Miracle-dz/UniFAR-FTUs huggingface dataset:
Simvastatin Induces Apoptosis and Suppresses Insulin-Like Growth Factor 1 Receptor in Bile Duct Cancer Cells

Background/Aims Statins act as antineoplastic agents through the inhibition of cell proliferation. This study sought to demonstrate the effects of statins on extrahepatic bile duct cancer cell apoptosis and to document the changes in protein expression involved in tumor growth and suppression. Methods Human extrahepatic bile duct cancer cells were cultured. 3-(4,5-Dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assays were performed to determine the effect of statins on cell proliferation. Apoptosis was measured by a cell death detection enzyme-linked immunosorbent assay and caspase-3 activity assay, and flow cytometry was used to determine the percentage of cells in each phase of the cell cycle. The protein expression of Bax, Bcl-2, insulin-like growth factor 1 (IGF-1) receptor, extracellular signal-regulated kinase 1/2 (ERK1/2), and Akt was measured by Western blot analysis. Results Simvastatin suppressed cell proliferation by inducing G1 phase cell cycle arrest in bile duct cancer cells. Furthermore, it induced apoptosis via caspase-3 activation, downregulated the expression of the Bcl-2 protein, and enhanced the expression of the Bax protein. Moreover, simvastatin suppressed the expression of the IGF-1 receptor and IGF-1-induced ERK/Akt activation. Conclusions Simvastatin induces apoptosis in bile duct cancer cells, which suggests that it could be an antineoplastic agent for bile duct cancer.
A 3D Numerical Model of Nearshore Wave-Induced Currents Based on the Discontinuous Galerkin Method

Based on the discontinuous Galerkin methods, the concept of three-dimensional radiation stress, surface roller and wave turbulent mixing effects were applied to develop the three-dimensional, unstructured grids numerical model for wave-induced currents. Validation of the model was carried out by comparing the model simulation with laboratory measurements for wave-induced currents over a slope, e.g. Undertow and long shore currents. The model results showed that the agreement between the simulated results and the laboratory measurements is generally good, the proposed model could be used to describe three-dimensional wave induced currents in near shore zone.
Protective effect of rosuvastatin treatment by regulating oxidized low-density lipoprotein expression in a rat model of liver fibrosis

The present study aimed to evaluate the protective effect of rosuvastatin treatment on the mechanism of oxidized low-density lipoprotein (Ox-LDL) in rats with liver fibrosis. In total, 72 male Sprague-Dawley rats were divided into 3 groups: 24 in the control group (A), 24 in the obstructive jaundice models group (B) and 24 in the rosuvastatin group (C). Each group was further divided into four subgroups for assessment at different time-points. The obstructive jaundice models were established and rosuvastatin was administered by gavage. Liver fibrosis indicators, Ox-LDL, malonaldehyde (MDA) and superoxide dismutase (SOD), were measured and liver pathological changes were observed at weeks 1, 2, 3 and 4 after model induction. In groups B and C, the rat models were successfully established, and there were significant changes in the expression of Ox-LDL and the three liver fibrosis indicators when compared to group A (P<0.01). However, the expression of Ox-LDL and the three liver fibrosis indicators in group C were decreased compared with group B (P<0.05), while SOD increased (P<0.05) and MDA decreased (P<0.05). The three liver fibrosis indicators were different in comparison to group B (P<0.05). Thus, there appeared to be an association between the expression of Ox-LDL and liver fibrosis. Treatment with rosuvastatin could regulate the expression of Ox-LDL and improve liver fibrosis in rat models with obstructive jaundice.
Comparison of topical oxybuprocaine and intravenous fentanyl in pediatric strabismus surgery

Purpose: To compare the outcomes such as postoperative nausea/vomiting, analgesic requirements, and hospital stay following the use of topical oxybuprocaine hydrochloride 0.4% or intravenous (IV) fentanyl in children undergoing strabismus surgery. Methods: This was a prospective cohort study. Children operated under general anesthesia for strabismus were given topical oxybuprocaine hydrochloride 0.4% (Group T) and IV fentanyl (Group F) before surgery. The episodes of nausea/vomiting, pain score, requirement of additional analgesia during postoperative period, and duration of hospital stay were compared in two groups. Results: There were 47 children in Group T and 59 children in Group F. The median pain score in two groups were 2.38 (25% quartile; 2.0) and 3.00 (25% quartile; 3.00), respectively. The difference was significant (K W P < 0.03). The episodes of nausea/vomiting in two groups were in 2 and 6 children in Group T and Group F, respectively. The median hospital stay of children of Group T and Group F were 242 and 285 min, respectively. The difference was not statistically significant (P = 0.22). Conclusions: Using intraoperative topical oxybuprocaine drops, one can achieve better analgesic outcomes and reduce risk of nausea and vomiting compared to intravenous opioid analgesics and therefore, the hospital stay could also be marginally reduced.
Do Natural T Regulatory Cells become Activated to Antigen Specific T Regulatory Cells in Transplantation and in Autoimmunity?

Antigen specific T regulatory cells (Treg) are often CD4+CD25+FoxP3+ T cells, with a phenotype similar to natural Treg (nTreg). It is assumed that nTreg cannot develop into an antigen specific Treg as repeated culture with IL-2 and a specific antigen does not increase the capacity or potency of nTreg to promote immune tolerance or suppress in vitro. This has led to an assumption that antigen specific Treg mainly develop from CD4+CD25−FoxP3− T cells, by activation with antigen and TGF-β in the absence of inflammatory cytokines such as IL-6 and IL-1β. Our studies on antigen specific CD4+CD25+ T cells from animals with tolerance to an allograft, identified that the antigen specific and Treg are dividing, and need continuous stimulation with specific antigen T cell derived cytokines. We identified that a variety of cytokines, especially IL-5 and IFN-γ but not IL-2 or IL-4 promoted survival of antigen specific CD4+CD25+FoxP3+ Treg. To examine if nTreg could be activated to antigen specific Treg, we activated nTreg in culture with either IL-2 or IL-4. Within 3 days, antigen specific Treg are activated and there is induction of new cytokine receptors on these cells. Specifically nTreg activated by IL-2 and antigen express the interferon-γ receptor (IFNGR) and IL-12p70 (IL-12Rβ2) receptor but not the IL-5 receptor (IL-5Rα). These cells were responsive to IFN-γ or IL-12p70. nTreg activated by IL-4 and alloantigen express IL-5Rα not IFNGR or IL-12p70Rβ2 and become responsive to IL-5. These early activated antigen specific Treg, were respectively named Ts1 and Ts2 cells, as they depend on Th1 or Th2 responses. Further culture of Ts1 cells with IL-12p70 induced Th1-like Treg, expressing IFN-γ, and T-bet as well as FoxP3. Our studies suggest that activation of nTreg with Th1 or Th2 responses induced separate lineages of antigen specific Treg, that are dependent on late Th1 and Th2 cytokines, not the early cytokines IL-2 and IL-4.
Late endosomal Rab7 regulates lysosomal trafficking of endocytic but not biosynthetic cargo in Trypanosoma brucei

We present the first functional analysis of the small GTPase, TbRab7, in Trypanosoma brucei. TbRab7 defines discrete late endosomes closely juxtaposed to the terminal p67+ lysosome. RNAi indicates that TbRab7 is essential in bloodstream trypanosomes. Initial rates of endocytosis were unaffected, but lysosomal delivery of cargo, including tomato lectin (TL) and trypanolytic factor (TLF) were blocked. These accumulate in a dispersed internal compartment of elevated pH, likely derived from the late endosome. Surface binding of TL but not TLF was reduced, suggesting that cellular distribution of flagellar pocket receptors is differentially regulated by TbRab7. TLF activity was reduced approximately threefold confirming that lysosomal delivery is critical for trypanotoxicity. Unexpectedly, delivery of endogenous proteins, p67 and TbCatL, were unaffected indicating that TbRab7 does not regulate biosynthetic lysosomal trafficking. Thus, unlike mammalian cells and yeast, lysosomal trafficking of endocytosed and endogenous proteins occur via different routes and/or are regulated differentially. TbRab7 silencing had no effect on a cryptic default pathway to the lysosome, suggesting that the default lysosomal reporters p67ΔTM, p67ΔCD and VSGΔGPI do not utilize the endocytic pathway as previously proposed. Surprisingly, conditional knockout indicates that TbRab7 may be non‐essential in procyclic insect form trypanosomes.
CAM: A Mobile Interaction Framework for Digitizing Paper Processes in the Developing World

During our work with community microfinance groups in rural India, we found that paper plays a crucial role in many local information practices. However, paper-based recordkeeping can be inefficient, so we need to link paper with the flexibility of modern information tools. A mobile phone can be the perfect bridging device. Here we present the CAM mobile document processing system, in which a camera phone is used as an image capture and data entry device. Our system is able to process paper forms containing CamShell programs - embedded instructions that are decoded from an electronic image. By combining 1) paper, 2) audio, 3) numeric data entry, 4) narrative scripted execution and 5) asynchronous connectivity, we have synthesized our experience into a system that we believe is well-suited for an important set of users and applications in the developing world.
Apoptosis in Living Animals Is Assisted by Scavenger Cells and Thus May Not Mainly Go through the Cytochrome C-Caspase Pathway

Because billions of cells die every day in their bodies, animals have evolutionarily developed apoptosis to preserve the tissue environment from adverse effects of dead cells, a process achieved via phagocytosis of the cell corpses by professional or amateur phagocytes that are collectively referred to as scavengers. Hence, apoptosis is a merger of two procedures separately occurring inside the dying and the scavenger cells, respectively. The task of apoptosis research is to study how these death procedures occur without hurting the host tissues, and recruitment of in vitro system into the study must be justified for this purpose. Cells in culture have no motivation to preserve the environment, and their death does not involve corpse clearance by scavengers. Therefore, programmed cell death in culture should be redefined, for example as stress-induced cell death, to avoid many sources of confusions, since the word “apoptosis” had already been defined, prior to the era of cell culture, as a silent and beneficial cell suicide with corpse clearance as a distinctive hallmark. We should start over again on apoptosis research by determining whether different physiological apoptotic procedures in animals involve the cytochrome c-caspase pathway, since it has been established from cultured cells as a central mechanism of “apoptosis” but whether it overarches any physiological apoptotic procedure in animals is still unclear. Probably, cells in living animals are programmed to use scavengers to assist their apoptosis but cells in culture have no scavengers to help and thus need to go mainly through the cytochrome c-caspase pathway.
Investigating Non-Specialist Elementary Music Teachers' Self-Efficacy and Perspectives on Music Instruction

The current situation of music education has many difficulties, one being an insufficient amount of qualified music teachers. As a result, many generalist teachers have to teach music with little to no musical background. In response to such disparity of qualifications, the aim of this present qualitative research study is to discover how non-specialist elementary music teachers are teaching quality music education to their students and how to learn from them what experiences and resources helped develop their confidence and competence for teaching music education. Data was collected through semi-structured interviews with two elementary school teachers that are teaching quality music programs with little musical background. Based on these teachers‘ experiences, four main themes have emerged: non-specialized music teachers produced meaningful learning by promoting an inclusive environment that is informed by a variety of professional resources, they addressed various challenges encountered when teaching music, they acknowledged drawing upon supports made available to them both within and outside the school setting, and they recognized their passion and creativity as key elements to strengthen their music program. The implications of these findings suggest that more support needs to be available for non-specialist music teachers, which may include the support of the principal.
Preferential Nucleosome Occupancy at High Values of DNA Helical Rise

Nucleosomes are the basic structural units of eukaryotic chromatin and play a key role in the regulation of gene expression. Nucleosome formation depends on several factors, including properties of the sequence itself, but also physical constraints and epigenetic factors such as chromatin-remodelling enzymes. In this view, a sequence-dependent approach is able to capture a general tendency of a region to bind a histone octamer. A reference data set of positioned nucleosomes of Saccharomyces cerevisiae was used to study the role of DNA helical rise in histone–DNA interaction. Genomic sequences were transformed into arrays of helical rise values by a tetranucleotide code and then turned into profiles of mean helical rise values. These profiles resemble maps of nucleosome occupancy, suggesting that intrinsic histone–DNA interactions are linked to helical rise. The obtained results show that preferential nucleosome occupancy occurs where the mean helical rise reaches its largest values. Mean helical rise profiles obtained by using maps of positioned nucleosomes of the Drosophila melanogaster and Plasmodium falciparum genomes, as well as Homo sapiens chromosome 20 confirm that nucleosomes are mainly located where the mean helical rise reaches its largest values.
Continuing Bonds and Psychosocial Functioning in a Recently Bereaved Pet Loss Sample

ABSTRACT Research has shown that pet loss can be a devastating and complex experience for some human survivors, yet this loss may not be fully recognized by friends, partners, or acquaintances as a significant bereavement. The objectives of the current study were to consider how continuing bonds (CB) expressions relate to psychosocial functioning and to identify perceived social constraints as well as areas of resilience associated with efforts to cope with recent pet loss. Through an anonymous online survey, participants (n = 4,336) who had lost a pet to death within the past year were recruited via bereavement support groups and associated websites across the US. Findings in this severely bereaved sample demonstrated the utilization of a wide range of CB (e.g., reflecting on fond memories, holding onto possessions), which were experienced as comforting or distressing to varying extents across the sample. In addition, social constraints were associated with more negative mental health and functional outcomes, while post traumatic growth was in some cases associated with lower mental health and functional complaints. Results are discussed in terms of similarities in patterns of bereavement in human and pet loss samples as well as the importance of considering likely idiosyncratic patterns of response to loss. For example, distress and comfort associated with different efforts to maintain a connection to a deceased pet may occur simultaneously. Given the cross-sectional nature of the current study, experimental and longitudinal research is recommended to determine whether increasing CB efforts experienced as comforting may be a potentially adaptive, growth-enhancing aspect of bereavement.
The Complex Core of Abell 2199: The X-Ray and Radio Interaction

The cluster Abell 2199 is one of the prototypical "cooling flow" clusters. Its central cD galaxy is host to a steep spectrum radio source of the type associated with cooling cores. In this paper, we combine radio data with new ROSAT HRI data to show that conditions in its inner core, ≲50 kpc, are complex and interesting. Energy and momentum flux from the radio jet have been significant in the dynamics of the gas in the core. In addition, the Faraday data detects a dynamically important magnetic field there. The core of the X-ray luminous gas is not a simple, spherically symmetric cooling inflow. In addition, we believe the X-ray gas has had strong effects on the radio source. It seems to have disrupted the jet flow, which has led to a dynamical history very different from the usual radio galaxy. This particular source is much younger than the galaxy, which suggests the disruptive effects lead to an on-off duty cycle for such sources.
Applications of Machine Learning Methods to Predict Readmission and Length-of-Stay for Homeless Families: The Case of Win Shelters in New York City

ABSTRACT New York City faces the challenge of an ever-increasing homeless population with almost 60,000 people currently living in city shelters. In 2015, approximately 25% of families stayed longer than nine months in a shelter, and 17% of families with children that exited a homeless shelter returned to the shelter system within 30 days of leaving. This suggests that “long-term” shelter residents and those that re-enter shelters contribute significantly to the rise of the homeless population living in city shelters and indicate systemic challenges to finding adequate permanent housing. This article focuses on our preliminary work with Win (Women-in-Need) shelters to understand the factors that predict readmission and length-of-stay of homeless families. We create a unified, comprehensive database of the homeless population being served by Win shelters, accounting for more than 6,000 homeless families. We apply logistic regression models and an unsupervised clustering algorithm to identify predictors of re-entry and long-term length-of-stay. Citizenship, age, medical conditions, employment, and history of foster care or shelter stays as a child are found to be significant predictors. The results of the K-means clustering identify three primary groups, consistent with previous typologies characterized by transitionally homeless, episodically homeless, and chronically homeless.
Complex Scapular Winging following Total Shoulder Arthroplasty in a Patient with Ehlers-Danlos Syndrome

This is a unique case of a female patient with features of classical and hypermobile types of Ehlers-Danlos syndrome (EDS) who developed complex scapular winging from spinal accessory and long thoracic neuropathies. These neurological problems became manifest after an uncomplicated total shoulder arthroplasty (TSA). The patient had a complex postoperative course with extensive work-up in addition to revision shoulder surgery and manipulations to treat shoulder stiffness. It was eventually suspected that the periscapular nerve impairments occurred during physical therapy sessions after her TSA. This interpretation was further supported by genetic evidence that, in addition to EDS, the patient had an unrecognized genetic propensity for nerve palsies from stretch or pressure (“hereditary neuropathy with liability to pressure palsies” (HNPP)). By two years after the TSA the neuropathies had only partially improved, leaving the patient with persistent scapular winging and shoulder weakness. With this case we alert surgeons and physical therapists that patients with EDS can have not only a complicated course after TSA, but rare concurrent conditions that can further increase the propensity of neurological injuries that result in compromised shoulder function.
Physical Limitation and Emotional Well-Being

Despite the proliferation of studies documenting the relationship between physical limitation and depressive symptoms in the United States, we currently do not know (1) whether physical impairment is associated with other dimensions of emotional well-being and (2) if these associations differ for men and women as well as married and nonmarried adults. We use panel data from two national samples to examine gender and marital status variations in the impact of physical limitation on four indicators of mental health. We find that physical limitation is associated with increases in depressive symptoms and negative feelings as well as decreases in positive emotions. Although the patterns are complex, we also find gender and marital status differences in these associations. Our results provide additional support for Aneshensel’s (1992; Aneshensel, Rutter, and Lachenbruch 1991) argument about the highly contingent nature of stress reactivity and contribute to theory about both gender and marital status differences in the impact of stress on mental health.
A functional glycogen biosynthesis pathway in Lactobacillus acidophilus: expression and analysis of the glg operon

Glycogen metabolism contributes to energy storage and various physiological functions in some prokaryotes, including colonization persistence. A role for glycogen metabolism is proposed on the survival and fitness of Lactobacillus acidophilus, a probiotic microbe, in the human gastrointestinal environment. L. acidophilus NCFM possesses a glycogen metabolism (glg) operon consisting of glgBCDAP‐amy‐pgm genes. Expression of the glg operon and glycogen accumulation were carbon source‐ and growth phase‐dependent, and were repressed by glucose. The highest intracellular glycogen content was observed in early log‐phase cells grown on trehalose, which was followed by a drastic decrease of glycogen content prior to entering stationary phase. In raffinose‐grown cells, however, glycogen accumulation gradually declined following early log phase and was maintained at stable levels throughout stationary phase. Raffinose also induced an overall higher temporal glg expression throughout growth compared with trehalose. Isogenic ΔglgA (glycogen synthase) and ΔglgB (glycogen‐branching enzyme) mutants are glycogen‐deficient and exhibited growth defects on raffinose. The latter observation suggests a reciprocal relationship between glycogen synthesis and raffinose metabolism. Deletion of glgB or glgP (glycogen phosphorylase) resulted in defective growth and increased bile sensitivity. The data indicate that glycogen metabolism is involved in growth maintenance, bile tolerance and complex carbohydrate utilization in L. acidophilus.
Fault-tolerant application placement in heterogeneous cloud environments

The Internet of Things (IoT) has inspired a myriad of real-time applications, such as robotics and human-machine interaction. Many IoT applications have significant computational requirements, while at the same time they demand very low latencies. The cloud can provide the needed resources on-demand, however often fails to meet these timing requirements. Low response time can only be realized by having computational infrastructure in close vicinity. Therefore we investigate to what extent the cloud can be extended in the direct wireless surroundings of the IoT devices. This environment is highly heterogeneous as it comprises a wide variety of devices, connected using a plethora of technologies (both wired and wireless). A direct implication is that, compared to traditional cloud infrastructure, many of those nodes and links are likely to fail. We propose an application placement that can overcome failure-related challenges. We demonstrate that availability-awareness can increase the number of applications that can be hosted simultaneously by 132%. Furthermore we find that an additional increase of 54% can be realized through redundant provisioning of resources.