Miracle-dz/UniFAR-FTUs huggingface dataset:
Geometric Spanning Trees Minimizing the Wiener Index

The Wiener index of a network, introduced by the chemist Harry Wiener, is the sum of distances between all pairs of nodes in the network. This index, originally used in chemical graph representations of the non-hydrogen atoms of a molecule, is considered to be a fundamental and useful network descriptor. We study the problem of constructing geometric networks on point sets in Euclidean space that minimize the Wiener index: given a set $P$ of $n$ points in $\mathbb{R}^d$, the goal is to construct a network, spanning $P$ and satisfying certain constraints, that minimizes the Wiener index among the allowable class of spanning networks. In this work, we focus mainly on spanning networks that are trees and we focus on problems in the plane ($d=2$). We show that any spanning tree that minimizes the Wiener index has non-crossing edges in the plane. Then, we use this fact to devise an $O(n^4)$-time algorithm that constructs a spanning tree of minimum Wiener index for points in convex position. We also prove that the problem of computing a spanning tree on $P$ whose Wiener index is at most $W$, while having total (Euclidean) weight at most $B$, is NP-hard. Computing a tree that minimizes the Wiener index has been studied in the area of communication networks, where it is known as the optimum communication spanning tree problem.
Pharmacotherapy of alcohol withdrawal : update and new developments

So far few medications are approved for prophylactic treatment of alcohol dependence relapse. Apart from disulfiram, which is no longer marketed in Germany, the opioid antagonists naltrexone, nalmefene and the putative glutamate antagonist acamprosate are approved. In some other countries, baclofen and gamma-hydroxybutyrate (GHB) are licensed. Possible other drugs of interest for prophylaxis of alcohol dependence relapse are vareniclin, gabapentin, and topiramate, but so far none of them have received approval. In the light of the currently running revision of the German guidelines for the diagnosis and treatment of alcohol related disorders, an update on the pharmacotherapy of alcohol dependence is presented.
Engaging online students through the gamification of learning materials: The present and the future.

The benefits of gamification in learning and instructional design to help engage and improve student learning online are investigated in this paper. The use of scenario-based learning and alternate reality gaming (ARG) are identified as key representations for improving user engagement, productivity and help shift away from classroom based learning activities towards fully self-paced and collaborative online activities. The paper outlines the reasoning behind, and the advantages of, using scenario-based and alternate reality gaming as an instructional tool in tertiary online education.
Combining optical and neural components in physiological visual image quality metrics as functions of luminance and age

Visual image quality metrics combine comprehensive descriptions of ocular optics (from wavefront error) with a measure of the neural processing of the visual system (neural contrast sensitivity). To improve the ability of these metrics to track real-world changes in visual performance and to investigate the roles and interactions of those optical and neural components in foveal visual image quality as functions of age and target luminance, models of neural contrast sensitivity were constructed from the literature as functions of (1) retinal illuminance (Trolands, td), and (2) retinal illuminance and age. These models were then incorporated into calculation of the visual Strehl ratio (VSX). Best-corrected VSX values were determined at physiological pupil sizes over target luminances of 104 to 10−3 cd/m2 for 146 eyes spanning six decades of age. Optical and neural components of the metrics interact and contribute to visual image quality in three ways. At target luminances resulting in >900 td at physiological pupil size, neural processing is constant, and only aberrations (that change as pupil size changes with luminance) affect the metric. At low mesopic luminances below where pupil size asymptotes to maximum, optics are constant (maximum pupil), and only the neural component changes with luminance. Between these two levels, both optical and neural components of the metrics are affected by changes in target luminance. The model that accounted for both retinal illuminance and age allowed VSX, termed VSX(td,a), to best track visual acuity trends (measured at 160 and 200 cd/m2) as a function of age (20s through 70s) from the literature. Best-corrected VSX(td,a) decreased by 2.24 log units between maximum and minimum target luminances in the youngest eyes and by 2.58 log units in the oldest. The decrease due to age was more gradual at high target luminances (0.70 log units) and more pronounced as target luminance decreased (1.04 log units).
Nearest-neighbour directed random hyperbolic graphs

Undirected hyperbolic graph models have been extensively used as models of scale-free small-world networks with high clustering coefficient. Here we presented a simple directed hyperbolic model where nodes randomly distributed on a hyperbolic disk are connected to a fixed number m of their nearest spatial neighbors. We introduce also a canonical version of this network (which we call "network with varied connection radius"), where maximal length of outgoing bond is space dependent and is determined by fixing the average out-degree to m. We study local bond length, in-degree, and reciprocity in these networks as a function of spacial coordinates of the nodes and show that the network has a distinct core-periphery structure. We show that for small densities of nodes the overall in-degree has a truncated power-law distribution. We demonstrate that reciprocity of the network can be regulated by adjusting an additional temperature-like parameter without changing other global properties of the network.
Immunoinformatics design of multiepitopes peptide-based universal cancer vaccine using matrix metalloproteinase-9 protein as a target

Abstract A new approach toward cancer therapy is the use of cancer vaccine, yet the different molecular bases of cancers, reduce the effectiveness of this approach. In this article, we aim to use matrix metalloproteinase-9 protein (MMP9) which is an essential molecule in the survival and metastasis of all types of cancers as a target for universal cancer vaccine design. The reference sequence of MMP9 protein was obtained from NCBI databases. Furthermore, the B-cell and T cell-related peptides were analyzed using the IEDB website and other related soft wares. The best candidate peptides were then visualized using chimera software. Three peptides were found to be good candidates for interactions with B cells (SLPE, RLYT, and PALPR), while 10 peptides were found as good targets for interactions with MHC1 and another 10 peptides founded suitable for interactions with MHC2 with population coverages of 94.77 and 90.67%, respectively. Finally, the immune response simulation and molecular docking were done using the C-IMMSIM simulator and AutoDock Vina to confirm the effectiveness of the proposed vaccine. By the end of this project: twenty-three peptide-based vaccine was designed for use as a universal cancer vaccine which has a high world population coverage for MHC1 (94.77%) and MHC2 (90.67%) related alleles.
Targeting the alpha subunit of IL-3 receptor (CD123) in patients with acute leukemia

ABSTRACT The IL-3 alpha chain receptor (CD123) is a cell surface protein that is widely expressed by various subtypes of acute leukemia, including acute myeloid leukemia (AML), acute lymphoblastic leukemia and blastic plasmacytoid dendritic cell neoplasm. Notably, CD123 is preferentially overexpressed in leukemia stem cells (LSC) in contrast to normal hematopoietic stem cells, and this differential expression allows for the selective eradication of LSC and leukemic blasts through therapeutic targeting of CD123, with less impact on hematopoietic cells. The level of CD123 expression in AML correlates with both treatment response and outcomes. Therefore, targeting CD123 represents a promising universal therapeutic target in advanced acute leukemias irrespective of the individual leukemia phenotype. There are currently 31 ongoing clinical trials examining the utility of CD123-based targeted therapies. Here we focus our review on current efforts to target CD123 in acute leukemia through various therapeutic constructs.
Japanese encephalitis: Strategies for prevention and control in India

Japanese Encephalitis (JE) is an important re-emerging vector-borne zoonotic disease of the 21st century which is the most important cause of morbidity and mortality due to pediatric viral encephalitis in Asian populations. India and China together report 95% of the disease burden where it is also an important cause of acute encephalitis syndrome. JE is a neglected tropical disease which disproportionately afflicts poor and economically disadvantaged populations in rural regions of low and middle-income countries which often lack well-equipped tertiary care centers for the management of JE cases presenting with central nervous system manifestations and related complications. JE has large animal reservoirs among pigs and water birds which renders JE elimination difficult. Hence, current strategy for JE prevention and control pursues a combined approach inclusive of expansion of JE vaccination coverage in endemic regions, vector control, and surveillance. Unfortunately, the lack of public health infrastructure, economic resources, and lack of political commitment has resulted in most endemic countries in the developing world failing to take adequate steps for achieving these recommended measures for JE control, especially with regard to developing surveillance capacities and reference laboratories for the diagnosis of JE. Moreover, the threat of JE has increased in recent years due to factors such as climate change and lack of economic development in several endemic zones even as the disease has begun affecting adult populations. Evidence from surveillance data in some countries also suggests that increase in vaccination coverage for JE does not necessarily correlate with decline in JE disease burden. Ultimately, JE is likely to persist as a major public health problem in the developing world and impede their economic development unless it receives adequate attention from the global health community.
A comparison of morphometric definitions of vertebral fracture

To compare the accuracy of several approaches for defining prevalent vertebral fractures from measurements of vertebral dimensions (morphometry), we measured the lateral dimensions of vertebral bodies of 115 normal premenopausal and 100 postmenopausal women. Of the postmenopausal women two observers agreed that 49 had definite vertebral fractures and 38 were definitely normal. Using these classifications as an independent reference, women were then classified as fractured or normal by several definitions based on vertebral morphometry. No morphometric definition of vertebral fracture agreed perfectly with the consensus classifications. In general, definitions that involved combinations of measurements of anterior (Ha), middle (Hm), and posterior (Hp) vertebral height classified women more accurately than did definitions based on a single measurement or ratio. The Ha/Hp ratio produced many false positives unless it was adjusted for normal variations in the shapes of different vertebral bodies. Definitions of fracture based on a > 15% reduction in heights or ratios had higher sensitivity but more false positives than definitions that used a more stringent (>20%) criterion. All morphometric definitions of vertebral fracture separated the postmenopausal women into two groups (fractured and normal) that had significantly (P < 0.001) different mean spine bone density by quantitative computed tomography. Definitions that had the lowest rates of false positives also produced the largest differences in bone density between those defined as fractured and those defined as normal.
The emerging role of cell senescence in atherosclerosis

Abstract Cell senescence is a fundamental mechanism of aging and appears to play vital roles in the onset and prognosis of cardiovascular disease, fibrotic pulmonary disease, liver disease and tumor. Moreover, an increasing body of evidence shows that cell senescence plays an indispensable role in the formation and development of atherosclerosis. Multiple senescent cell types are associated with atherosclerosis, senescent human vascular endothelial cells participated in atherosclerosis via regulating the level of endothelin-1 (ET-1), nitric oxide (NO), angiotensin II and monocyte chemoattractant protein-1 (MCP-1), senescent human vascular smooth muscle cells-mediated plaque instability and vascular calcification via regulating the expression level of BMP-2, OPN, Runx-2 and inflammatory molecules, and senescent macrophages impaired cholesterol efflux and promoted the development of senescent-related cardiovascular diseases. This review summarizes the characteristics of cell senescence and updates the molecular mechanisms underlying cell senescence. Moreover, we also discuss the recent advances on the molecular mechanisms that can potentially regulate the development and progression of atherosclerosis.
Biomarkers for Diagnosis and Prognosis of Prostate Cancer

Since its discovery, elevated prostate-specific antigen (PSA) has been the measurement to indicate possibility of prostate cancer, as well as biochemical recurrence following treatment. Although PSA has led to decrease in prostate cancer–related mortalities, PSA is a nonspe - cific prostate cancer biomarker reflective of other prostate-related conditions such as benign prostatic hyperplasia (BPH), resulting in a high false-positive rate. This has led to overtreat - ment of men with clinically insignificant disease. While most prostate cancer patients have slowly progressive disease and should be treated conservatively, roughly 10% of patients will progress to have metastatic disease, of which the majority of prostate cancer deaths can be attributed. Stratifying these patients based on prognosis so that they may benefit from aggressive treatment is critical to their survival. Biomarkers for prostate cancer diagnosis and subsequent prognostic screening have significantly advanced this field. Here, we review some of the current blood, tissue, and urine biomarker tools used to measure an array of molecules including DNA, RNA, protein, or even epigenetic modifications. Utilizing the technologies described here, as well as looking to the future, correct early identification of prostate cancer with powerful prognostic value is much closer than ever before. to its androgen independent function, AR-V7 has been implicated in the resistance to second-generation anti-androgen therapies. be tumor (CTCs) is with to second including and , the as a selection biomarker.
Workload Management in Teleoperation of Unmanned Ground Vehicles: Effects of a Delay Compensation Aid on Human Operators’ Workload and Teleoperation Performance

ABSTRACT Workload management is of critical concern in the teleoperation of unmanned vehicles because teleoperation is often employed in high-risk industries wherein high workload can lead to sub-optimal task performance and can harm human operators’ long-term well-being. This study aimed to assess the detrimental effects of time delays in teleoperation on operators’ workload and performance, and how a delay compensation aid mitigated such effects. We conducted a human-in-the-loop experiment with 36 participants using a dual-task teleoperation platform, where participants drove a simulated High Mobility Multipurpose Wheeled Vehicle (HMMWV) and performed a one-back memory task under three conditions: the delay condition, the delay with compensation aid condition, and the ideal no delay condition. A model-free predictor was used as the compensation aid. Results indicate that with a time delay of 0.8-s participants’ workload increased and performance degraded significantly. Moreover, the model-free predictor mitigated the detrimental effects of time delay on workload and task performance. Our findings suggest that participants are more sensitive in their perceived workload compared to the objective and physiological measures of workload. In addition, without any delay compensation algorithms, continuous teleoperation may not be ideal for operations with long time delays.
The Ingenuity of Bacterial Genomes.

The genomes of bacteria contain fewer genes and substantially less noncoding DNA than those of eukaryotes, and as a result, they have much less raw material to invent new traits. Yet, bacteria are vastly more taxonomically diverse, numerically abundant, and globally successful in colonizing new habitats than eukaryotes. Although bacterial genomes are generally considered to be optimized for efficient growth and rapid adaptation, nonadaptive processes have played a major role in shaping the size, contents, and compact organization of bacterial genomes and have allowed the establishment of deleterious traits that serve as the raw materials for genetic innovation. Expected final online publication date for the Annual Review of Microbiology, Volume 74 is September 8, 2020. Please see http://www.annualreviews. org/page/journal/pubdates for revised estimates.
The Association of Low Hemoglobin Levels with IgA Nephropathy Progression: A Two-Center Cohort Study of 1,828 Cases

Aim: To investigate the relationship between hemoglobin levels and the progression of IgA nephropathy (IgAN). Methods: In a two-center cohort of 1,828 cases with biopsy-proven IgAN, we examined the association of hemoglobin levels with the primary outcome of a composite of all-cause mortality or kidney failure defined as a 40% decline in eGFR, or ESKD (defined as eGFR <15 mL/min/1.73 m2 or need for kidney replacement therapy including hemodialysis, peritoneal dialysis, or kidney transplantation), or the outcome of kidney failure, assessed using Cox and logistic regression models, respectively, with adjustment for confounders. Results: At baseline, mean age, eGFR, and hemoglobin levels were 33.75 ± 11.03 years, 99.70 ± 30.40 mL/min/1.73 m2, and 123.47 ± 18.36 g/L, respectively. During a median of approximately 7-year follow-up, 183 cases reached the composite outcome. After adjustment for demographic and IgAN-specific covariates and treatments, a lower quartile of hemoglobin was nonlinearly associated with an increased risk of the primary outcome or kidney failure in the Cox proportional hazards models (primary outcome: HR for quartile 3 vs. 4, 1.37; 95% CI, 0.83–2.25; HR for quartile 2 vs. 4, 1.18; 95% CI, 0.68–2.07; HR for quartile 1 vs. 4, 1.91; 95% CI, 1.15–3.17; kidney failure: HR for quartile 3 vs. 4, 1.39; 95% CI, 0.84–2.31; HR for quartile 2 vs. 4, 1.20; 95% CI, 0.68–2.11; HR for quartile 1 vs. 4, 1.83; 95% CI, 1.09–3.07) in the fully adjusted model. Then, hemoglobin levels were transformed to a binary variable for fitting the model according to the criteria for anemia of 110 g/L in the women and 120 g/L in men in China. The participants in the anemia group had an increased risk of developing outcomes compared with the nonanemia group in both genders (primary outcome: male: HR, 1.64; 95% CI, 1.01–2.68; female: HR, 1.68; 95% CI, 1.02–2.76; kidney failure: male: HR, 1.60; 95% CI, 0.97–2.64; female: HR, 1.58; 95% CI, 0.95–2.61) in the fully adjusted model. Conclusions: A low level of hemoglobin was nonlinearly associated with IgAN progression. The anemic IgAN patients presented a higher risk of developing poor outcomes compared with the nonanemic patients.
Giant axons and control of jetting in the squid Loligo and the jellyfish Aglantha

Both Loligo and Aglantha have sets of giant axons arranged in a cascading series, which transmit impulses at high velocity and with short synaptic delays to the swimming muscles. The layout of the axons is such as to guarantee symmetrical, near-simultaneous contractions of all parts of the swimming muscles, necessary for effective jetting. The giant axons in both animals are multinucleate, syncytial structures. In both animals, the first-order giants receive a rich afferent innervation. Despite these similarities in the layout and properties of their giant axon systems, Loligo and Aglantha control their swimming muscles in very different ways. The most striking difference is that Loligo has separate fast and slow innervations as well as fast and slow muscles, whereas Aglantha has only one innervation and one set of muscles, but can produce two types of contraction by switching between rapidly propagated sodium spikes and slowly propagated calcium spikes in its giant motor axons. A second major difference .
An opportunity to revolutionise sow management

Research in any area of animal production can provide the opportunity to change how the system operates and is managed. The reliance on having to wean lactating sows to re-mate them has limited the commercial options for sow management. The desire to limit lactation length to maximise the litters per sow per year concurrently creates major challenges for such-aged piglets weaned abruptly. These issues are discussed in the review. This management system also fails to recognise that sows have the potential to spontaneously ovulate in lactation even when housed in farrowing crates. Inhibition of luteinising hormone release is the basis of lactational anoestrus with the suckling stimulus providing the strongest afferent signal to this inhibitory system. Any management strategy that reduces this inhibition has the potential to trigger lactational oestrus. In this review, group housing of sows, boar exposure and intermittent suckling are identified as strong stimuli that can promote lactational oestrus. Removing the need to wean sows to mate them offers further opportunities to change the way lactating sows are managed. One option is a two-stage lactation system in which the sows are housed in farrowing crates for the first 10–14 days and then moved to group accommodation for the remainder of lactation. This system provides welfare benefits for the litter in the early stage of lactation and then the benefits of less confinement for the sows in later lactation. Group lactation would also lend itself to the implementation of stimuli to assist the mating of sows in lactation, such as piglet separation and/or boar exposure. It also accommodates the mating of sows that spontaneously ovulate in lactation. Removing the need to wean sows to re-mate them provides the opportunity to increase weaning age and implement a gradual weaning, helping to attenuate the post-weaning growth check and potentially limiting antimicrobial use in weaner pigs.