Miracle-dz/UniFAR-FTUs huggingface dataset:
Modularity of Erdős‐Rényi random graphs

For a given graph G, each partition of the vertices has a modularity score, with higher values indicating that the partition better captures community structure in G. The modularity q∗(G) of the graph G is defined to be the maximum over all vertex partitions of the modularity score, and satisfies 0 ≤ q∗(G)<1. Modularity is at the heart of the most popular algorithms for community detection. We investigate the behaviour of the modularity of the Erdős‐Rényi random graph Gn,p with n vertices and edge‐probability p. Two key findings are that the modularity is 1+o(1) with high probability (whp) for np up to 1+o(1) and no further; and when np ≥ 1 and p is bounded below 1, it has order (np)−1/2 whp, in accord with a conjecture by Reichardt and Bornholdt in 2006. We also show that the modularity of a graph is robust to changes in a few edges, in contrast to the sensitivity of optimal vertex partitions.
Fractional flow reserve (FFR) as a guide to treat coronary artery disease

ABSTRACT Introduction: The presence and extent of myocardial ischemia are the major determinants of prognosis in patients with coronary artery disease (CAD). Unlike coronary angiography alone, fractional flow reserve (FFR) has enabled interventional cardiologists to accurately determine whether coronary atherosclerotic plaques are responsible for myocardial ischemia, and therefore deserve to be revascularized. Areas covered: An overview on the role of FFR in the diagnosis and treatment of coronary artery disease, as well as the potential related controversies is provided. Authors describe the coronary physiology underneath this technique and all the procedural aspects in the catheterization laboratory. The landmark trials and the current applications in different coronary lesions and syndromes are also described and potential future research involving FFR and comparisons with other methodologies for the evaluation of coronary physiology are introduced. Expert commentary: FFR is still unsurpassed in diagnostic performance when compared to non-hyperemic indices and noninvasive techniques, and remains the gold standard for the detection of ischemia-inducing coronary stenoses. FFR-guided PCI has been demonstrated superior to an angiography-guided PCI and over medical therapy alone, and ongoing investigation will clarify whether it could perform better, or at least equalize the results of cardiac surgery in patients with severe multivessel disease.
Natural history of 39 patients with Achondroplasia

OBJECTIVES: To characterize the natural history of 39 achondroplastic patients diagnosed by clinical, radiological and molecular assessments. METHODS: Observational and retrospective study of 39 patients who were attended at a public tertiary level hospital between 1995 and 2016. RESULTS: Diagnosis was made prenatally in 11 patients, at birth in 9 patients and within the first year of life in 13 patients. The most prevalent clinical findings were short stature, high forehead, trident hands, genu varum and macrocephaly. The most prevalent radiographic findings were rhizomelic shortening of the long bones and narrowing of the interpediculate distance of the caudal spine. There was motor developmental delay in 18 patients and speech delay in 16 patients. The most common clinical intercurrences were middle ear dysfunction, sleep apnea, limb pain and obesity from 2 to 9 years of age. One patient was large for the gestational age but did not develop obesity. One patient developed hydrocephalus at 10 years old. The current age of the patients varies from 15 months to 36 years. The molecular study performed by Sanger sequencing of the common heterozygous mutation 1138G>A in FGFR3 was positive in all patients. Four cases were inherited, and 35 were sporadic (paternal age from 19 to 66 years). CONCLUSIONS: The diagnoses were made early based on clinical and radiographic findings. All cases were confirmed molecularly. Despite presenting a benign course, it is necessary to establish a systematic protocol for the surveillance of these patients due to the common clinical intercurrences.
The effect of errorless learning on psychotic and affective symptoms, as well as aggression and apathy in patients with Korsakoff's syndrome in long-term care facilities

ABSTRACT Objectives: Errorless learning is a promising rehabilitation principle for learning tasks in patients with amnesia, including patients with Korsakoff's syndrome. Errorless learning might possibly also contribute to decreases in behavioral and psychiatric problems, as patients in long-term care facilities become more independent after training. The aim of this study was to examine the effects of errorless learning on potential changes in psychotic and affective symptoms, aggression and apathy, in contrast with a control group who received care as usual. Methods: The current study is a quasi-experimental study on errorless learning and psychotic and affective symptoms, aggression, and apathy in patients with Korsakoff's syndrome, living in long-term care facilities for patients with Korsakoff's syndrome (KS) in the Netherlands. The GIP-28, HoNOS−ABI, and NVCL−20 were administered to a group of patients with KS who received errorless learning training (n = 51) and a patient control group who received care as usual (n = 31). Wilcoxon Signed-Rank Tests were performed to examine psychotic and affective symptoms, aggression, and apathy at baseline and at follow-up in the errorless learning group and the control group. Results: Errorless learning training effectively reduced psychotic symptoms (including provoked confabulations), affective symptoms, and agitation/aggression. There were no significant changes (increases nor decreases) in the control group. Levels of apathy were stable over time in both groups. Conclusions: Results with respect to psychotic and affective symptoms, aggression, and apathy are discussed in depth. Patients with KS can become more autonomous in a cared for setting using errorless learning principles. This might also result in decreases in behavioral and psychiatric problems in patients.
Effects of Cusp Inclination and Light-curing Time on Microshear Bond Strength of a Dual-cure, Self-adhesive Composite Cement to Zirconia.

PURPOSE To evaluate the effect of cusp inclination and light-curing time on the microshear bond strength (μSBS) between zirconia and a dual-cure self-adhesive composite cement and zirconia. MATERIALS AND METHODS Forty U-shaped specimens with angled surfaces, simulating different cusp inclinations (0 degrees, 20 degrees, and 30 degrees), were fabricated from zirconia blocks (Zenostar, Wieland). The specimens were randomly divided into two groups (n = 20) according to different light-curing times of the adhesive composite cements (20 s and 40 s). Three polyethylene tubes filled with a dual-curing self-adhesive composite cement (Multilink Speed, Ivoclar Vivadent) were bonded to the surfaces of each specimen with light-curing times of 20 s and 40 s. The μSBS was tested using a universal testing machine with a crosshead speed of 0.5 mm/min. Failure analysis was performed. Two-way ANOVA (cusp inclination and light-curing time) followed by two independent samples t-test were used for statistical analyses (α = 0.05). RESULTS The composite cement showed various bond strengths to angled zirconia surfaces (7.07 ± 1.69 to 13.91 ± 3.11 MPa). The μSBS between composite cement and 0-degree zirconia surfaces was statistically higher than that of 20- and 30-degree zirconia surfaces. The composite cement light cured for 40 s showed nonsignificantly higher μSBS than did the composite cement cured for 20 s. Adhesive failure was the most common failure mode. CONCLUSIONS Cusp inclination affected bond strength between the dual-curing self-adhesive composite cement and zirconia.
Chemoprevention of LA7-Induced Mammary Tumor Growth by SM6Met, a Well-Characterized Cyclopia Extract

Breast cancer (BC) is the leading cause of cancer-related deaths in women. Chemoprevention of BC by using plant extracts is gaining attention. SM6Met, a well-characterized extract of Cyclopia subternata with reported selective estrogen receptor subtype activity, has shown tumor suppressive effects in a chemically induced BC model in rats, which is known to be estrogen responsive. However, there is no information on the estrogen sensitivity of the relatively new orthotopic model of LA7 cell-induced mammary tumors. In the present study, the potential chemopreventative and side-effect profile of SM6Met on LA7 cell-induced tumor growth was evaluated, as was the effects of 17β-estradiol and standard-of-care (SOC) endocrine therapies, such as tamoxifen (TAM), letrozole (LET), and fulvestrant (FUL). Tumor growth was observed in the tumor-vehicle control group until day 10 post tumor induction, which declined afterward on days 12–14. SM6Met suppressed tumor growth to the same extent as TAM, while LET, but not FUL, also showed substantial anti-tumor effects. Short-term 17β-estradiol treatment reduced tumor volume on days prior to day 10, whereas tumor promoting effects were observed during long-term treatment, which was especially evident at later time points. Marked elevation in serum markers of liver injury, which was further supported by histological evaluation, was observed in the vehicle-treated tumor control, TAM, LET, and long-term 17β-estradiol treatment groups. Alterations in the lipid profiles were also observed in the 17β-estradiol treatment groups. In contrast, SM6Met did not augment the increase in serum levels of liver injury biomarkers caused by tumor induction and no effect was observed on lipid profiles. In summary, the results from the current study demonstrate the chemopreventative effect of SM6Met on mammary tumor growth, which was comparable to that of TAM, without eliciting the negative side-effects observed with this SOC endocrine therapy. Furthermore, the results of this study also showed some responsiveness of LA7-induced tumors to estrogen and SOC endocrine therapies. Thus, this model may be useful in evaluating potential endocrine therapies for hormone responsive BC.
The Polylog-Time Hierarchy Captured by Restricted Second-Order Logic

Let SO^plog denote the restriction of second-order logic, where second-order quantification ranges over relations of size at most poly-logarithmic in the size of the structure. In this article we investigate the problem, which Turing machine complexity class is captured by Boolean queries over ordered relational structures that can be expressed in this logic. For this we define a hierarchy of fragments Σ^plog_m (and Σ^plog_m) defined by formulae with alternating blocks of existential and universal second-order quantifiers in quantifier-prenex normal form. We first show that the existential fragment Σ^plog_1 captures npolylog, i.e. the class of Boolean queries that can be accepted by a non-deterministic Turing machine with random access to the input in time O((log n)^k) for some k ≥ 0. Using alternating Turing machines with random access input allows us to characterize also the fragments Σ^plog_m (and Σ^plog_m) as those Boolean queries with at most m alternating blocks of second-order quantifiers that are accepted by an alternating Turing machine. Consequently, SO^plog captures the whole poly-logarithmic time hierarchy. We demonstrate the relevance of this logic and complexity class by several problems in database theory.
ELECTROENCEPHALOGRAPHIC FRONTAL ALPHA ASYMMETRY AND BIOLOGICAL MARKERS OF THE IMMUNE SYSTEM

The immune system has been suggested as crucial in brain and psychological functioning. More precisely, immune markers reflecting immune system activity are important for psychological and mental health, as evident by their role in the physiopathology of depression and in the impairment of executive functions. Frontal alpha asymmetry (FAA), an electroencephalographic marker of brain function, has also been linked to such psychopathology and is thought to reflect psychological processes underlying approachversus withdrawal-related motivation and higher-order inhibitory control. Only a few studies have linked FAA to immune markers but notably found a negative association between IL-6, a pleiotropic proinflammatory cytokine, and FAA. The aim of the present work is thus to study the relationship between various immune markers (including pro-inflammatory cytokines and IL-6) and FAA. 35 healthy young male participants underwent a resting EEG recording and blood sampling from which immune markers were measured. The results did not suggest an association between IL-6 and FAA. No other immune markers were either suggested to be associated to FAA. The complexity of the immune system (e.g., effect of cytokines) is underlined and may explain the results. Despite such results, the implication of true negative correlations between FAA and circulating immune markers, as suggested in previous studies, is discussed in the light of the theoretical models of FAA. keywords: frontal alpha asymmetry; cytokines; IL-6; approach; withdrawal; behavioural inhibition system, executive functions; self-regulation; depression.
Superoxide dismutase 3 protects mesenchymal stem cells through enhanced autophagy and regulation of FoxO3a trafficking

Therapeutic applications of mesenchymal stem cells (MSCs) are limited due to their early death within the first few days of transplantation. Therefore, to improve the efficacy of cell-based therapies, it is necessary to manipulate MSCs so that they can resist various stresses imposed by the microenvironment. Moreover, the role of superoxide dismutase 3 (SOD3) in regulating such survival under different stress conditions remain elusive. In this study, we overexpressed SOD3 in MSCs (SOD3-MSCs) and evaluated its effect under serum starvation conditions. Nutritional limitation can decrease the survival rate of transplanted MSCs and thus can reduce their efficacy during therapy. Interestingly, we found that SOD3-MSCs exhibited reduced reactive oxygen species levels and greater survival rates than normal MSCs under serum-deprived conditions. In addition, overexpression of SOD3 attenuated starvation-induced apoptosis with increased autophagy in MSCs. Moreover, we have demonstrated that SOD3 protects MSCs against the negative effects of serum deprivation via modulation of AMP-activated protein kinase/sirtulin 1, extracellular signal-regulated kinase activation, and promoted Forkhead box O3a trafficking to the nucleus. Taken together, these results demonstrate that SOD3 promotes MSCs survival and add further evidence to the concept that SOD3-MSCs may be a potential therapeutic agent with better outcomes than normal MSCs for various diseases involving oxidative stress and compromised MSCs survival during therapy.
Clinicians’ moral distress and family satisfaction in the intensive care unit

This study explored the relationship between clinicians’ moral distress and family satisfaction with care in five intensive care units in Italy. A total of 122 clinicians (45 physicians and 77 nurses) and 59 family members completed the Italian Moral Distress Scale-Revised and the Family Satisfaction in the ICU questionnaire, respectively. Clinicians’ moral distress inversely correlated with family satisfaction related to the inclusion in the decision-making process. Specifically, physicians’ moral distress inversely correlated with satisfaction regarding the respect shown toward the patient. Nurses’ moral distress inversely correlated with satisfaction regarding breathlessness and agitation management, provision of emotional support, understanding of information, and inclusion in the decision-making process.
Visualizing conformational dynamics of proteins in solution and at the cell membrane

Conformational dynamics underlie enzyme function, yet are generally inaccessible via traditional structural approaches. FRET has the potential to measure conformational dynamics in vitro and in intact cells, but technical barriers have thus far limited its accuracy, particularly in membrane proteins. Here, we combine amber codon suppression to introduce a donor fluorescent noncanonical amino acid with a new, biocompatible approach for labeling proteins with acceptor transition metals in a method called ACCuRET (Anap Cyclen-Cu2+ resonance energy transfer). We show that ACCuRET measures absolute distances and distance changes with high precision and accuracy using maltose binding protein as a benchmark. Using cell unroofing, we show that ACCuRET can accurately measure rearrangements of proteins in native membranes. Finally, we implement a computational method for correcting the measured distances for the distance distributions observed in proteins. ACCuRET thus provides a flexible, powerful method for measuring conformational dynamics in both soluble proteins and membrane proteins.
Through ruminant nutrition to human health: role of fatty acids

In the last decades, a new awareness on human nutrition has increased and the concept of ‘food’ has changed from ‘source of nutrients for body’s needs’ to ‘health promoter’. Fruits and vegetables have always been considered beneficial for human health. More recent studies have demonstrated that bioactive components are also present in animal-derived foods, such as milk and dairy products. A broader concept of ‘nutritional safety’ implies the knowledge of how the nutrients contained in animal-derived foods positively affect human health, and how to increase their content. The improvement of dairy products fatty acid (FA) composition can involve strategies in animal nutrition. This review aims to discuss the role of FAs supplementation in ameliorating milk fat composition, environmental impact and animal health. In particular, we have focused on the role of n-3 and CLA FAs and how animal nutrition strategies can positively affect both human and animal health. Several studies have demonstrated that through adequate nutritional strategies is possible to manipulate and improve FA composition of milk and derived products (cheese). Moreover, feeding animals with n-3 FAs has proved to reduce emission of methane (CH 4 ), but further nutritional strategies are needed in order to address this crucial environmental issue. In relation to animal health, n-3 FAs have been proved to modulate immune and inflammatory response in dairy ruminants. Recent studies have addressed the potential programming effects of increased maternal n-3 polyunsaturated FAs intake on offspring’s immune functions showing that feeding bioactive FAs to pregnant animals can affect progeny health status.
Manifold Learning & Stacked Sparse Autoencoder for Robust Breast Cancer Classification from Histopathological Images

Computer aided diagnosis (CAD) of histopathological images (HI) requires efficient structural representation of the underlying surface tissue convolutions as manifested by the diverse breast cancerous (BC) tissue morphology. In this contribution, HI are modelled as spatially-progressive lower dimensional dynamical patterns embedded in the higher dimensional HI space. Manifold learning on these HI point-cloud is envisaged by LandMark ISOMAP (L-ISOMAP) for isometric feature mapping. The dimensionality reduced L-ISOMAP descriptors are cascaded with stacked sparse autoencoder (SSAE) for learning deep textural feature and tumor malignancy detection thereof. Classification accuracy of 99.4% obtained on publicly available BreaKHis dataset outperforms the state-of-theart methods and validates it’s adequacy as an adjunct tool to clinicians in confirming their diagnosis. Further, employing LIsomap based manifold embedding, the dimensionality of HI are reduced drastically without significant loss in its discriminating competency. These relieves the GPU requirement for SSAE aided deep learning. Experimental results are discussed in detail.
Physico‐chemical factors influencing spore germination in cyanobacterium Fischerella muscicola

Spore (akinete) formation in the heterocystous and branched filamentous cyanobacterium Fischerella muscicola involves a significant increase in cell size and formation of several endospores in each of the cells. In present study, the physico‐chemical factors (pH, light sources, nutrient deficiency, nitrogen sources, carbon sources, and growth hormones) affecting the germination of spores of F. muscicola were examined. Increase in spore germination frequency was detected above pH 8 with maximum germination (46.04%) recorded at pH 9, whereas a significant decrease in germination was observed at pH 6 when compared to control (pH 7.6). Spore germination was not observed at pH 5. Among light sources germination frequency followed the following order, that is, red light (39.9%) > white light (33.8%) > yellow light (3.4%) > green light (1.3%) whereas germination did not take place in dark and blue light. Ammonium chloride (NH4Cl) supported maximum (99.5%) germination frequency followed by calcium nitrate (Ca(NO3)2), potassium nitrate (KNO3), and minimum germination was observed in urea. Nutrient (phosphorus, calcium, and magnesium) deficiency significantly enhanced the germination frequency with maximum increase in magnesium (Mg) deficient condition. Further, supplementation of carbon sources (glucose, fructose, and sodium acetate) and growth hormones (IAA and GA) also enhanced the germination frequency in this cyanobacterium. Therefore, it may be concluded that, those factors supporting higher germination frequency could be considered for successful production and use of this cyanobacterium in biofertilizer and other algal production technologies.
Gait Analysis Parameters and Walking Activity Pre- and Postoperatively in Children With Cerebral Palsy

Purpose: This study examined the relationship between the Gait Deviation Index (GDI) and walking activity preoperatively and postoperatively. Methods: The GDI and walking activity from 74 youth with cerebral palsy (CP) were included in the analysis. The preoperative GDI was calculated using gait parameters collected during a clinical gait analysis 1 to 16 months prior to surgery. The postoperative GDI was calculated using gait parameters collected during a clinical gait analysis 10 to 26 months following surgery. Results: A weak correlation was present between the change in the average GDI and the change in strides. A moderate correlation was found between the change in the Surgery GDI and the change in strides. Conclusion: Single-event multilevel surgery improves gait deviations in children with CP. However, the improvement in gait pattern has limited correlation with postoperative change in walking activity. Our results demonstrate a need to pair surgical with additional intervention to affect long-term improvements in walking activity.