Miracle-dz/UniFAR-FTUs huggingface dataset:
MDL28170, a Calpain Inhibitor, Affects Trypanosoma cruzi Metacyclogenesis, Ultrastructure and Attachment to Rhodnius prolixus Midgut

Background Trypanosoma cruzi is the etiological agent of Chagas' disease. During the parasite life cycle, many molecules are involved in the differentiation process and infectivity. Peptidases are relevant for crucial steps of T. cruzi life cycle; as such, it is conceivable that they may participate in the metacyclogenesis and interaction with the invertebrate host. Methodology/Principal Findings In this paper, we have investigated the effect of the calpain inhibitor MDL28170 on the attachment of T. cruzi epimastigotes to the luminal midgut surface of Rhodnius prolixus, as well as on the metacyclogenesis process and ultrastructure. MDL28170 treatment was capable of significantly reducing the number of bound epimastigotes to the luminal surface midgut of the insect. Once the cross-reactivity of the anti-Dm-calpain was assessed, it was possible to block calpain molecules by the antibody, leading to a significant reduction in the capacity of adhesion to the insect guts by T. cruzi. However, the antibodies were unable to interfere in metacyclogenesis, which was impaired by the calpain inhibitor presenting a significant reduction in the number of metacyclic trypomastigotes. The calpain inhibitor also promoted a direct effect against bloodstream trypomastigotes. Ultrastructural analysis of epimastigotes treated with the calpain inhibitor revealed disorganization in the reservosomes, Golgi and plasma membrane disruption. Conclusions/Significance The presence of calpain and calpain-like molecules in a wide range of organisms suggests that these proteins could be necessary for basic cellular functions. Herein, we demonstrated the effects of MDL28170 in crucial steps of the T. cruzi life cycle, such as attachment to the insect midgut and metacyclogenesis, as well as in parasite viability and morphology. Together with our previous findings, these results help to shed some light on the functions of T. cruzi calpains. Considering the potential roles of these molecules on the interaction with both invertebrate and vertebrate hosts, it is interesting to improve knowledge on these molecules in T. cruzi.
Oxygen abundance in coronal streamers during solar minimum

Abstract. We present a study of the oxygen abundance relative to hydrogen in the equatorial streamer belt of the solar corona during the recent period of activity minimum. The oxygen abundance is derived from the spectroscopic observations of the outer corona performed during 1996 with the Ultraviolet Coronagraph Spectrometer (SOHO) in the ultra-violet region. This study shows that the depletion of oxygen, by almost one order of magnitude with respect to the photospheric values, found in the inner part of streamers by Raymond et al. (1997a) is a common feature of the solar minimum streamer belt, which exhibits an abundance structure with the following characteristics. In the core of streamers the oxygen abundance is 1.3 × 10 -4 at 1.5 R , then it drops to 0.8 × 10 -4 at 1.7 R , value which remains almost constant out to 2.2 R . In the lateral bright structures that are ob-served to surround the core of streamers in the oxygen emission, the oxygen abundance drops monotonically with heliodistance, from 3.5 × 10 -4 at 1.5 R to 2.2 × 10 -4 at 2.2 R . The oxygen abundance structure found in the streamer belt is consistent with the model of magnetic topology of streamers proposed by Noci et al. (1997). The composition of the plasma contained in streamers is not the same as observed in the slow solar wind. Even in the lateral branches, richer in oxygen, at 2.2 R the abundance drops by a factor 2 with respect to the slow wind plasma observed with Ulysses during the declining phase of the solar cycle. Hence the slow wind does not appear to originate primarily from streamers, with the exception perhaps of the plasma flowing along the heliospheric current sheet. Key words. Interplanetary physics (solar wind plasma) – Solar physics, astrophysics and astronomy (corona and transition region; ultraviolet emissions)
Future Caribbean Climates in a World of Rising Temperatures: The 1.5 vs 2.0 Dilemma

AbstractA 10-member ensemble from phase 5 of the Coupled Model Intercomparison Project (CMIP5) is used to analyze the Caribbean’s future climate when mean global surface air temperatures are 1.5°, 2.0°, and 2.5°C above preindustrial (1861–1900) values. The global warming targets are attained by the 2030s, 2050s, and 2070s respectively for RCP4.5. The Caribbean on average exhibits smaller mean surface air temperature increases than the globe, although there are parts of the region that are always warmer than the global warming targets. In comparison to the present (using a 1971–2000 baseline), the Caribbean domain is 0.5° to 1.5°C warmer at the 1.5°C target, 5%–10% wetter except for the northeast and southeast Caribbean, which are drier, and experiences increases in annual warm spells of more than 100 days. At the 2.0°C target, there is additional warming by 0.2°–1.0°C, a further extension of warm spells by up to 70 days, a shift to a predominantly drier region (5%–15% less than present day), and a greater.
Geometric Set Cover and Hitting Sets for Polytopes in $R^3$

Suppose we are given a finite set of points $P$ in $R^3$ and a collection of polytopes $mathcal{T}$ that are all translates of the same polytope $T$. We consider two problems in this paper. The first is the set cover problem where we want to select a minimal number of polytopes from the collection $mathcal{T}$ such that their union covers all input points $P$. The second problem that we consider is finding a hitting set for the set of polytopes $mathcal{T}$, that is, we want to select a minimal number of points from the input points $P$ such that every given polytope is hit by at least one point. We give the first constant-factor approximation algorithms for both problems. We achieve this by providing an epsilon-net for translates of a polytope in $R^3$ of size $\bigO(frac{1{epsilon)$.
Defining the optimal animal model for translational research using gene set enrichment analysis

The mouse is the main model organism used to study the functions of human genes because most biological processes in the mouse are highly conserved in humans. Recent reports that compared identical transcriptomic datasets of human inflammatory diseases with datasets from mouse models using traditional gene‐to‐gene comparison techniques resulted in contradictory conclusions regarding the relevance of animal models for translational research. To reduce susceptibility to biased interpretation, all genes of interest for the biological question under investigation should be considered. Thus, standardized approaches for systematic data analysis are needed. We analyzed the same datasets using gene set enrichment analysis focusing on pathways assigned to inflammatory processes in either humans or mice. The analyses revealed a moderate overlap between all human and mouse datasets, with average positive and negative predictive values of 48 and 57% significant correlations. Subgroups of the septic mouse models (i.e., Staphylococcus aureus injection) correlated very well with most human studies. These findings support the applicability of targeted strategies to identify the optimal animal model and protocol to improve the success of translational research.
HBV Infection in Relation to Consistent Condom Use: A Population-Based Study in Peru

Background Data on hepatitis B virus (HBV) prevalence are limited in developing countries. There is also limited information of consistent condom use efficacy for reducing HBV transmission at the population level. The study goal was to evaluate the prevalence and factors associated with HBV infection in Peru, and the relationship between anti-HBc positivity and consistent condom use. Methods and Findings Data from two different surveys performed in 28 mid-sized Peruvian cities were analyzed. Participants aged 18–29 years were selected using a multistage cluster sampling. Information was collected through a validated two-part questionnaire. The first part (face-to-face) concerned demographic data, while the second part (self-administered using handheld computers) concerned sexual behavior. Hepatitis B core antibody (anti-HBc) was tested in 7,000 blood samples. Prevalences and associations were adjusted for sample strata, primary sampling units and population weights. Anti-HBc prevalence was 5.0% (95%CI 4.1%–5.9%), with the highest prevalence among jungle cities: 16.3% (95%CI 13.8%–19.1%). In the multivariable analysis, Anti-HBc positivity was directly associated with geographic region (highlands OR = 2.05; 95%CI 1.28–3.27, and jungle OR = 4.86; 95%CI 3.05–7.74; compared to coastal region); and inversely associated with age at sexual debut (OR = 0.90; 95%CI 0.85–0.97). Consistent condom use, evaluated in about 40% of participants, was associated with reduced prevalence (OR = 0.34; 95%CI 0.15–0.79) after adjusting for gender, geographic region, education level, lifetime number of sex partners, age at sexual debut and year of survey. Conclusion Residence in highlands or jungle cities is associated with higher anti-HBc prevalences, whereas increasing age at sexual debut were associated with lower prevalences. Consistent condom use was associated with decreased risk of anti-HBc. Findings from this study emphasize the need of primary prevention programs (vaccination) especially in the jungle population, and imply that condom use promotion might be a potential strategy to prevent HBV infection.
Language Style Used in Advertisements for Harper’s Bazaar Magazine: A Literary Study

This study investigates the language styles used in advertisements for Harper’s Bazaar magazine advertisements. The objective of the current study is to identify the stylistic features of magazine advertisements, particularly the stylistics features to provide valuable insights into how advertisers leverage linguistic and visual techniques to connect with their target audience and convey the essence of their brands. Understanding these stylistic strategies is not only valuable for advertisers and marketers but also for readers and consumers who engage with the content, making it an enriching exploration of the synergy between language, style, and fashion in the context of a prestigious British fashion magazine. The study was descriptive-qualitative and used documentation as the instrument. The data was taken from the September 2019 and April 2020 issues of "Harper's Bazaar Magazine which consisted of 28 advertisements. Content analysis was employed to analyze the language styles of advertisements. The results reveal that noun and noun phrases are the most frequently used in Harper’s Bazaar magazine. It also found figurative language, straightforward language, and emotive terms to accomplish their goals. This study contributes to the understanding of language styles in advertising and provides insights into the role of language in promoting products and shaping consumer behavior.
Efficient Traffic Scheduling for Real Time VBR MPEG Video Transmission Over DOCSIS-Based HFC Networks

Data-over-cable service interface specifications (DOCSIS), the de facto standard in the cable industry, defines a scheduling service called real-time polling service (rtPS) to provision quality of service (QoS) transmission of real-time variable bit rate (VBR) videos. However, the rtPS service intrinsically has high latency, which makes it not applicable to real-time traffic transport. In this paper, we present a novel traffic scheduling algorithm for hybrid fiber coax (HFC) networks based on DOCSIS that aims to provide QoS for real-time VBR video transmissions. The novel characteristics of this algorithm, as compared to those described in published literatures, include 1) it predicts the bandwidth requirements for future traffic using a novel traffic predictor designed to provide simple yet accurate online prediction; and 2) it takes the attributes of physical (PHY) layer, media access control (MAC) layer and application layer into consideration. In addition, the proposed traffic scheduling algorithm is completely compatible with the DOCSIS specification and does not require any protocol changes. We analyze the performance of the proposed traffic predictor and traffic scheduling algorithm using real-life MPEG video traces. Simulation results indicate that 1) the proposed traffic predictor significantly outperforms previously published techniques with respect to the prediction error and 2) compared with several existing scheduling algorithms, the proposed traffic scheduling algorithm surpasses other mechanisms in terms of channel utilization, buffer usage, packet delay, and packet loss rate.
Sequential SNARE disassembly and GATE-16–GOS-28 complex assembly mediated by distinct NSF activities drives Golgi membrane fusion

Characterization of mammalian NSF (G274E) and Drosophila NSF (comatose) mutants revealed an evolutionarily conserved NSF activity distinct from ATPase-dependent SNARE disassembly that was essential for Golgi membrane fusion. Analysis of mammalian NSF function during cell-free assembly of Golgi cisternae from mitotic Golgi fragments revealed that NSF disassembles Golgi SNAREs during mitotic Golgi fragmentation. A subsequent ATPase-independent NSF activity restricted to the reassembly phase is essential for membrane fusion. NSF/alpha-SNAP catalyze the binding of GATE-16 to GOS-28, a Golgi v-SNARE, in a manner that requires ATP but not ATP hydrolysis. GATE-16 is essential for NSF-driven Golgi reassembly and precludes GOS-28 from binding to its cognate t-SNARE, syntaxin-5. We suggest that this occurs at the inception of Golgi reassembly to protect the v-SNARE and regulate SNARE function.
Identification and Characterization of a High-Affinity Saturable Binding Protein for the Carcinogen Benzo ( a ) pyrene 1

A protein that binds the chemical carcinogen, benzo(a)pyrene (BP), in a high-affinity and saturable manner has been identified in cell extracts from the AKR-2B mouse embryo cell line. The BP bound to the carcinogen-binding protein (CBP) was exchangeable in a timeand temperature-dependent fash ion and has a Kd of 1.8 x 10"9 M. Competitive binding studies indicate that chemical carcinogens [3-methylcholanthrene, benz(a)anthracene, dibenz(a,c)anthracene] and other inducers of aryl hydrocarbon hydroxylase (5,6and 7,8-benzoflavone) compete to varying degrees with BP for binding. Steroids, 2,3,7,8-tetrachlorodibenzo-p-dioxin, and phÃ©nobarbital did not compete with BP for binding to the CBP. BP prevented the heat inactivation of CBP. Additional properties of CBP reveal it to have a Stokes' radius of 31 A, molecular weight of 61,000, frictional ratio of 1.2, an apparent isoelectric point of 5.2, and an S value of 4.8 in linear sucrose gradients. It was estimated that there are about 20,000 molecules of CBP per AKR-2B mouse embryo cell. The CBP was found in two nontransformed and one chemically transformed cell line; a fourth cell line A431 (human vaginal carcinoma) had significantly reduced amounts of CBP.
Electrophysiological Evaluation of Peripheral and Autonomic Involvement in Leprosy

Objective: Motor and sensory nerve conductions, F responses, sympathetic skin responses and R-R interval variations (RRIV) were studied to determine the type of peripheral neuropathy among patients with leprosy. Methods: Twenty-nine consecutive patients with leprosy (25 male, 4 female) hospitalized in the “Istanbul Leprosy Hospital'' between January - December, 1999 were included in this study. Ten patients had borderline lepromatous leprosy, and 19 had lepromatous leprosy. None of the patients studied had the tuberculoid form. The mean age was 55±12 years. The control group consisted of 30 (26 male, 4 female) healthy volunteers (mean age: 58.1±7.8 years). All subjects included in the study underwent neurological examination and electrophysiological evaluation. Standard procedures were performed for evaluating sensory and motor conduction studies. Motor studies were carried out on both left and right median, ulnar, tibial and common peroneal nerves while median, ulnar, sural and superficial peroneal nerves were examined for sensory studies. Sympathetic skin response recordings on both hands and RRIV recordings on precordial region were done in order to evaluate the autonomic involvement. Results: The lower extremity was found to be more severely affected than the upper, and sensory impairment predominated over motor. Of 58 upper limbs examined, no sympathetic skin responses was recorded in 46 (79.3%). Compared with the controls, the RRIVs of the leprosy patients were found to be reduced during both resting and deep forced hyperventilation. Conclusion: Our results indicate that leprosy causes a predominantly axonal polyneuropathy that is more severe in the lower extremities. Sensory nerve damage is accompanied by autonomic involvement.
Positive selection of a CD36 nonsense variant in sub-Saharan Africa, but no association with severe malaria phenotypes

The prevalence of CD36 deficiency in East Asian and African populations suggests that the causal variants are under selection by severe malaria. Previous analysis of data from the International HapMap Project indicated that a CD36 haplotype bearing a nonsense mutation (T1264G; rs3211938) had undergone recent positive selection in the Yoruba of Nigeria. To investigate the global distribution of this putative selection event, we genotyped T1264G in 3420 individuals from 66 populations. We confirmed the high frequency of 1264G in the Yoruba (26%). However, the 1264G allele is less common in other African populations and absent from all non-African populations without recent African admixture. Using long-range linkage disequilibrium, we studied two West African groups in depth. Evidence for recent positive selection at the locus was demonstrable in the Yoruba, although not in Gambians. We screened 70 variants from across CD36 for an association with severe malaria phenotypes, employing a case–control study of 1350 subjects and a family study of 1288 parent–offspring trios. No marker was significantly associated with severe malaria. We focused on T1264G, genotyping 10 922 samples from four African populations. The nonsense allele was not associated with severe malaria (pooled allelic odds ratio 1.0; 95% confidence interval 0.89–1.12; P = 0.98). These results suggest a range of possible explanations including the existence of alternative selection pressures on CD36, co-evolution between host and parasite or confounding caused by allelic heterogeneity of CD36 deficiency.
A Parametric Approach to Orthographic Processing in the Brain: An fMRI Study

Brain activation studies of orthographic stimuli typically start with the premise that different types of orthographic strings (e.g., words, pseudowords) differ from each other in discrete ways, which should be reflected in separate and distinct areas of brain activation. The present study starts from a different premise: Words, pseudowords, letterstrings, and false fonts vary systematically across a continuous dimension of familiarity to English readers. Using a one-back matching task to force encoding of the stimuli, the four types of stimuli were visually presented to healthy adult subjects while fMRI activations were obtained. Data analysis focused on parametric comparisons of fMRI activation sites. We did not find any region that was exclusively activated for real words. Rather, differences among these string types were mainly expressed as graded changes in the balance of activations among the regions. Our results suggests that there is a widespread network of brain regions that form a common network for the processing of all orthographic string types.
Estimates of burden and consequences of infants born small for gestational age in low and middle income countries with INTERGROWTH-21st standard: analysis of CHERG datasets

Objectives To estimate small for gestational age birth prevalence and attributable neonatal mortality in low and middle income countries with the INTERGROWTH-21st birth weight standard. Design Secondary analysis of data from the Child Health Epidemiology Reference Group (CHERG), including 14 birth cohorts with gestational age, birth weight, and neonatal follow-up. Small for gestational age was defined as infants weighing less than the 10th centile birth weight for gestational age and sex with the multiethnic, INTERGROWTH-21st birth weight standard. Prevalence of small for gestational age and neonatal mortality risk ratios were calculated and pooled among these datasets at the regional level. With available national level data, prevalence of small for gestational age and population attributable fractions of neonatal mortality attributable to small for gestational age were estimated. Setting CHERG birth cohorts from 14 population based sites in low and middle income countries. Main outcome measures In low and middle income countries in the year 2012, the number and proportion of infants born small for gestational age; number and proportion of neonatal deaths attributable to small for gestational age; the number and proportion of neonatal deaths that could be prevented by reducing the prevalence of small for gestational age to 10%. Results In 2012, an estimated 23.3 million infants (uncertainty range 17.6 to 31.9; 19.3% of live births) were born small for gestational age in low and middle income countries. Among these, 11.2 million (0.8 to 15.8) were term and not low birth weight (≥2500 g), 10.7 million (7.6 to 15.0) were term and low birth weight (<2500 g) and 1.5 million (0.9 to 2.6) were preterm. In low and middle income countries, an estimated 606 500 (495 000 to 773 000) neonatal deaths were attributable to infants born small for gestational age, 21.9% of all neonatal deaths. The largest burden was in South Asia, where the prevalence was the highest (34%); about 26% of neonatal deaths were attributable to infants born small for gestational age. Reduction of the prevalence of small for gestational age from 19.3% to 10.0% in these countries could reduce neonatal deaths by 9.2% (254 600 neonatal deaths; 164 800 to 449 700). Conclusions In low and middle income countries, about one in five infants are born small for gestational age, and one in four neonatal deaths are among such infants. Increased efforts are required to improve the quality of care for and survival of these high risk infants in low and middle income countries
Random walks on graphs: ideas, techniques and results

Random walks on graphs are widely used in all sciences to describe a great variety of phenomena where dynamical random processes are affected by topology. In recent years, relevant mathematical results have been obtained in this field, and new ideas have been introduced, which can be fruitfully extended to different areas and disciplines. Here we aim at giving a brief but comprehensive perspective of these progresses, with a particular emphasis on physical aspects.