Miracle-dz/UniFAR-FTUs huggingface dataset:
Higher Adalimumab Drug Levels During Maintenance Therapy for Crohn's Disease Are Associated With Biologic Remission.

BACKGROUND Adalimumab is an established treatment for Crohn's disease. Limited data are available regarding the relationship between adalimumab drug levels and serum/fecal markers of gut inflammation. We therefore aimed to characterize the relationship between adalimumab levels and biologic remission during maintenance therapy. METHODS A single-center prospective cross-sectional study was undertaken on Crohn's disease patients who had received adalimumab therapy for a minimum of 12 weeks after induction. Data on clinical activity (Harvey-Bradshaw Index), C-reactive protein (CRP), adalimumab drug and antibody levels, and fecal calprotectin were collected. Biologic remission was defined as a CRP <5 mg/L and fecal calprotectin <250 µg/g. Adalimumab drug and antibody levels were processed using the Immundiagnostik monitor enzyme-linked immunosorbent assay. RESULTS One hundred fifty-two patients had drug and antibody samples matched with CRP and fecal calprotectin. Patients in biologic remission had significantly higher adalimumab levels compared with others (12.0 µg/mL vs 8.0 µg/mL, P < 0.0001). Receiver operating characteristic curve analysis demonstrated an optimal adalimumab level of >8.5 µg/mL (sensitivity, 82.2%; specificity, 55.7%; likelihood ratio, 1.9) for predicting biologic remission. Multivariable logistic regression revealed that adalimumab levels >8.5 µg/mL were independently associated with biologic remission (odds ratio, 5.27; 95% confidence interval, 2.43-11.44; P < 0.0001). CONCLUSIONS Higher adalimumab levels are associated with biologic remission. An optimal level of >8.5 µg/mL was identified.
Convolutional Neural Networks for Energy Time Series Forecasting

We investigate the application of convolutional neural networks for energy time series forecasting. In particular, we consider predicting the photovoltaic solar power and electricity load for the next day, from previous solar power and electricity loads. We compare the performance of convolutional neural networks with multilayer perceptron neural networks, which are one of the most popular and successful methods used for these tasks, and also with long short-term memory recurrent neural networks and a persistence baseline. The evaluation is conducted using four solar and electricity time series from three countries. Our results showed that the convolutional and multilayer perceptron neural networks performed similarly in terms of accuracy and training time, and outperformed the other models. This highlights the potential of convolutional neural networks for energy time series forecasting.
Effect of schistosomiasis on the outcome of patients infected with HIV-1 starting antiretroviral therapy in rural Tanzania

Background It has been hypothesized that schistosomiasis negatively influences immune reconstitution in people living with HIV starting antiretroviral therapy (ART). In this study, we investigated the effect of schistosomiasis on the course of HIV infection in patients starting ART in a rural part of Tanzania. Methodology Retrospective study including patients prospectively enrolled in a HIV cohort in Ifakara, south-central Tanzania between January 1, 2013 and April 1, 2015. Schistosomal circulating anodic antigen (CAA) was assessed in pre-ART cryopreserved plasma. Regression models were utilized to estimate the effect of CAA positivity on virological and immunological failure and a composite outcome of death/loss to follow-up (LFU). Principal findings At ART-initiation 19.1% (88/461) of patients were CAA-positive. A tendency of higher CD4 increases was seen in CAA-positive patients (+182 cells/μl, interquartile range (IQR), 87–285 cells/μl) compared to CAA-negative patients (+147 cells/μl, IQR, 55–234 cells/μl, p = 0.09) after 10 months of follow-up. After adjustment for baseline risk factors, CAA-positivity showed no association with virological or immunological failure. In CAA-positive patients, 22.7% (20/88) died or were LFU, compared to 29.5% (110/373) of CAA-negative patients (hazard ratio (HR): 0.76, 95% confidence interval (CI), 0.47–1.22, p = 0.25). After adjustment for age, sex, body mass index, educational attainment, WHO-stage, tuberculosis status, and year of ART initiation, CAA-positivity showed a trend of a decreased hazard of death/LFU (HR: 0.58, 95% CI: 0.32–1.05, p = 0.07), while CD4 count at baseline (HR: 0.86, 95% CI: 0.76–1.00, p = 0.02) and MXD (sum of eosinophils, basophils, and monocytes counts) >1,100 cells/μl (HR: 0.56, 95% CI: 0.34–0.93, p = 0.03) were identified as independently protective factors. Conclusions/Significance Schistosomiasis is prevalent in this HIV cohort and may be beneficial for immunological reconstitution, while no effect on virological failure was apparent. A positive effect of schistosomiasis-induced immunomodulation on survival and retention in care needs confirmation in future studies.
Gait Event Detection in Controlled and Real-Life Situations: Repeated Measures From Healthy Subjects

A benchmark and time-effective computational method is needed to assess human gait events in real-life walking situations using few sensors to be easily reproducible. This paper fosters a reliable gait event detection system that can operate at diverse gait speeds and on diverse real-life terrains by detecting several gait events in real time. This detection only relies on the foot angular velocity measured by a wearable gyroscope mounted in the foot to facilitate its integration for daily and repeated use. To operate as a benchmark tool, the proposed detection system endows an adaptive computational method by applying a finite-state machine based on heuristic decision rules dependent on adaptive thresholds. Repeated measurements from 11 healthy subjects (28.27 ± 4.17 years) were acquired in controlled situations through a treadmill at different speeds (from 1.5 to 4.5 km/h) and slopes (from 0% to 10%). This validation also includes heterogeneous gait patterns from nine healthy subjects (27 ± 7.35 years) monitored at three self-selected paces (from 1 ± 0.2 to 2 ± 0.18 m/s) during forward walking on flat, rough, and inclined surfaces and climbing staircases. The proposed method was significantly more accurate ( ${p}>\textsf {0.9925}$ ) and time effective (< 30.53 ± 9.88 ms, ${p}>\textsf {0.9314}$ ) in a benchmarking analysis with a state-of-the-art method during 5657 steps. Heel strike was the gait event most accurately detected under controlled (accuracy of 100%) and real-life situations (accuracy > 96.98%). Misdetection was more pronounced in middle mid swing (accuracy > 90.12%). The lower computational load, together with an improved performance, makes this detection system suitable for quantitative benchmarking in the locomotor rehabilitation field.
Adversarial Semantic Scene Completion from a Single Depth Image

We propose a method to reconstruct, complete and semantically label a 3D scene from a single input depth image. We improve the accuracy of the regressed semantic 3D maps by a novel architecture based on adversarial learning. In particular, we suggest using multiple adversarial loss terms that not only enforce realistic outputs with respect to the ground truth, but also an effective embedding of the internal features. This is done by correlating the latent features of the encoder working on partial 2.5D data with the latent features extracted from a variational 3D auto-encoder trained to reconstruct the complete semantic scene. In addition, differently from other approaches that operate entirely through 3D convolutions, at test time we retain the original 2.5D structure of the input during downsampling to improve the effectiveness of the internal representation of our model. We test our approach on the main benchmark datasets for semantic scene completion to qualitatively and quantitatively assess the effectiveness of our proposal.
RStream: Marrying Relational Algebra with Streaming for Efficient Graph Mining on A Single Machine

Graph mining is an important category of graph algorithms that aim to discover structural patterns such as cliques and motifs in a graph. While a great deal of work has been done recently on graph computation such as PageRank, systems support for scalable graph mining is still limited. Existing mining systems such as Arabesque focus on distributed computing and need large amounts of compute and memory resources. We built RStream, the first single-machine, out-of-core mining system that leverages disk support to store intermediate data. At its core are two innovations: (1) a rich programming model that exposes relational algebra for developers to express a wide variety of mining tasks; and (2) a runtime engine that implements relational algebra efficiently with tuple streaming. A comparison between RStream and four state-of-the-art distributed mining/Datalog systems--Arabesque, ScaleMine, DistGraph, and BigDatalog -- demonstrates that RStream outperforms all of them, running on a 10-node cluster, e.g., by at least a factor of 1.7×, and can process large graphs on an inexpensive machine.
Impacts of Paraburkholderia phytofirmans Strain PsJN on Tomato (Lycopersicon esculentum L.) Under High Temperature

Abnormal temperatures induce physiological and biochemical changes resulting in the loss of yield. The present study investigates the impact of the PsJN strain of Paraburkholderia phytofirmans on tomato (Lycopersicon esculentum Mill.) in response to heat stress (32°C). The results of this work showed that bacterial inoculation with P. phytofirmans strain PsJN increased tomato growth parameters such as chlorophyll content and gas exchange at both normal and high temperatures (25 and 32°C). At normal temperature (25°C), the rate of photosynthesis and the photosystem II activity increased with significant accumulations of sugars, total amino acids, proline, and malate in the bacterized tomato plants, demonstrating that the PsJN strain had a positive effect on plant growth. However, the amount of sucrose, total amino acids, proline, and malate were significantly affected in tomato leaves at 32°C compared to that at 25°C. Changes in photosynthesis and chlorophyll fluorescence showed that the bacterized tomato plants were well acclimated at 32°C. These results reinforce the current knowledge about the PsJN strain of P. phytofirmans and highlight in particular its ability to alleviate the harmful effects of high temperatures by stimulating the growth and tolerance of tomato plants.
Pyrolysis and Combustion of Polyvinyl Chloride (PVC) Sheath for New and Aged Cables via Thermogravimetric Analysis-Fourier Transform Infrared (TG-FTIR) and Calorimeter

To fill the shortages in the knowledge of the pyrolysis and combustion properties of new and aged polyvinyl chloride (PVC) sheaths, several experiments were performed by thermogravimetric analysis (TG), Fourier transform infrared (FTIR), microscale combustion calorimetry (MCC), and cone calorimetry. The results show that the onset temperature of pyrolysis for an aged sheath shifts to higher temperatures. The value of the main derivative thermogravimetric analysis (DTG) peak of an aged sheath is greater than that of a new one. The mass of the final remaining residue for an aged sheath is also greater than that of a new one. The gas that is released by an aged sheath is later but faster than that of a new one. The results also show that, when compared with a new sheath, the heat release rate (HRR) is lower for an aged one. The total heat release (THR) of aged sheath is reduced by 16.9–18.5% compared to a new one. In addition, the cone calorimetry experiments illustrate that the ignition occurrence of an aged sheath is later than that of a new one under different incident heat fluxes. This work indicates that an aged sheath generally pyrolyzes and it combusts more weakly and incompletely.
Dietary Choline Intake: Current State of Knowledge Across the Life Cycle

Choline, an essential dietary nutrient for humans, is required for the synthesis of the neurotransmitter, acetylcholine, the methyl group donor, betaine, and phospholipids; and therefore, choline is involved in a broad range of critical physiological functions across all stages of the life cycle. The current dietary recommendations for choline have been established as Adequate Intakes (AIs) for total choline; however, dietary choline is present in multiple different forms that are both water-soluble (e.g., free choline, phosphocholine, and glycerophosphocholine) and lipid-soluble (e.g., phosphatidylcholine and sphingomyelin). Interestingly, the different dietary choline forms consumed during infancy differ from those in adulthood. This can be explained by the primary food source, where the majority of choline present in human milk is in the water-soluble form, versus lipid-soluble forms for foods consumed later on. This review summarizes the current knowledge on dietary recommendations and assessment methods, and dietary choline intake from food sources across the life cycle.
Crizotinib induces apoptosis of lung cancer cells through JAK-STAT pathway

Effect of crizotinib on apoptosis of lung cancer cells was investigated. Human non-small cell lung adenocarcinoma H2228 cells were cultured in the presence of 0, 20, 40, 80, 160 and 320 nmol/l of crizotinib for 3 days, respectively. The inhibition rate of cell proliferation was measured by MTT assay, and half maximal inhibitory concentration (IC50) was calculated. Cell apoptosis was detected by flow cytometry. Transwell assay was performed to detect cell migration. Expression of Janus protein tyrosine kinase (JAK) and signal transducer and activator of transcription (STAT) proteins was detected by western blot analysis. Crizotinib significantly inhibited the proliferation of human lung cancer H2228 cells, and the inhibitory effect was enhanced with the increase of the concentration of crizotinib (p<0.01). The IC50 value was 311.26 nnol/l. According to IC50 value, concentration of crizotinib at 300 nmol/l was selected for the study. It was found that crizotinib at 300 nmol/l significantly promoted cell apoptosis (p<0.01) and inhibited cell migration (p<0.01). Compared with pretreatment levels, crizotinib downregulated the expression of JAK and STAT (p<0.01) on the 1st day of treatment, but with the prolongation of time, no further significant difference was observed on the 1st, 2nd or 3rd day in the level of JAK protein (p=0.47); there were no statistically significant differences in the level of STAT protein (p=0.91). Crizotinib can inhibit the migration and promote cell apoptosis of human lung cancer cell line H2228 by regulating the expression of JAK and STAT proteins in JAK-STAT signaling pathway.
Antisickling and antioxidant relevance of twelve ethnomedicinal plants

Sickle cell anaemia is the most devastating monogenic disease throughout the world carrying autosomal recessive inheritance. Easily accessible and affordable medicinal plants play the crucial role in the primary treatment of the disease. This study comprises of twelve such medicinal plants having secondary metabolites and their effect on the sickling reversal in vitro, with their antioxidant properties. The antisickling activity of aqueous extracts of plants was calculated at different concentrations (250, 500, 1000 μg/ml). Fifty sickled and fifty normal subjects were involved with their written consents. The spectrophotometrical analysis of antioxidants were determined enzymatically and non-enzymatically at different concentrations. All the plants were found capable of inhibiting RBC hemolysis and sickling but S8 (M. charantia) extract recorded prevention from the hemolysis and antisickling activity at 250 μg/ml and also possess antioxidants. Apart from S8 extract, S12 (S. bicolor), S2 (A. sativum) and S6 (C. sinensis) have also recorded higher antisickling activity and extracts of S2 (A.sativum), S3 (A. occidentale), S4 (C. papaya), S5 (C. cajan), S6 (C. sinensis), S7 (E. caryophyllata), S8 (M. charantia) and S9 (P. guajava) recorded strong antioxidant activities enzymatically and non-enzymatically, thus bestowed promising antioxidant and in vitro antisickling effects.
Comparison of the response of frequently relapsing steroid-dependent minimal change nephrotic syndrome to rituximab therapy between childhood-onset and adult-onset disease

Abstract Rituximab has been approved in Japan for the treatment of intractable nephrotic syndrome, but in cases of childhood-onset disease only; its efficacy and safety in adult-onset disease has yet to be established. This study was undertaken to evaluate the efficacy of rituximab and adverse effects in patients with adult-onset minimal change nephrotic syndrome (MCNS). The study involved 32 childhood-onset cases (mean age at onset: 8.6 years) and 19 adult-onset cases (mean age at onset: 30.6 years) of frequently relapsing steroid-dependent MCNS, all of whom received intravenous rituximab drip infusion (375 mg/m2 body surface area per dose) at 4 time points at 6-month intervals. Relapse frequency, oral dose of immunosuppressants, and adverse effects were compared between the 2 groups. Remission was maintained in all cases in the childhood-onset and adult-onset groups; a significant reduction in relapse frequency was noted during the first 24 months of rituximab therapy (0.3 ± 0.7 times and 0.3 ± 0.6 times in the childhood-onset and adult-onset groups, respectively; P < .001). Oral corticosteroid therapy could be discontinued in 81.3% of cases of the childhood-onset group (26/32 cases) and in 70.6% of cases of the adult-onset group (12/17 cases); the oral corticosteroid dose was reduced significantly to 0.9 ± 2.5 mg/day in the childhood-onset group and to 0.8 ± 1.6 mg/day in the adult-onset group (P < .001). Cyclosporin treatment was also discontinued in 87.5% of cases in the childhood-onset group (21/24 cases) and in 80.0% of cases of the adult-onset group (15/21 cases); the oral cyclosporin dose was reduced significantly to 8.6 ± 27.4 mg/day and 9.2 ± 22.0 mg/day, respectively (P < .001). Regarding adverse reactions, infusion reactions developed at a frequency of 21.1% and 19.7% in both groups, respectively, with no significant inter-group difference (P = .72). Rituximab showed significant efficacy in adult-onset MCNS, with a comparable incidence of adverse reactions to that in childhood-onset cases, suggesting that this drug can also be used safely in adult-onset MCNS.
A System for Aiding Diagnosis of Alzheimer’s Disease and Related Disorders with an Adaptable Decision Model

Aging is a worldwide phenomenon and represents a growing concern for public health systems. In this context, neurodegenerative diseases like Alzheimer’s Disease (AD) have a high prevalence among the elderly. Early diagnosis of AD allows early treatment and improves patient’s quality of life. In this paper, we propose a clinical decision support system (CDSS) to aid physicians in diagnosis of AD and related disorders: Dementia (D) and Mild Cognitive Impairment (MCI). For each case, the system exhibits the most probable diagnosis, the most relevant health records and unobserved health records that could confirm such diagnosis. Moreover, the system has the ability to refine its decision model using the final diagnosis reported by physicians. The system can offer to physicians a friendly user interface designed for smartphones. The proposed decision support system is flexible and adaptable to different contexts, since it allows new neuropsychological tests to be included and its decision model to be adapted automatically. Clinical cases from Center for Alzheimer’s Disease (CAD) of Federal University of Rio de Janeiro (UFRJ) were used as the training dataset for the proposed supervised learning method. Preliminary tests using clinical cases from Antônio Pedro University Hospital (HUAP) of Fluminense Federal University (UFF) showed that the proposed CDSS decision model achieves good performance (accuracy of 0.94 for D and 0.85 for MCI) by a computational method that evaluates several classifiers and selects the best for each mental disorder.
Reconstruction of Interior Walls from Point Cloud Data with Min-Hashed J-Linkage

The automatic reconstruction of the walls of an interior environment is a fundamental task in any "scan2BIM" application. In this work, we address this problem resorting to an original and improved version of J-Linkage that leverages on the min-Hash technique to boost the efficiency without sacrificing the accuracy. A framework to automatically and robustly extract floor plans from large-scale point clouds is described and validated on real-word publicly available data.
“Should I stay or Should I go”: patient who leave Emergency Department of an Italian Third-Level Teaching Hospital

Background and Aim: Patients could leave ED not receiving the desired care either Without Being Seen by a doctor (LWBS) or Against Medical Advice (DAMA). In term of care quality, LWBS may be related to inappropriate access and process of care, while DAMA may lead to increased risk of mortality and re-admissions. This study aims to identify frequency of patients who leave ED, determine their characteristics and identify associated factor. Methods: This was a retrospective observational study of patients that attended EDs of University Hospital Trust of Verona in 2017. Demographic and ED access associated variables were collected for LWBS, DAMA and completed-ED-treatment patients. Univariate and multivariate data analyses was based on EMUR-PS administrative data.Results: 5,901 of 127,180 ED accesses were uncompleted treatment (4.64%); LWBS were 4,664 (79.04%) and DAMA 1,237 (20.96%). Those who leave ED tended to be younger (39.35 vs. 45.56, p<0.01). Independent factors associated with ED leaving resulted: i) non-urgent triage category (OR: 2.941, 95%CI: 2.405-3.596) ii) non-Italian-nationality (OR: 1.695, 95%CI: 1.493-1.924) and requiring psychiatric consult (OR:6.16 95%IC 4.82-7.87); while protective factors resulted: i) female gender (OR: 0.713, 95%CI: 0.633-0.803); i) Paediatric ED (OR: 0.593, 95%CI: 0.437-0.805); ii) Obstetrics-Gynaecology ED (OR: 0.284, 95%CI: 0.193-0.416) iii) inclusion in fast track pathways (OR: 0.747, 95%CI: 0.602-0.927). Higher ED leaving rate were observed during night-time and Sunday, either overcrowding resulted not associated.Conclusion: Results show the necessity to implement primary care-ED integrated pathway, mainly in frail sub-population, improve awareness on healthcare service use and refine communication skills in ED-team. (www.actabiomedica.it)
Identification of thyroid nodules in infrared images by convolutional neural networks

Early detection of thyroid anomalies decreases the chances of disease progression. Imaging examinations consist in an important tool in the diagnostic process. However, most of them are relatively expensive or can expose the patient to excessive radiation. Thermography is an interesting alternative in thyroid diseases diagnosis, especially in the detection of nodules, since some of them tend to present higher temperatures than normal tissues. Image processing techniques can be used to find regions that may indicate thyroid nodules. To select which one of these regions are in fact related to a nodule, a Convolutional Neural Network - CNN can be used. CNNs are widely used in clinical images classification, and some models have shown good results in this kind of problem. In this work, we present a methodology to identify thyroid nodules in thermograms by using simple image processing techniques and CNNs. Three CNNs were tested, the first one based in the GoogLeNet architecture, a second based in the AlexNet and a third one based in the VGG architecture. The GoogLeNet CNN yielded the highest accuracy (86.22%) followed by AlexNet (77.67%) and the VGG (74.96%).