Miracle-dz/UniFAR-FTUs huggingface dataset:
Differentiable programming for image processing and deep learning in halide

Gradient-based optimization has enabled dramatic advances in computational imaging through techniques like deep learning and nonlinear optimization. These methods require gradients not just of simple mathematical functions, but of general programs which encode complex transformations of images and graphical data. Unfortunately, practitioners have traditionally been limited to either hand-deriving gradients of complex computations, or composing programs from a limited set of coarse-grained operators in deep learning frameworks. At the same time, writing programs with the level of performance needed for imaging and deep learning is prohibitively difficult for most programmers. We extend the image processing language Halide with general reverse-mode automatic differentiation (AD), and the ability to automatically optimize the implementation of gradient computations. This enables automatic computation of the gradients of arbitrary Halide programs, at high performance, with little programmer effort. A key challenge is to structure the gradient code to retain parallelism. We define a simple algorithm to automatically schedule these pipelines, and show how Halide's existing scheduling primitives can express and extend the key AD optimization of "checkpointing. " Using this new tool, we show how to easily define new neural network layers which automatically compile to high-performance GPU implementations, and how to solve nonlinear inverse problems from computational imaging. Finally, we show how differentiable programming enables dramatically improving the quality of even traditional, feed-forward image processing algorithms, blurring the distinction between classical and deep methods.
Sequicity: Simplifying Task-oriented Dialogue Systems with Single Sequence-to-Sequence Architectures

Existing solutions to task-oriented dialogue systems follow pipeline designs which introduces architectural complexity and fragility. We propose a novel, holistic, extendable framework based on a single sequence-to-sequence (seq2seq) model which can be optimized with supervised or reinforcement learning. A key contribution is that we design text spans named belief spans to track dialogue believes, allowing task-oriented dialogue systems to be modeled in a seq2seq way. Based on this, we propose a simplistic Two Stage CopyNet instantiation which emonstrates good scalability: significantly reducing model complexity in terms of number of parameters and training time by a magnitude. It significantly outperforms state-of-the-art pipeline-based methods on large datasets and retains a satisfactory entity match rate on out-of-vocabulary (OOV) cases where pipeline-designed competitors totally fail.
Degree Project Master ’ s degree Examining consumer purchase intention towards online clothing within generational cohort A case of generation Y consumers

Aim The aim of the thesis is to examine if there are internal variations within generation Y and to what extent it is in their online clothing purchase intention, based on existing knowledge of factors influencing them. Methodology A survey was distributed online to Swedish generation Y residents, born between 1979 and 2000. Thus, primary data totalling 114 responses were collected and analysed by using analysis of variance (ANOVA) and multivariate analysis of covariance (MANCOVA). The nonprobability sampling technique was applied using convenience and snowball sampling methods. Results There were no statistically significant differences in the effect of perceived risk, perceived benefit and personal factors on purchase intentions within generation Y (Y1, Y2 and Y3 groups) towards online clothing purchase. Practical implication As generation Y is an attractive segment to business managers, this research affirms the previous studies confirming generational cohort as a suitable way of categorising consumers. Thus helping managers in market segmentation strategies. Originality/Value This study contributes to the literature on generational cohorts by questioning the concept of cohort and how reliable it is for business managers to use in market segmentation.
On the Response of Nanoelectrode Impedance Spectroscopy Measures to Plant, Animal, and Human Viruses

A simplified lumped geometrical and electrical model for the high-frequency impedance spectroscopy (HFIS) response of nanoelectrodes to $T = 3$ capsids and full viruses is developed starting from atomistic descriptions, in order to test the theoretical response of a realistic HFIS CMOS biosensor platform to different viruses. Capacitance spectra are computed for plant (cowpea chlorotic mottle virus), animal (rabbit haemorrhagic disease virus), and human (hepatitis A virus) viruses. A few common features of the spectra are highlighted, and the role of virus charge, pH, and ionic strength on the expected signal is discussed. They suggest that the frequency of highest sensitivity at nearly physiological concentrations (100 mM) is within reach of existing HFIS platform designs.
The burden of Neglected Tropical Diseases in Brazil, 1990-2016: A subnational analysis from the Global Burden of Disease Study 2016

Background Neglected Tropical Diseases (NTDs) are important causes of morbidity, disability, and mortality among poor and vulnerable populations in several countries worldwide, including Brazil. We present the burden of NTDs in Brazil from 1990 to 2016 based on findings from the Global Burden of Diseases, Injuries, and Risk Factors Study 2016 (GBD 2016). Methodology We extracted data from GBD 2016 to assess years of life lost (YLLs), years lived with disability (YLDs), and disability-adjusted life-years (DALYs) for NTDs by sex, age group, causes, and Brazilian states, from 1990 to 2016. We included all NTDs that were part of the priority list of the World Health Organization (WHO) in 2016 and that are endemic/autochthonous in Brazil. YLDs were calculated by multiplying the prevalence of sequelae multiplied by its disability weight. YLLs were estimated by multiplying each death by the reference life expectancy at each age. DALYs were computed as the sum of YLDs and YLLs. Principal findings In 2016, there were 475,410 DALYs (95% uncertainty interval [UI]: 337,334–679,482; age-standardized rate of 232.0 DALYs/100,000 population) from the 12 selected NTDs, accounting for 0.8% of national all-cause DALYs. Chagas disease was the leading cause of DALYs among all NTDs, followed by schistosomiasis and dengue. The sex-age-specific NTD burden was higher among males and in the youngest and eldest (children <1 year and those aged ≥70 years). The highest age-standardized DALY rates due to all NTDs combined at the state level were observed in Goiás (614.4 DALYs/100,000), Minas Gerais (433.7 DALYs/100,000), and Distrito Federal (430.0 DALYs/100,000). Between 1990 and 2016, the national age-standardized DALY rates from all NTDs decreased by 45.7%, with different patterns among NTD causes and Brazilian states. Most NTDs decreased in the period, with more pronounced reduction in DALY rates for onchocerciasis, lymphatic filariasis, and rabies. By contrast, age-standardized DALY rates due to dengue, visceral leishmaniasis, and trichuriasis increased substantially. Age-standardized DALY rates decreased for most Brazilian states, increasing only in the states of Amapá, Ceará, Rio Grande do Norte, and Sergipe. Conclusions/Significance GBD 2016 findings show that, despite the reduction in disease burden, NTDs are still important and preventable causes of disability and premature death in Brazil. The data call for renewed and comprehensive efforts to control and prevent the NTD burden in Brazil through evidence-informed and efficient and affordable interventions. Multi-sectoral and integrated control and surveillance measures should be prioritized, considering the population groups and geographic areas with the greatest morbidity, disability, and most premature deaths due to NTDs in the country.
Yin Yang 1 promotes the Warburg effect and tumorigenesis via glucose transporter GLUT3

Cancer cells typically shift their metabolism to aerobic glycolysis to fulfill the demand of energy and macromolecules to support their proliferation. Glucose transporter (GLUT) family‐mediated glucose transport is the pacesetter of aerobic glycolysis and, thus, is critical for tumor cell metabolism. Yin Yang 1 (YY1) is an oncogene crucial for tumorigenesis; however, its role in tumor cell glucose metabolism remains unclear. Here, we revealed that YY1 activates GLUT3 transcription by directly binding to its promoter and, concomitantly, enhances tumor cell aerobic glycolysis. This regulatory effect of YY1 on glucose entry into the cells is critical for YY1‐induced tumor cell proliferation and tumorigenesis. Intriguingly, YY1 regulation of GLUT3 expression, and, subsequently, of tumor cell aerobic glycolysis and tumorigenesis, occurs p53‐independently. Our results also showed that clinical drug oxaliplatin suppresses colon carcinoma cell proliferation by inhibiting the YY1/GLUT3 axis. Together, these results link YY1's tumorigenic potential with the critical first step of aerobic glycolysis. Thus, our novel findings not only provide new insights into the complex role of YY1 in tumorigenesis but also indicate the potential of YY1 as a target for cancer therapy irrespective of the p53 status.
Inhibitor Formation in Congenital Hemophilia A: an Immunological Perspective

Abstract The immunogenicity of therapeutic factor VIII (FVIII) in patients with hemophilia A has been puzzling scientific and clinical communities for more than 3 decades. Indeed, the development of inhibitory antibodies to FVIII remains a major clinical challenge and is associated with enormous societal costs. Thus, the reasons for which a presumably innocuous, short-lived, intravenously administered glycoprotein triggers such a deleterious, long-lasting neutralizing immune response is an enigma. This review does not pretend to bring an answer to this challenging question. It will however summarize the latest findings regarding the molecular interactions at play in the recognition of FVIII by the immune cells, the validity of the proposed risk factors for FVIII alloimmunization, and the different solutions that allow induction of FVIII-specific tolerance in preclinical models of hemophilia A.
Ultrastructure of the granulocytes of the South American lungfish, Lepidosiren paradoxa: Morphogenesis and comparison to other leucocytes

Ultrastructure and peroxidase cytochemistry of the granulocytes of the lungfish Lepidosiren paradoza were investigated. In peripheral blood and hemopoietic tissue (kidney and spleen) only three granulocytic types were found. After comparison with light microscopic images of Giemsa‐stained semithin sections the granulocytes were tentatively designated as eosinophilic I, eosinophilie II, and a basophilic type.
Endogenous glucagon-like peptide- 1 and 2 are essential for regeneration after acute intestinal injury in mice

Objective Mucositis is a side effect of chemotherapy seen in the digestive tract, with symptoms including pain, diarrhoea, inflammation and ulcerations. Our aim was to investigate whether endogenous glucagon-like peptide -1 and -2 (GLP-1 and GLP-2) are implicated in intestinal healing after chemotherapy-induced mucositis. Design We used a transgenic mouse model Tg(GCG.DTR)(Tg) expressing the human diphtheria toxin receptor in the proglucagon-producing cells. Injections with diphtheria toxin ablated the GLP-1 and GLP-2 producing L-cells in Tg mice with no effect in wild-type (WT) mice. Mice were injected with 5-fluorouracil or saline and received vehicle, exendin-4, teduglutide (gly2-GLP-2), or exendin-4/teduglutide in combination. The endpoints were body weight change, small intestinal weight, morphology, histological scoring of mucositis and myeloperoxidase levels. Results Ablation of L-cells led to impaired GLP-2 secretion; increased loss of body weight; lower small intestinal weight; lower crypt depth, villus height and mucosal area; and increased the mucositis severity score in mice given 5-fluorouracil. WT mice showed compensatory hyperproliferation as a sign of regeneration in the recovery phase. Co-treatment with exendin-4 and teduglutide rescued the body weight of the Tg mice and led to a hyperproliferation in the small intestine, whereas single treatment was less effective. Conclusion The ablation of L-cells leads to severe mucositis and insufficient intestinal healing, shown by severe body weight loss and lack of compensatory hyperproliferation in the recovery phase. Co-treatment with exendin-4 and teduglutide could prevent this. Because both peptides were needed, we can conclude that both GLP-1 and GLP-2 are essential for intestinal healing in mice.
An Overview of Coverage of BCG Vaccination and Its Determinants Based on Data from the Coverage Survey in Zhejiang Province

To assess the Bacille Calmette-Guérin (BCG) vaccination coverage in Zhejiang province and to investigate predictors of the BCG vaccination, we used data from the 2017 Zhejiang provincial coverage survey. Demographic and immunization data on the selected children, their mothers, and their families were also collected by using a pre-tested questionnaire. BCG scars were verified among children who were available at the moment of survey. Coverage of BCG and other expanded program on immunization (EPI) vaccines scheduled before the first year of life was calculated. BCG coverage through the scar assessment and timeliness of BCG were also presented. Multivariate analyses of the predictors associated with the BCG vaccination and its timeliness were conducted separately. In total, 1393 children agreed to participate in the survey and presented the immunization cards. Of them, the coverage of BCG was 92.0% and 88.3% received the BCG within the first 28 days after birth. Besides this, 1282 out of the 1393 children were screened for the BCG scars and 97.1% of them had developed the scars. The multivariable logistic regression analyses indicated that hospital delivery, higher maternal education, a mother with no job, and a resident child were positively associated with the higher BCG vaccination coverage and its timely administrations. BCG coverage was optimal and it was administered in a timely manner. The majority of children vaccinated with BCG developed scars. Tailored interventions should be more greatly focused on and targeted to children with the risk factors identified in this study.
Correlates of Follicular Helper Bias in the CD4 T Cell Response to a Retroviral Antigen

CD4+ T cell differentiation is influenced by a plethora of intrinsic and extrinsic factors, providing the immune system with the ability to tailor its response according to specific stimuli. Indeed, different classes of pathogens may induce a distinct balance of CD4+ T cell differentiation programmes. Here, we report an uncommonly strong bias toward follicular helper (Tfh) differentiation of CD4+ T cells reactive with a retroviral envelope glycoprotein model antigen, presented in its natural context during retroviral infection. Conversely, the response to the same antigen, presented in different immunization regimens, elicited a response typically balanced between Tfh and T helper 1 cells. Comprehensive quantitation of variables known to influence Tfh differentiation revealed the closest correlation with the strength of T cell receptor (TCR) signaling, leading to PD-1 expression, but not with surface TCR downregulation, irrespective of TCR clonotypic avidity. In contrast, strong TCR signaling leading to TCR downregulation and induction of LAG3 expression in high TCR avidity clonotypes restrained CD4+ T cell commitment and further differentiation. Finally, stunted Th1 differentiation, correlating with limited IL-2 availability in retroviral infection, provided permissive conditions for Tfh development, suggesting that Tfh differentiation is the default program of envelope-reactive CD4+ T cells.
An integrated analysis of key microRNAs, regulatory pathways and clinical relevance in bladder cancer

Objective The aim of this study was to identify the key microRNAs (miRNAs) and their regulatory networks in bladder cancer (BC). Materials and methods Three miRNA and three gene expression microarray datasets were downloaded for analysis from Gene Expression Omnibus database. The differentially expressed miRNAs (DEMs) and differentially expressed genes (DEGs) were accessed by the use of GEO2R. Gene ontology process and Kyoto Encyclopedia of Genes and Genomes pathway enrichment analyses were performed by using the Database for Annotation, Visualization and Integrated Discovery program. Protein–protein interaction (PPI) and miRNA–mRNA regulatory networks were established by using the Search Tool for the Retrieval of Interacting Genes/Proteins and Cytoscape tool. Besides, the results and clinical significance were validated in The Cancer Genome Atlas (TCGA) dataset. Results A total of 18 significant DEMs, 121 upregulated DEGs and 199 downregulated DEGs were identified. Functional enrichment analysis showed that significant DEGs were related to cell cycle and MAPK pathway in BC. Key DEGs such as CDK1, CCNB1, VGL and PRKCA were found as the hub genes in PPI networks. TCGA analysis supported our results, and the miRNAs were correlated with the pathological stages and survival of BC patients. Conclusion In this study, we found 18 DEMs that may play key roles in the regulatory networks of BC. The higher expression of miR-99a, miR-100, miR-125b, miR-145, miR-214 and miR-487b or the lower expression of miR-138 and miR-200a can indicate poor survival in the prognosis of BC. Further experimental studies are required to test our results.
Concurrent Validity of a Rugby-Specific Yo-Yo Intermittent Recovery Test (Level 1) for Assessing Match-Related Running Performance.

Dobbin, N, Highton, J, Moss, SL, Hunwicks, R, and Twist, C. Concurrent validity of a rugby-specific Yo-Yo intermittent recovery test (level 1) for assessing match-related running performance. J Strength Cond Res XX(X): 000-000, 2018-This study investigated the concurrent validity of a rugby-specific high-intensity intermittent running test against the internal, external, and perceptual responses to simulated match play. Thirty-six rugby league players (age 18.5 ± 1.8 years; stature 181.4 ± 7.6 cm; body mass 83.5 ± 9.8 kg) completed the prone Yo-Yo Intermittent Recovery Test (Yo-Yo IR1), of which 16 also completed the Yo-Yo IR1, and 2 × ∼20 minute bouts of a simulated match play (rugby league match simulation protocol for interchange players [RLMSP-i]). Most likely reductions in relative total, low-speed and high-speed distance, mean speed, and time above 20 W·kg (high metabolic power [HMP]) were observed between bouts of the RLMSP-i. Likewise, rating of perceived exertion (RPE) and percentage of peak heart rate (%HRpeak) were very likely and likely higher during the second bout. Pearson's correlations revealed a large relationship for the change in relative distance (r = 0.57-0.61) between bouts with both Yo-Yo IR1 tests. The prone Yo-Yo IR1 was more strongly related to the RLMSP-i for change in repeated sprint speed (r = 0.78 cf. 0.56), mean speed (r = 0.64 cf. 0.36), HMP (r = 0.48 cf. 0.25), fatigue index (r = 0.71 cf. 0.63), %HRpeak (r = -0.56 cf. -0.35), RPEbout1 (r = -0.44 cf. -0.14), and RPEbout2 (r = -0.68 cf. -0.41) than the Yo-Yo IR1, but not for blood lactate concentration (r = -0.20 to -0.28 cf. -0.35 to -0.49). The relationships between prone Yo-Yo IR1 distance and measures of load during the RLMSP-i suggest that it possesses concurrent validity and is more strongly associated with measures of training or match load than the Yo-Yo IR1 using rugby league players.
The horizontal septum: Mechanisms of force transfer in locomotion of scombrid fishes (Scombridae, Perciformes)

We describe the complex shapes of myomeres and myosepta in the mackerels and tunas (Scombridae: Teleostei), and we reveal the orientation of two major systems of collagen fibers in myosepta and horizontal septa with respect to points of attachment to skeleton and skin. Our goal is to identify the likely pathways of the transmission of muscle forces during locomotion. Our primary conclusions are (1) that the collagen fibers of myosepta, horizontal septa, and skin are the organs that transfer locomotor forces from the contraction of myomeres to the backbone and caudal fin during locomotion, and (2) that locomotor muscle pulls against a three‐dimensional structure of tendons, septa, and skin that is kept in tension by the radial expansion of the contracting muscle. The main horizontal septum is formed by the convergence of myosepta and is likely to be the major transmitter of muscle force to the axial skeleton. The geometry of the myomeres, the position of red muscle, and particularly the geometric conformation of crossed‐fiber arrays of collagen in the main horizontal septum suggest specific mechanisms for the transfer of muscle force to the backbone among scombrid fishes. Morphometrics and the construction of physical models help us to identify musculoskeletal mechanisms of locomotion, and we present two quantitative models of locomotor mechanics in fishes. © 1993 Wiley‐Liss, Inc.
Effects of hemocoagulase agkistrodon on the coagulation factors and its procoagulant activities

Objective Hemocoagulase agkistrodon (HCA), a thrombin-like enzyme (TLE) from the venom of the Chinese moccasin snake (Deinagkistrodon acutus), has been used in clinical practice as a hemostatic compound. The aim of this study was to further investigate the pharmacological properties of HCA. Materials and methods Sodium dodecyl sulfate or native polyacrylamide gel electrophoresis (SDS- or N-PAGE) as well as enzyme linked immunosorbent assays (ELISAs) were conducted to study the effects of HCA on the human plasma fibrinogen and prothrombin levels, as well as its in vitro interactions with some coagulation factors. In addition, the bleeding time effects of HCA in the mouse tail-bleeding model as well as its effects on the fibrinogen levels in rabbits were determined in vivo. Results In vitro results revealed that HCA exerts its procoagulant activities by hydrolyzing fibrinogen into segments that are easier to be absorbed, reducing the risk of thrombus formation. Besides, HCA could significantly inhibit the activation of prothrombin at the concentration of 0.3 μM. Unexpectedly, we also found that HCA was able to strongly bind to factor X/Xa (in a ratio of 1:1) and thus inhibit the acceleration of active factor X to tissue plasminogen activator-catalyzed plasminogen activation, demonstrating that it could be less likely to lead to thrombus formation. Finally, in vivo results indicated that HCA could significantly shorten the bleeding time in the mouse tail-bleeding model and had no effect on the fibrinogen levels in rabbits. Conclusion In summary, HCA, a unique and new family member of TLEs, may become a new clinical drug for the prevention and treatment of hemorrhage due to its unique and complex interactions with the blood system. Clarification of these features will enable us to further understand the mechanism of action of HCA and then promote its further application in clinical practice as a therapeutic drug.