study (2007-2009) was done in Pediatric Ward in Rasoul Hospital, Tehran Iran. Totally, 150 CSF samples obtained from children (1-180 months) with meningoencephalitis. Conventional and BACTEC Ped Plus medium, latex agglutination tests were used for ruling out the bacterial causes. We searched the DNA-s of HHV-6 & HHV-6 quantitatively by Real time - PCR in 150 CSF samples obtained from children with meningoencephalitis. Results: 60.7 % of cases were male. Fever was reported (>38.5) in 74%; irritability in 70%; Convulsion was seen in 53% of cases. Herpes virus was detected in 12% (18/150) of cases. Both HHV-6 & HHV-7 were found in 6% of all cases. HHV-6 DNA was detected in 4.7% (6) and HHV-7 DNA was detected in 2 cases (1.4%) without any correlation to age, sex and clinical signs. HHV-6 was slightly more frequent than HHV-7. Conclusion: Our data indicate that herpes viruses are not uncommon causes in children with meningoencephalitis. The incidence was lower than other references.
ROCK inhibitor improves survival of cryopreserved serum/feeder-free single human embryonic stem cells.

BACKGROUND Efficient slow freezing protocols within serum-free and feeder-free culture systems are crucial for the clinical application of human embryonic stem (hES) cells. Frequently, however, hES cells must be cryopreserved as clumps when using conventional slow freezing protocols, leading to lower survival rates during freeze-thaw and limiting their recovery and growth efficiency after thawing, as well as limiting downstream applications that require single cell suspensions. We describe a novel method to increase freeze-thaw survival and proliferation rate of single hES cells in serum-free and feeder-free culture conditions. METHODS hES cells maintained on Matrigel-coated dishes were dissociated into single cells with Accutase and slow freezing. After thawing at 37 degrees C, cells were cultured in mTeSR medium supplemented with 10 microM of Rho-associated kinase inhibitor Y-27632 for 1 day. RESULTS The use of Y-27632 and Accutase significantly increases the survival of single hES cells after thawing compared with a control group (P < 0.01). Furthermore, by treatment of hES cell aggregates with EGTA to disrupt cell-cell interaction, we show that Y-27632 treatment does not directly affect hES cell apoptosis. Even in the presence of Y-27632, hES cells deficient in cell-cell interaction undergo apoptosis. Y-27632-treated freeze-thawed hES cells retain typical morphology, stable karyotype, expression of pluripotency markers and the potential to differentiate into derivatives of all three germ layers after long-term culture. CONCLUSIONS The method described here allows for cryopreservation of single hES cells in serum-free and feeder-free conditions and therefore we believe this method will be ideal for current and future hES cell applications that are targeted towards a therapeutic end-point.
Static methods to check low-level code for a graph reduction machine

This thesis is about checking code for a graph-reduction machine computing by template instantiation. An equation-based static checking method for low-level code is proposed in this thesis. The checking can be performed without requiring any extra code annotations. Most ill-behaved programs can be rejected and most well-behaved programs can be accepted. The template code has no explicit information about data types but the static checker works by inferring low-level recursive types. We show compatibility between high-level and low-level type systems. We evaluate empirically the eff�ectiveness of checking to prevent failures. We investigate the low-level implementation of the static checker and how it can be made efficient.
Reversible Decoherence of a Mesoscopic Superposition of Field States

We describe the blueprint of an experiment in which the decoherence of a mesoscopic superposition of radiation states (“Schrodinger cat”) becomes a reversible process. When the high Q cavity containing the Schrodinger cat is coupled to another resonator, the mesoscopic quantum coherence first decays rapidly, then exhibits sharp revivals with the period of the energy exchange between the two cavities. The interpretation of this experiment emphasizes the link between decoherence and complementarity and leads to an illuminating quantitative interpretation of the usual irreversible decoherence phenomenon. [S0031-9007(97)04031-3]
Endogenous extra-cellular heat shock protein 72: Releasing signal(s) and function

Exposure to acute physical and/or psychological stressors induces a cascade of physiological changes collectively termed the stress response. The stress response is demonstrable at the behavioural, neural, endocrine and cellular levels. Stimulation of the stress response functions to improve an organism's chance of survival during acute stressor challenge. The current review focuses on one ubiquitous cellular stress response, up-regulation of heat shock protein 72 (Hsp72). Although a great deal is known about the function of intra-cellular Hsp72 during exposure to acute stressors, little is understood about the potential function of endogenous extra-cellular Hsp72 (eHsp72). The current review will develop the hypothesis that eHsp72 release may be a previously unrecognized feature of the acute stress response and may function as an endogenous ‘danger signal’ for the immune system. Specifically, it is proposed that exposure to physical or psychological acute stressors stimulate the release of endogenous eHsp72 into the blood via an α1-adrenergic receptor-mediated mechanism and that elevated eHsp72 functions to facilitate innate immunity in the presence of bacterial challenge.
Optimal treatment of tuberous sclerosis complex associated renal angiomyolipomata: a systematic review

Renal angiomyolipomata associated with tuberous sclerosis complex are often bilateral, multiple and progressive. They cause significant morbidity and mortality in older children and adults. Surveillance and pre-emptive treatment reduce this risk. Recent research suggests treatment with mammalian target of rapamycin inhibitors is better at preventing bleeding, recurrence, and preserving renal function than percutaneous embolization.
Slow growth in the United States of the number of minorities in the RN workforce.

PURPOSE To assess the extent to which the number of minority RNs has grown during the past 20 years, and to identify and compare key trends in personal and professional characteristics among minority groups and between minority and majority populations of RNs. Nursing education programs, employers, philanthropic organizations, and governments have expended considerable effort and resources to increase the number of minorities in nursing. DESIGN Longitudinal analysis of trends in the number, education, employment, and earnings of minority RNs from 1977 to 1997. METHODS Descriptive analysis of data from the U.S. National Sample Surveys of the Population of Registered Nurses, 1977-1996; and data from the U.S. Bureau of the Census Current Population Survey (CPS) Outgoing Rotation Group Annual Merged Files, 1977-1997. FINDINGS In the past 20 years, the number of minority RNs has grown from 87,386 (or 6.3% of the total supply of RNs) in 1977 to 246,364 RNs (9.7%) in 1996. The number of Black (nonHispanic), Asian Pacific/Islanders, and American Indian/Alaskan Native nurses nearly tripled in this period while the number of Hispancis doubled. Although these rates of growth are impressive, the percentage of minorities in nursing lags considerably behind the percentage (18.3%) who are teachers, and the percentage (28.2%) in the U.S. population. CONCLUSIONS Studies are needed to determine the barriers that exist in nursing education programs, health care organizations, and society in general that deter minorities from a nursing career. Without this understanding, efforts to design and implement ideas to attract, educate, and retain minorities in nursing education and later in the workplace are hampered.
Scout-view assisted interior micro-CT

Micro computed tomography (micro-CT) is a widely-used imaging technique. A challenge of micro-CT is to quantitatively reconstruct a sample larger than the field-of-view (FOV) of the detector. This scenario is characterized by truncated projections and associated image artifacts. However, for such truncated scans, a low resolution scout scan with an increased FOV is frequently acquired so as to position the sample properly. This study shows that the otherwise discarded scout scans can provide sufficient additional information to uniquely and stably reconstruct the interior region of interest. Two interior reconstruction methods are designed to utilize the multi-resolution data without significant computational overhead. While most previous studies used numerically truncated global projections as interior data, this study uses truly hybrid scans where global and interior scans were carried out at different resolutions. Additionally, owing to the lack of standard interior micro-CT phantoms, we designed and fabricated novel interior micro-CT phantoms for this study to provide means of validation for our algorithms. Finally, two characteristic samples from separate studies were scanned to show the effect of our reconstructions. The presented methods show significant improvements over existing reconstruction algorithms.
Noncontact, low‐frequency ultrasound as an effective therapy against Pseudomonas aeruginosa–infected biofilm wounds

Bacterial biofilms, a critical chronic wound mediator, remain difficult to treat. Energy‐based devices may potentially improve healing, but with no evidence of efficacy against biofilms. This study evaluates noncontact, low‐frequency ultrasound (NLFU) in the treatment of biofilm‐infected wounds. Six‐millimeter dermal punch wounds in rabbit ears were inoculated with 107 colony‐forming units of Pseudomonas aeruginosa or left as sterile controls. A biofilm was established in vivo using our published model. NLFU treatment was carried out every other day or every day, with contralateral ear wounds acting as internal, untreated controls. Wounds were harvested for several quantitative endpoints and scanning electron microscopy to evaluate the biofilm structure. The P. aeruginosa biofilm consistently impaired wound epithelialization and granulation. NLFU, both every other day and every day, improved healing and reduced bacterial counts relative to untreated controls (p < 0.05). Scanning electron microscopy confirmed a qualitative decrease in bacteria after both treatments. NLFU also reduced inflammatory cytokine expression (p < 0.05). Our study suggests that NLFU is an effective therapy against P. aeruginosa wound biofilm. This represents the first in vivo evidence of energy‐based modalities' impact on wound biofilm, setting the foundation for future mechanistic studies. Continued wound care technology research is essential to improving our understanding, and treatment, of biofilm‐infected chronic wounds.
Perceived Stress and Support of the Chinese Postpartum Ritual “Doing the Month”

Abstract “Doing the month” is the traditional ritual for Chinese postpartum women. A qualitative study involving in-depth interviews with 20 Hong Kong Chinese women was conducted to examine the women's perceptions of stress and support in “doing the month. ” Four central themes were identified as follows: bound by the environmental constraints, difficulties in following the proscriptions of the rituals, conflicts between the parties involved, and attainment of the maternal role. The study revealed that “doing the month” is not necessarily protective and supportive of the postpartum women. It raises the critical question of how women can adapt the ritual to fit modern life. The study findings suggest that midwives and health care providers should provide culturally appropriate advice for new mothers. Suggestions are given on bridging the gap between traditional and modern postpartum practices.
Primary structure of the adult human skeletal muscle voltage‐dependent sodium channel

The gene encoding the principal voltage‐dependent sodium channel expressed in adult human skeletal muscle (SCN4A) has recently been linked to the pathogenesis of human hyperkalemic periodic paralysis and paramyotonia congenita. We report the cloning and nucleotide sequence determination of the normal product of this gene. The 7,823 nucelotide complementary DNa, designated hSkM1, encodes a 1,836 amino acid protein that exhibits 92% identity with the tetrodotoxin‐senstive rat skeletal muscle sodium channel alpha subunit, but lower homology with either the human heart sodium channel or with other sodium channels from immature rat muscle or rat brain. Specific hSkM1 RNA trasnscripts are expressed in adult human skeletal muscle but not in heart, brain, or uterus. The SCN4A gene product, hSkM1, is the human homologue of rSkM1, the tetrodotoxin‐sensitive sodium channel characteristic of adult rat skeletal muscle. This structural information should provide the necessary backdrop for identifying and evaluating mutations affecting the function of this channel in the periodic paralyses.
Histological Determination of the Human Origin of Bone Fragments

Abstract: A frequently encountered task in the forensic scenario is verification of the human origin of severely degraded fragments of bone. In these cases histological methods which consider osteon size and morphology can prove to be useful. The authors in the present study verify the applicability of published algorithms to flat and subadult bones from human, dog, cat, cow, rabbit, sheep, pig, chicken, quail, and turkey samples. Metric analysis was performed on 2031 Haversian canals. Analyses carried out on human samples confirmed a success rate of around 70% on long adult bones; however the percentage of wrong answers was particularly high in the case of newborns and older subadults as well as on flat bones in general. Results therefore suggest that such regression equations should be limited only to bone fragments from long adult bones.
Identification of Mycobacterium tuberculosis Ornithine Carboamyltransferase in Urine as a Possible Molecular Marker of Active Pulmonary Tuberculosis

ABSTRACT Although the antigen detection assay has the potential to discriminate active tuberculosis from latent infection, development of such a test for the accurate diagnosis of this serious disease has only recently become a matter of interest. Here we present evidence that a Mycobacterium tuberculosis protein (ornithine carboamyltransferase, coded for by MT_1694; Rv1656 [argF]) is an interesting candidate molecule for this test development. The protein was initially discovered by mass spectroscopy in urine of patients with pulmonary tuberculosis and shown by Western blot analysis to be present in M. tuberculosis crude cell extract as well as in the culture supernatant (“secreted” protein). In addition, a recombinant ornithine carboamyltransferase (rMT1694) produced in Escherichia coli was recognized by immunoglobulin G (IgG) antibodies from patients with active tuberculosis but not by IgG from uninfected healthy subjects. Moreover, rMT1694 was strongly recognized by peripheral blood mononuclear cells from both healthy tuberculin purified protein derivative (PPD)-positive individuals and patients with pulmonary tuberculosis. More importantly, a capture enzyme-linked immunosorbent assay formatted with rabbit IgG antibodies specific to rMT1694 was able to identify the presence of this antigen in urine samples from 6 of 16 patients with pulmonary tuberculosis and in none of 16 urine samples collected from healthy PPD+ controls. These results indicate that an improved antigen detection assay based on M. tuberculosis ornithine carboamyltransferase may represent an important new strategy for the development of a specific and accurate diagnostic test for tuberculosis.
Robust Ordinal Regression

Within disaggregation–aggregation approach, ordinal regressionaims at inducing parameters of a preference model, for example, parameters of a value function, which represent some holistic preference comparisons of alternatives given by the Decision Maker (DM). Usually, from among many sets of parameters of a preference model representing the preference information given by the DM, only one specific set is selected and used to work out a recommendation. For example, while there exist many value functions representing the holistic preference information given by the DM, only one value function is typically used to recommend the best choice, sorting, or ranking of alternatives. Since the selection of one from among many sets of parameters compatible with the preference information given by the DM is rather arbitrary, robust ordinal regressionproposes taking into account all the sets of parameters compatible with the preference information, in order to give a recommendation in terms of necessary and possible consequences of applying all the compatible preference models on the considered set of alternatives. In this chapter, we present the basic principle of robust ordinal regression, and the main multiple criteria decision methods to which it has been applied. In particular, UTA GMS and GRIPmethods are described, dealing with choice and ranking problems, then UTADIS GMS , dealing with sorting (ordinal classification) problems. Next, we present robust ordinal regression applied to Choquet integral for choice, sorting, and ranking problems, with the aim of representing interactions between criteria. This is followed by a characterization of robust ordinal regression applied to outranking methods and to multiple criteria group decisions. Finally, we describe an interactive multiobjective optimization methodology based on robust ordinal regression, and an evolutionary multiobjective optimization method, called NEMO, which is also using the principle of robust ordinal regression.