Miracle-dz/UniFAR-FTUs huggingface dataset:
Mathematical analysis of antigen selection in somatically mutated immunoglobulin genes associated with autoimmunity

Affinity maturation is a process by which low-affinity antibodies are transformed into highly specific antibodies in germinal centres. This process occurs by hypermutation of immunoglobulin heavy chain variable (IgH V) region genes followed by selection for high-affinity variants. It has been proposed that statistical tests can identify affinity maturation and antigen selection by analysing the frequency of replacement and silent mutations in the complementarity determining regions (CDRs) that contact antigen and the framework regions (FRs) that encode structural integrity. In this study three different methods that have been proposed for detecting selection: the binomial test, the multinomial test and the focused binomial test, have been assessed for their reliability and ability to detect selection in human IgH V genes. We observe first that no statistical test is able to identify selection in the CDR antigen-binding sites, second that tests can reliably detect selection in the FR and third that antibodies from nasal biopsies from patients with Wegener’s granulomatosis and pathogenic antibodies from systemic lupus erythematosus do not appear to be as stringently selected for structural integrity as other groups of functional sequences.
Mestizaje Ideology as Color-Blind Racism: Students' discourses of colorism and racism in Mexico

This study will open the discourse on inequity and its maintenance through colorism in Mexico. The largest percent of the population is a mixture of indigenous and Spanish descent. This is where racism via colorism occurs. Considered only as one group, mestizos of a lighter skin color have more resemblance to being of white Spanish descent and therefore are accepted over mestizos of darker skin color, who have a resemblance to indigenous people. Racism is scarcely documented in Mexico. It is systematically embedded in political, cultural and economic practices; and therefore limits democratic and inclusive practices for all. Working with high school and college students, this study will uncover students' experiences with colorism and racism by focusing on the ways in which everyday practices maintain a system of inequality. Mestizaje Ideology as Color-Blind Racism: Students' discourses of colorism and racism in Mexico by Yvonne A. Perez Lopez B.A. University of Arizona, 2005 M.A. University of Arizona, 2007 Dissertation Submitted in partial fulfillment of requirements for the degree of Doctor of Philosophy in Cultural Foundations of Education Syracuse University August 2017 Copyright © Yvonne A. Perez Lopez All rights reserved
A Shadow Rate Without a Lower Bound Constraint

We propose a shadow rate that measures the expansionary (contractionary) interest rate effects of unconventional monetary policies that are present when the lower bound is not binding. Using daily yield curve data we estimate shadow rates for the US, Sweden, the euro-area and the UK, and find that they fall (rise) when market participants expect monetary policy to become more expansionary (contractionary), and price this information into the yield curve. This ability of the shadow rate to track the stance of monetary policy is identified on announcements of policy rate cuts (hikes), balance sheet expansions (contractions) and forward guidance, with shadow rates responding timely, and in line with government bond yields. We show two applications for our shadow rate. First, we decompose shadow rate responses to monetary policy announcements into conventional and unconventional monetary policy surprises, and assess the pass-through of each type of policy to exchange rates. We find that exchange rates respond more to conventional than to unconventional monetary policy. Lastly, a counterfactual experiment in a DSGE model suggests that inflation in Sweden would have been around 0.47 percentage points lower had the Riksbank not used unconventional monetary policy since February 2015.
Birth Weight Is Inversely Correlated to Adult Systolic Blood Pressure and Pulse Pressure in Type 1 Diabetes

In the general population, there is an inverse relationship between birth weight and adult systolic blood pressure. Because blood pressure in diabetic patients at least in part seems to be regulated by different mechanisms than in nondiabetic subjects, it is not known whether a similar correlation exists in diabetic individuals. Therefore, we obtained data on birth weight from original birth certificates in 1543 type 1 diabetic patients. Blood pressure was measured auscultatorily on a single occasion. In the 1225 patients born at term (after 37 weeks of gestation), the age- and sex-adjusted regression coefficients between systolic blood pressure and birth weight was −1.90 mm Hg/kg (95% confidence interval [CI], −3.71 to −0.09). The finding remained unchanged after adjustment for body mass index, current smoking, duration of diabetes, social class, antihypertensive therapy, glomerular filtration rate, glycemic control, and elevated albuminuria. The regression coefficient between birth weight and pulse pressure was of a similar magnitude. The age-adjusted regression coefficient between systolic blood pressure and birth weight seemed stronger in females (−3.34 mm Hg/kg; 95% CI, −6.06 to −0.62) than in males (−0.42 mm Hg/kg; 95% CI, −2.80 to 1.95), although this difference was not statistically significant. As a new finding, we report an inverse relationship between weight at birth and systolic blood pressure and pulse pressure in adult type 1 diabetic patients. Given the deleterious effects of elevated arterial blood pressure in diabetes, the impact of intrauterine growth retardation on the development of end-organ damage needs to be clarified.
Conditioned responses in courtship behavior of normal and mutant Drosophila.

Male courtship behaviour in Drosophila melanogaster is modified by prior sexual experience. Whereas naive males nearly always court virgin females persistently, males previously paired with unreceptive fertilized females subsequently court virgin females in an abbreviated manner, if at all. The probability of diminished male courtship is directly related to the duration of the prior "conditioning" period with a fertilized female. Naive males court fertilized females less vigorously than they court virgins; this depression of male behavior occurs even if the male is blind or if the fertilized female cannot actively reject his courtship. These results suggest that fertilized females are a source of both courtship-provoking and courtship-inhibiting olfactory cues and that the central association of these cues in males is sufficient to bring about the retention of modified courtship behavior. Mutant "amnesiac" males, selected as memory-deficient in a learning test unrelated to courtship [Quinn, W. G. , Sziber, P. P. & Booker, R. (1979) Nature (London) 277, 212-214], are trainable by exposure to fertilized females, but the experience-dependent behavior-diminished courtship performance-wanes abnormally rapidly-i.e., less than 1 hour, compared to 2-3 hr for wild-type flies.
Cryopreservation in Assisted Reproductive Technology: New Trends

During the last few years, cryopreservation has become a relevant addition to therapeutic concepts in reproductive medicine. New data and publications have made it difficult to maintain an overview of all of the new developments and their results. The focus of interest more recently, especially with the cryopreservation of human oocytes and human ovarian tissue, has been vitrification as an interesting alternative to slow freezing methods. Even though studies investigating the slow freezing of human mature oocytes have resulted in very different survival rates, it could be an option for donor oocyte programs, in the case of threatened ovarian loss or when there is an objection to embryo freezing. An optimal freezing protocol and later use of thawed human ovarian tissue is still a point of discussion. There are encouraging results regarding different kinds of autotransplantation, and recently the first birth after orthotopic autotransplantation of cryopreserved/thawed human ovarian tissue was described in the literature. Independent of any objections to cryopreservation in general, vitrification is a potential and effective alternative to conventional slow cryopreservation, especially for oocytes and embryos. Vitrification might be also be an option for human ovarian tissue; however this is only in its infancy and requires much additional investigation. Our article discusses new trends and results of actual studies regarding these issues.
Extracting Mobility Degradation and Total Series Resistance of Cylindrical Gate-All-Around Silicon Nanowire Field-Effect Transistors

The mobility-degradation factor and the series resistance of cylindrical gate-all-around silicon nanowire field-effect transistors are extracted using the same mobility-degradation model as in the case of planar MOSFETs. The extraction is done by defining an asymptotic voltage as a function of the saturation current measured from devices with various lengths. The extracted mobility-degradation factor is an order of magnitude larger than those of other planar MOSFETs. This result suggests that, while the all-around gate can turn off the electron channel effectively, it creates more interface scattering in the strong inversion condition. The extracted series resistance is mostly due to the crowding of the electron flow along the sidewall of the n+ contact region making an abrupt joint with the nanowire.
Pulsed-Field Magnetization of Superconducting Tape Stacks for Motor Applications

The potential of (RE)BCO superconducting bulks in rotating machine designs has been explored through numerous experimental prototypes, with the bulks being magnetized to act as held poles. However, stacks of superconducting tapes have emerged as a promising alternative for trapped held magnets partly because of their suitability for the pulsed-field method of magnetization, which is considered the most practical method of trapping flux. The benefits of using a stack of tapes as rotor held poles suitable for motors are reported. The ability to have a long rectangular stack allows for motor designs with more efficient held poles in terms of the flux produced per unit area of the pole and easy scalability. Such a rectangular stack was experimentally magnetized for the first time using a race-track-shaped pulsed-held coil giving a highly uniform and well-defined trapped held. The unique self-supporting 120 mm by 12 mm stack was produced by compressing a high-temperature-superconducting tape coated with a thin layer of solder. Shorter rectangular stacks were pulse magnetized over a temperature range of 10-77 K using a fully automated pulsed magnetization system.
Plasma long‐chain fatty acids and the degree of obesity in Italian children

Aim: To examine whether the plasma levels of long‐chain polyunsaturated fatty acids (LC‐PUFAs) are associated with the degree of obesity in children. Methods: Sixty‐seven normolipidaemic obese children, aged 8–12 y, and 67 age‐ and sex‐matched normal‐weight children were included in the study. Obesity was defined in accordance with the International Obesity Task Force. BMI z‐scores were calculated. Fasting blood samples were analysed for insulin, glucose, lipid profile and fatty acid (FA) levels (expressed as % total FA). Insulin resistance was estimated by homeostatic model assessment (HOMA). Results: Compared with normal‐weight children, obese children exhibited lower mean plasma total PUFA (37.8% vs 39.7%), ω‐6 PUFAs (35.0% vs 36.8%) and C22:6 ω‐3‐to‐C18:3 ω‐3 ratio (5.52 vs 7.61), and higher total monounsaturated FA (26.6% vs 25.0%), C18:3 ω‐3 (0.28% vs 0.25%) and C20:5 ω‐3 (0.45% vs 0.39%). In obese children, the BMI z‐score was negatively related to plasma PUFA, ω‐3 PUFAs, C22:6 ω‐3, and the C22:6 ω‐3‐to‐C20:6 ω‐6 and C22:6 ω‐3‐to‐C18:3 ω‐3 ratios, and positively with total saturated FA and C20:3 ω‐9.
Terrorism in Turkey

Abstract Over the past two decades, terrorism has exacted an enormous toll on the Republic of Turkey, a secular democracy with a 99.8% Muslim population. From 1984 to 2000, an estimated 30,000 to 35,000 Turkish citizens were killed by a nearly continuous stream of terrorism-related events. During this period, the Partiya Karekeren Kurdistan (PKK), a Kurdish separatist group (re-named KADEK in 2002), was responsible for the vast majority of terrorism-related events (and casualties), which disproportionately affected the eastern and southeastern regions of Turkey, in which the PKK has focused its activities. Most terrorist attacks over the past two decades have been bombings or shootings that produced <10 casualties per event. From 1984 to 2003, 15 terrorist attacks produced ≥30 casualties (eight shootings, five bombings, and two arsons). The maximum number of casualties produced by any of these events was 93 in the Hotel Madimak arson attack by the Tu r kish Islamic Movement in 1993. This pattern suggests that terrorist attacks in Turkey rarely required more than local systems of emergency medical response, except in rural areas where Emergency Medical Services (EMS) are routinely provided by regional military resources. The last decade has seen the development of several key systems of local emergency response in Turkey, including the establishment of the medical specialty of Emergency Medicine, the establishment of training programs for EMS providers, the spread of a generic, Turkish hospital emergency plan based on the Hospital Emergency Incident Command System, and the spread of advanced training in trauma care modeled after Advanced Trauma Life Support.
Outward FDI and home country economic growth: a Malaysian case

This paper attempts to explore the causality relationship between outward foreign direct investment (OFDI) and home country economic growth using Malaysia as a case. The main findings do not advocate the OFDI-led growth hypothesis. In order to promote OFDI-led growth, the home government should prepare the private sector for increasing competition in the era of globalization so that linkages can be forged with Malaysian multinationals, and to facilitate home sourcing for OFDI activities. However, the study reveals the evidence of growth-led OFDI, which conforms to the investment development path theory that can potentially internationalize business activities of Malaysian firms abroad.
Patient Satisfaction with Awake Craniotomy for Tumor Surgery: A Comparison of Remifentanil and Fentanyl in Conjunction with Propofol

In this study we compared the effectiveness of the use of remifentanil to fentanyl in conjunction with propofol in providing conscious sedation for awake craniotomy for tumor surgery and to assess patient satisfaction with both techniques. The ability to maintain appropriate levels of sedation, adequate analgesia, and hemodynamic stability was assessed in 50 patients randomized to receive either fentanyl or remifentanil. All complications were documented. Patients were interviewed at 1 h, 4 h, and 24 h after surgery to note their recall of procedure and pain and their overall satisfaction. There were no differences in sedation and pain scores or in hemodynamic and respiratory variables between the two groups. The incidence of intraoperative complications was not different (fentanyl, 14; remifentanil, 16). Respiratory complications occurred in 9 (18%) patients (fentanyl 6, remifentanil 3). The recall and satisfaction scores were not different; 93% of all patients were completely satisfied at all interview times. The use of remifentanil infusion in conjunction with propofol is a good alternative to fentanyl and propofol for conscious sedation for the awake craniotomy and these techniques are both well accepted by the patient.
Targeted Gene Deletion Demonstrates that Cell Adhesion Molecule ICAM-4 is Critical for Erythroblastic Island Formation

Erythroid progenitors differentiate in erythroblastic islands, bone marrow niches composed of erythroblasts surrounding a central macrophage. Evidence suggests that within islands adhesive interactions regulate erythropoiesis and apoptosis. We are exploring whether erythroid intercellular adhesion molecule-4 (ICAM-4), an immunoglobulin superfamily member, participates in island formation. Earlier, we identified alpha V integrins as ICAM-4 counterreceptors. Since macrophages express alpha V, ICAM-4 potentially mediates island attachments. To test this, we generated ICAM-4 knockout mice and developed quantitative, live cell techniques for harvesting intact islands and for reforming islands in vitro. We observed a 47 percent decrease in islands reconstituted from ICAM-4 null marrow compared to wild type. We also found a striking decrease in islands formed in vivo in knockout mice. Further, peptides that block ICAM-4 alpha V adhesion pro duced a 53-57 percent decrease in reconstituted islands, strongly suggesting that ICAM-4 binding to macrophage alpha V functions in island integrity. Importantly, we documented that alpha V integrin is expressed in macrophages isolated from erythro blastic islands. Collectively, these data provide convincing evidence that ICAM-4 is critical in erythroblastic island formation via ICAM-4/alpha V adhesion and also demonstrate that the novel experimental strategies we developed will be valuable in exploring molecular mechanisms of erythroblastic island formation and their functional role in regulating erythropoiesis.
How does leverage in stock market influence the margin of stock index futures?

ABSTRACT In this article, we propose a margin-setting model under the assumption of extreme stock price changes. Specifically, extreme stock price changes are caused by the positive feedback effect of leverage and market impact. By introducing these factors into the futures price changes through a cost-of-carry model for setting the margin of stock index futures, we find that leverage and market impact in stock market are positively correlated with the margin.
The Signaling Network of Transforming Growth Factor β1, Protein Kinase Cδ, and Integrin Underlies the Spreading and Invasiveness of Gastric Carcinoma Cells

ABSTRACT Integrin-mediated cell adhesion and spreading enables cells to respond to extracellular stimuli for cellular functions. Using a gastric carcinoma cell line that is usually round in adhesion, we explored the mechanisms underlying the cell spreading process, separate from adhesion, and the biological consequences of the process. The cells exhibited spreading behavior through the collaboration of integrin-extracellular matrix interaction with a Smad-mediated transforming growth factor β1 (TGFβ1) pathway that is mediated by protein kinase Cδ (PKCδ). TGFβ1 treatment of the cells replated on extracellular matrix caused the expression and phosphorylation of PKCδ, which is required for expression and activation of integrins. Increased expression of integrins α2 and α3 correlated with the spreading, functioning in activation of focal adhesion molecules. Smad3, but not Smad2, overexpression enhanced the TGFβ1 effects. Furthermore, TGFβ1 treatment and PKCδ activity were required for increased motility on fibronectin and invasion through matrigel, indicating their correlation with the spreading behavior. Altogether, this study clearly evidenced that the signaling network, involving the Smad-dependent TGFβ pathway, PKCδ expression and phosphorylation, and integrin expression and activation, regulates cell spreading, motility, and invasion of the SNU16mAd gastric carcinoma cell variant.
Repressor transcription factor 7-like 1 promotes adipogenic competency in precursor cells

The identification of factors that define adipocyte precursor potential has important implications for obesity. Preadipocytes are fibroblastoid cells committed to becoming round lipid-laden adipocytes. In vitro, this differentiation process is facilitated by confluency, followed by adipogenic stimuli. During adipogenesis, a large number of cytostructural genes are repressed before adipocyte gene induction. Here we report that the transcriptional repressor transcription factor 7-like 1 (TCF7L1) binds and directly regulates the expression of cell structure genes. Depletion of TCF7L1 inhibits differentiation, because TCF7L1 indirectly induces the adipogenic transcription factor peroxisome proliferator-activated receptor γ in a manner that can be replaced by inhibition of myosin II activity. TCF7L1 is induced by cell contact in adipogenic cell lines, and ectopic expression of TCF7L1 alleviates the confluency requirement for adipocytic differentiation of precursor cells. In contrast, TCF7L1 is not induced during confluency of non-adipogenic fibroblasts, and, remarkably, forced expression of TCF7L1 is sufficient to commit non-adipogenic fibroblasts to an adipogenic fate. These results establish TCF7L1 as a transcriptional hub coordinating cell–cell contact with the transcriptional repression required for adipogenic competency.
Influence of marine n-3 polyunsaturated fatty acids on immune function and a systematic review of their effects on clinical outcomes in rheumatoid arthritis

Rheumatoid arthritis (RA) is a chronic inflammatory autoimmune disease of the joints and bones. The n-6 polyunsaturated fatty acid (PUFA) arachidonic acid (ARA) is the precursor of inflammatory eicosanoids which are involved in RA. Some therapies used in RA target ARA metabolism. Marine n-3 PUFAs (eicosapentaenoic acid (EPA) and docosahexaenoic acid (DHA)) found in oily fish and fish oils decrease the ARA content of cells involved in immune responses and decrease the production of inflammatory eicosanoids from ARA. EPA gives rise to eicosanoid mediators that are less inflammatory than those produced from ARA and both EPA and DHA give rise to resolvins that are anti-inflammatory and inflammation resolving, although little is known about these latter mediators in RA. Marine n-3 PUFAs can affect other aspects of immunity and inflammation relevant to RA, including dendritic cell and T cell function and production of inflammatory cytokines and reactive oxygen species, although findings for these outcomes are not consistent. Fish oil has been shown to slow the development of arthritis in animal models and to reduce disease severity. A number of randomised controlled trials of marine n-3 PUFAs have been performed in patients with RA. A systematic review included 23 studies. Evidence is seen for a fairly consistent, but modest, benefit of marine n-3 PUFAs on joint swelling and pain, duration of morning stiffness, global assessments of pain and disease activity, and use of non-steroidal anti-inflammatory drugs.
Brief report: Television viewing and risk for attention problems in preschool children.

OBJECTIVES This study examined whether high levels of television viewing are associated with attention problems and hyperactivity in preschool children. METHODS Parent and teacher ratings of inattention, hyperactivity and impulsivity, objectively measured activity level, and parental estimation of early television exposure were collected for a sample of preschool children. Separate linear regression analyses were conducted with parent and teacher behavioral ratings and objectively assessed activity level as outcome variables. RESULTS Results indicated that after controlling for demographic factors (i.e., age, sex, and SES), television exposure accounted for a significant proportion of the variance in teacher ratings of inattentive/hyperactive behaviors, as well as objectively measured activity level. CONCLUSIONS These findings partially replicate those from a recent, highly publicized study indicating a correlation between television exposure and attention-deficit/hyperactivity disorder (ADHD)-associated behaviors. However, it remains unclear as to whether elevated levels of television viewing are the cause or result of ADHD symptoms.