Miracle-dz/UniFAR-FTUs huggingface dataset:
iRhom 2-mediated proinflammatory signalling regulates heart repair following myocardial infarction

The role of proinflammation, and specifically TNF-a, on downstream fibrosis and healing after cardiac injury remains unknown. Using iRhom2-deficient mice, which lack myeloidspecific shedding of TNF-a, we reveal increased macrophages (MFs) that were skewed towards a more proinflammatory (M1) state at day 4, followed by more reparative, antiinflammatory (M2) state at day 7 after myocardial infarction (MI). However, associated functional cytokine expression was significantly reduced in iRhom2-mutant M1 and M2 MFs, respectively. A dampened proinflammatory signature in iRhom2-deficient mice during the acute phase of injury and subsequent changes in MF polarization were associated with reduced phagocytosis and a more sparse distribution within the scar region. This resulted in impaired collagen deposition and fibrosis, and increased left ventricular remodelling and mortality in iRhom2-deficient mice after MI. Our findings reveal a requirement for an iRhom2-mediated proinflammatory response during downstream scarring and fibrosis, which is driven in part by TNF-a signaling. These conclusions challenge the existing model that infarct repair is determined exclusively by antiinflammatory signaling of M2 MFs, and as such we propose an alternative view of immunomodulation to maintain effective healing after infarction. Research Article Cardiology Immunology
Two‐phase designs for joint quantitative‐trait‐dependent and genotype‐dependent sampling in post‐GWAS regional sequencing

We evaluate two‐phase designs to follow‐up findings from genome‐wide association study (GWAS) when the cost of regional sequencing in the entire cohort is prohibitive. We develop novel expectation‐maximization‐based inference under a semiparametric maximum likelihood formulation tailored for post‐GWAS inference. A GWAS‐SNP (where SNP is single nucleotide polymorphism) serves as a surrogate covariate in inferring association between a sequence variant and a normally distributed quantitative trait (QT). We assess test validity and quantify efficiency and power of joint QT‐SNP‐dependent sampling and analysis under alternative sample allocations by simulations. Joint allocation balanced on SNP genotype and extreme‐QT strata yields significant power improvements compared to marginal QT‐ or SNP‐based allocations. We illustrate the proposed method and evaluate the sensitivity of sample allocation to sampling variation using data from a sequencing study of systolic blood pressure.
Efficacy of Low-Molecular-Weight Fucoidan as a Supplemental Therapy in Metastatic Colorectal Cancer Patients: A Double-Blind Randomized Controlled Trial †

Background: Low-molecular-weight fucoidan (LMF) is widely used as a food supplement for cancer patients. However, all of the studies are in vitro or were conducted using mice. Therefore, powerful clinical evidence for LMF use is relatively weak. This study aimed to evaluate the efficacy of LMF as a supplemental therapy to chemo-target agents in metastatic colorectal cancer (mCRC) patients. Methods: We conducted a prospective, randomized, double-blind, controlled trial to evaluate the efficacy of LMF as a supplemental therapy to chemotarget agents in patients with metastatic colorectal cancer (mCRC). Sixty eligible patients with mCRC were included. Finally, 54 patients were enrolled, of whom 28 were included in the study group and 26 in the control group. The primary endpoint was the disease control rate (DCR), and secondary endpoints included the overall response rate (ORR), progression-free survival (PFS), overall survival (OS), adverse effects (AEs), and quality of life (QOL). Results: The DCRs were 92.8% and 69.2% in the study and control groups, respectively (p = 0.026), in a median follow-up period of 11.5 months. The OS, PFS, ORR, AEs, and QOL did not significantly differ between the two groups. Conclusion: This is the first clinical trial evaluating the efficacy of LMF as a supplemental therapy in the management of patients with mCRC. The results indicate that LMF combined with chemotarget agents significantly improved the DCR.
The invasive Red-vented bulbul (Pycnonotus cafer) outcompetes native birds in a tropical biodiversity hotspot

Invasive alien species are a major cause of biodiversity loss globally, but especially on islands where high species richness and levels of endemism accentuate their impacts. The Red vented bulbul (Pycnonotus cafer), a tropical passerine bird that has been introduced widely across locations of high conservation value, is considered an extreme pest. It is currently expanding its range in New Caledonia, one of the world’s biodiversity hotspots. Decisive recommendations on management strategies are required urgently to inform local managers and policy makers, but they should be based on quantitative local evidence, not just on expert opinion. The Red-vented bulbul is widely blamed for its impacts on biodiversity, especially through competition. We used data from 2,472 point counts to explore the abundance relationships between the Red-vented bulbul and 14 other species of bird. Our results revealed a negative relationship between the occurrence of the bulbul and the mean abundance of nine species, all native (or endemic, n = 3) to the New Caledonia archipelago. In contrast, the abundance of other introduced species such as Acridotheres tristis (Common myna), Passer domesticus (House sparrow) and Spilopelia chinensis (Spotted dove) were not affected by the Red-vented bulbul. Moreover, temporal trends in the abundance of impacted species suggest that the Red-vented bulbul may cause niche contractions rather than mortality for native species in man-modified habitats. Monitoring and control of the Red-vented bulbul is recommended to prevent on-going impacts on native bird communities throughout New Caledonia, and its impact on native bird communities elsewhere should be quantified.
Prevention and control of rheumatic heart disease: Overcoming core challenges in resource-poor environments

Rheumatic heart disease (RHD) has long receded as a significant threat to public health in high-income countries. In low-resource settings, however, the specter of RHD remains unabated, as exemplified by recent data from the Global Burden of Diseases Study. There are many complex reasons for this ongoing global disparity, including inadequate data on disease burden, challenges in effective advocacy, ongoing poverty and inequality, and weak health systems, most of which predominantly affect developing nations. In this review, we discuss how each of these acts as a core challenge in RHD prevention and control. We then examine key lessons learnt from successful control programs in the past and highlight resources that have been developed to help create strong national RHD control programs.
CVR: efficient vectorization of SpMV on x86 processors

Sparse Matrix-vector Multiplication (SpMV) is an important computation kernel widely used in HPC and data centers. The irregularity of SpMV is a well-known challenge that limits SpMV’s parallelism with vectorization operations. Existing work achieves limited locality and vectorization efficiency with large preprocessing overheads. To address this issue, we present the Compressed Vectorization-oriented sparse Row (CVR), a novel SpMV representation targeting efficient vectorization. The CVR simultaneously processes multiple rows within the input matrix to increase cache efficiency and separates them into multiple SIMD lanes so as to take the advantage of vector processing units in modern processors. Our method is insensitive to the sparsity and irregularity of SpMV, and thus able to deal with various scale-free and HPC matrices. We implement and evaluate CVR on an Intel Knights Landing processor and compare it with five state-of-the-art approaches through using 58 scale-free and HPC sparse matrices. Experimental results show that CVR can achieve a speedup up to 1.70 × (1.33× on average) and a speedup up to 1.57× (1.10× on average) over the best existing approaches for scale-free and HPC sparse matrices, respectively. Moreover, CVR typically incurs the lowest preprocessing overhead compared with state-of-the-art approaches.
Avoiding Discrimination through Causal Reasoning

Recent work on fairness in machine learning has focused on various statistical discrimination criteria and how they trade off. Most of these criteria are observational: They depend only on the joint distribution of predictor, protected attribute, features, and outcome. While convenient to work with, observational criteria have severe inherent limitations that prevent them from resolving matters of fairness conclusively. Going beyond observational criteria, we frame the problem of discrimination based on protected attributes in the language of causal reasoning. This viewpoint shifts attention from "What is the right fairness criterion? " to "What do we want to assume about the causal data generating process? " Through the lens of causality, we make several contributions. First, we crisply articulate why and when observational criteria fail, thus formalizing what was before a matter of opinion. Second, our approach exposes previously ignored subtleties and why they are fundamental to the problem. Finally, we put forward natural causal non-discrimination criteria and develop algorithms that satisfy them.
Influence of fire retardants on the reaction‐to‐fire properties of coextruded wood–polypropylene composites

The reaction‐to‐fire properties of coextruded wood–plastic composites containing different fire retardants (melamine, zinc borate, ammonium polyphosphate, aluminium trihydroxide, natural flake graphite and expandable graphite) in the shell layer have been studied with the cone calorimetry technique. The effect of ammonium polyphosphate in combination with graphite has also been studied with a cone calorimeter test. A coextruded composite manufactured without any fire retardant addition has been used as a reference. The fire properties measured in the cone calorimeter are discussed, including the heat release rate, total heat release, smoke production, specific extinction area, CO yield and mass loss rate. The results show that the introduction of fire retardants in the shell layer of coextruded wood–polypropylene composites has a favourable effect on the fire resistance properties of the composite materials. The reaction‐to‐fire properties have been improved according to the fire classification of construction products based on the Euroclass system. Copyright © 2015 John Wiley & Sons, Ltd.
Eventness: Object Detection on Spectrograms for Temporal Localization of Audio Events

In this paper, we introduce the concept of Eventness for audio event detection, which can, in part, be thought of as an analogue to Objectness from computer vision. The key observation behind the eventness concept is that audio events reveal themselves as 2-dimensional time-frequency patterns with specific textures and geometric structures in spectrograms. These time-frequency patterns can then be viewed analogously to objects occurring in natural images (with the exception that scaling and rotation invariance properties do not apply). With this key observation in mind, we pose the problem of detecting monophonic or polyphonic audio events as an equivalent visual object(s) detection problem under partial occlusion and clutter in spectrograms. We adapt a state-of-the-art visual object detection model to evaluate the audio event detection task on publicly available datasets. The proposed network has comparable results with a state-of-the-art baseline and is more robust on minority events. Provided large-scale datasets, we hope that our proposed conceptual model of eventness will be beneficial to the audio signal processing community towards improving performance of audio event detection.
Fibrin Clot Structure and Platelet Aggregation in Patients with Aspirin Treatment Failure

Background Aspirin is a cornerstone in prevention of cardiovascular events and modulates both platelet aggregation and fibrin clot formation. Some patients experience cardiovascular events whilst on aspirin, often termed aspirin treatment failure (ATF). This study evaluated both platelet aggregation and fibrin clot structure in patients with ATF. Methods We included 177 stable coronary artery disease patients on aspirin monotherapy. Among these, 116 (66%) had ATF defined as myocardial infarction (MI) whilst on aspirin. Platelet aggregation was assessed by Multiplate® aggregometry and VerifyNow®, whereas turbidimetric assays and scanning electron microscopy were employed to study fibrin clot characteristics. Results Enhanced platelet aggregation was observed in patients with ATF compared with non-MI patients following stimulation with arachidonic acid 1.0 mM (median 161 (IQR 95; 222) vs. 97 (60; 1776) AU*min, p = 0.005) and collagen 1.0 µg/mL (293 (198; 427) vs. 220 (165; 370) AU*min, p = 0.03). Similarly, clot maximum absorbance, a measure of fibrin network density, was increased in patients with ATF (0.48 (0.41; 0.52) vs. 0.42 (0.38; 0.50), p = 0.02), and this was associated with thinner fibres (mean ± SD: 119.7±27.5 vs. 127.8±31.1 nm, p = 0.003) and prolonged lysis time (552 (498; 756) vs. 519 (468; 633) seconds; p = 0.02). Patients with ATF also had increased levels of C-reactive protein (CRP) (1.34 (0.48; 2.94) and 0.88 (0.32; 1.77) mg/L, p = 0.01) compared with the non-MI group. Clot maximum absorbance correlated with platelet aggregation (r = 0.31–0.35, p-values<0.001) and CRP levels (r = 0.60, p<0.001). Conclusions Patients with aspirin treatment failure showed increased platelet aggregation and altered clot structure with impaired fibrinolysis compared with stable CAD patients without previous MI. These findings suggest that an increased risk of aspirin treatment failure may be identified by measuring both platelet function and fibrin clot structure.
INFLUENCE OF STRAIN RATE ON THE RESIDUAL STRENGTH OF A KAOLINITIC CLAY

DIFFERENCES IN THE RESIDUAL STRENGTH OF CLAY MAY ARISE FROM THE VARIOUS METHODS USED TO TEST IT BECAUSE OF THE LIMITATIONS OF EACH. THE CURRENT LITERATURE REVEALS THAT THE RESIDUAL STRENGTH OF NATURAL CLAYS OR CLAY MINERALS MAY DEPEND ON A NUMBER OF FACTORS AMONG THEM STRAIN RATE. IN THE INVESTIGATION DESCRIBED IN THIS TECHNICAL NOTE, THE STRAIN RATE INFLUENCE WAS STUDIED BY ADOPTING A MODIFIED PROCEDURE OF HUTCHINSON. DETAILS ARE GIVEN OF THE ATTERBERG LIMITS. GRAIN SIZE DISTRIBUTION, SPECIFIC GRAVITY, ACTIVITY AND ORGANIC CONTENT OF THE KAOLINITIC CLAY SAMPLES FROM BANGALORE INDIA, WERE USED IN THE INVESTIGATION. THE CONSOLIDATED SAMPLES WERE MOUNTED IN A DIRECT SHEAR BOX ALLOWED TO SATURATE UNDER NORMAL LOAD, AND TESTED UNDER NORMALLY CONSOLIDATED CONDITIONS. DURING THE FIRST FORWARD START, A LOW RATE OF STRAIN WAS APPLIED; THIS ALLOWED FOR COMPLETE PORE PRESSURE DISSIPATION AND BROUGHT THE PARTICLES AT THE EFFECTIVE STRESS STAGE. THE STRUCTURE AT THE RESIDUAL STAGE WAS STUDIED BY THE SHRINKAGE RATIO TECHNIQUE, THE SHRINKAGE RATIO WAS ALSO DETERMINED AT PEAK STAGE. /TRRL/
Progress and prospects for L2-based human papillomavirus vaccines

ABSTRACT Human papillomavirus (HPV) is a worldwide public health problem, particularly in resource-limited countries. Fifteen high-risk genital HPV types are sexually transmitted and cause 5% of all cancers worldwide, primarily cervical, anogenital and oropharyngeal carcinomas. Skin HPV types are generally associated with benign disease, but a subset is linked to non-melanoma skin cancer. Licensed HPV vaccines based on virus-like particles (VLPs) derived from L1 major capsid antigen of key high risk HPVs are effective at preventing these infections but do not cover cutaneous types and are not therapeutic. Vaccines targeting L2 minor capsid antigen, some using capsid display, adjuvant and fusions with early HPV antigens or Toll-like receptor agonists, are in development to fill these gaps. Progress and challenges with L2-based vaccines are summarized.
Eccrine spiradenoma mimicking adenoid cystic carcinoma on fine needle aspiration. A case report.

BACKGROUND Although the cytologic features of salivary gland tumors are well recognized, an adnexal skin tumor occurring in the same region, on occasion, may resemble and be confused with a salivary gland neoplasm. CASE A case of eccrine spiradenoma presented as a painful mass in the region of the parotid that mimicked an adenoid cystic carcinoma on fine needle aspiration cytology. CONCLUSION Fine needle aspirates of eccrine spiradenoma, a benign cutaneous adnexal tumor, may have findings that mimic those of adenoid cystic carcinoma. Both may have cell balls and rosettelike structures surrounding stromal matrix cores. Recognition of three cell types in eccrine spiradenomas, including epithelial cells, myoepithelial cells and lymphocytes, as compared to a single cell type in adenoid cystic carcinoma, is paramount in avoiding this potential pitfall in cytologic diagnosis.
Being BOLD: The neural dynamics of face perception

According to a non‐hierarchical view of human cortical face processing, selective responses to faces may emerge in a higher‐order area of the hierarchy, in the lateral part of the middle fusiform gyrus (fusiform face area [FFA]) independently from face‐selective responses in the lateral inferior occipital gyrus (occipital face area [OFA]), a lower order area. Here we provide a stringent test of this hypothesis by gradually revealing segmented face stimuli throughout strict linear descrambling of phase information [Ales et al., 2012]. Using a short sampling rate (500 ms) of fMRI acquisition and single subject statistical analysis, we show a face‐selective responses emerging earlier, that is, at a lower level of structural (i.e., phase) information, in the FFA compared with the OFA. In both regions, a face detection response emerging at a lower level of structural information for upright than inverted faces, both in the FFA and OFA, in line with behavioral responses and with previous findings of delayed responses to inverted faces with direct recordings of neural activity were also reported. Overall, these results support the non‐hierarchical view of human cortical face processing and open new perspectives for time‐resolved analysis at the single subject level of fMRI data obtained during continuously evolving visual stimulation. Hum Brain Mapp 38:120–139, 2017. © 2016 Wiley Periodicals, Inc.
The Effects of Diet on the Proportion of Intramuscular Fat in Human Muscle: A Systematic Review and Meta-analysis

Background There is an increasing trend in the consumption of poor-quality diets worldwide, contributing to the increase of non-communicable diseases. Diet directly influences physiological composition and subsequently physical health. Studies have shown that dietary macronutrient and energy content can influence the proportion of intramuscular fat (IMF), which mediates various metabolic and endocrine dysfunction. The purpose of this systematic review was to identify evidence in the literature assessing the association between different dietary interventions on the proportion of IMF in humans. Methods Three medical databases were investigated (Medline, EMBASE, and Cochrane) to identify studies assessing changes in IMF after dietary interventions. The primary outcome measure was the change in IMF proportions after a dietary intervention. The effects of high-fat, high-carbohydrate, low-calorie, and starvation diets were assessed qualitatively. A meta-analysis assessing the effect of high-fat diets was conducted. Follow-up sensitivity and subgroup analyses were also conducted. Results One thousand eight hundred and sixty-six articles were identified for review. Of these articles, 13 were eligible for inclusion after a full screening. High-fat diets increased IMF proportions, standardized mean difference = 1.24 (95% confidence interval, 0.43–2.05) and a significant overall effect size (P = 0.003). Diets with an increased proportion of carbohydrates decreased IMF proportions; however, increasing caloric intake with carbohydrates increased IMF. Starvation diets increased IMF stores, and hypocaloric diets did not result in any IMF proportion changes. Conclusion This systematic review suggests that high-fat diets and diets with caloric intake increased above the amount required to maintain BMI with carbohydrates, and short-term starvation diets are associated with increases in IMF content. Further studies are needed to assess the effects of macronutrient combinations on IMF and the influence of diet-induced IMF alterations on health outcomes. In addition, IMF poses a possibly effective clinical marker of health.
Immunocytochemistry Applied to Aspiration Biopsy Cytology

OBJECTIVE To assess the contribution of immunocytochemistry (ICC) to aspiration biopsy cytology (ABC), in a diagnostic context, on routine, previously stained cytologic specimens. STUDY DESIGN Among 5,221 consecutive cases of ABC, 5.3% were subjected to ICC in the clinical-morphologic context. One hundred of these cases, with a final clinical and histopathologic diagnosis, were studied to determine the contribution of this ancillary technique to the final cytologic diagnosis. All cases had histopathologic study and prospective ICC, performed on usual smears, alcohol fixed and previously stained by the Papanicolaou technique, and were subjected to an avidinbiotin-peroxidase complex method. RESULTS ICC was contributory in 82% of cases. The contribution of ICC to ABC of lymphoid tissue, thyroid and related organs, soft tissue and miscellaneous cases was, respectively, 84% (39 cases), 88% (26), 72% (18) and 76% (17). ICC was noncontributory in 18 cases, due mainly to misleading interpretation (6%), uncharacteristic profile (5%) and inconclusive immunostain (7%). CONCLUSION ICC could be successfully applied in routine ABC specimens since the usually investigated antigenic determinants are preserved, allowing previous morphologic study and screening of the smears. The principal contribution of ICC applied to lymph nodes, thyroid and soft tissue aspirates was, respectively, confirmation of metastatic neoplasms, differential of follicular versus C-cell proliferation and assessment of mesenchymal lineages.
Using Goal- and Grip-Related Information for Understanding the Correctness of Other’s Actions: An ERP Study

Detecting errors in other’s actions is of pivotal importance for joint action, competitive behavior and observational learning. Although many studies have focused on the neural mechanisms involved in detecting low-level errors, relatively little is known about error-detection in everyday situations. The present study aimed to identify the functional and neural mechanisms whereby we understand the correctness of other’s actions involving well-known objects (e.g. pouring coffee in a cup). Participants observed action sequences in which the correctness of the object grasped and the grip applied to a pair of objects were independently manipulated. Observation of object violations (e.g. grasping the empty cup instead of the coffee pot) resulted in a stronger P3-effect than observation of grip errors (e.g. grasping the coffee pot at the upper part instead of the handle), likely reflecting a reorienting response, directing attention to the relevant location. Following the P3-effect, a parietal slow wave positivity was observed that persisted for grip-errors, likely reflecting the detection of an incorrect hand-object interaction. These findings provide new insight in the functional significance of the neurophysiological markers associated with the observation of incorrect actions and suggest that the P3-effect and the subsequent parietal slow wave positivity may reflect the detection of errors at different levels in the action hierarchy. Thereby this study elucidates the cognitive processes that support the detection of action violations in the selection of objects and grips.