Miracle-dz/UniFAR-FTUs huggingface dataset:
Prevalence of tobacco consumption among young physicians at a regional university hospital in southern Spain: a cross-sectional study

Introduction The aim of the study is to analyse the prevalence of smoking among resident physicians at a regional university hospital. In addition, we examined the trends in the smoking behaviour of physicians in relation to results obtained in other studies carried out previously at this hospital, as well as those published nationally and internationally Method A cross-sectional observational study evaluating tobacco consumption in young physicians was carried out at the level of secondary healthcare in a regional university hospital in Cordoba, Spain. All the study subjects were resident physicians who underwent a mandatory preliminary occupational health examination between 2012 and 2016. There was no sampling selection as anyone who took this examination was considered to be within the target population. We calculated the proportions of smokers, former smokers and non-smokers, with 95% CIs. Univariate and multivariate analyses (binary logistic regression) were used to analyse the results (P<0.05). Results The response rate was 99.4%, with a sample size of 324 out of a possible 326 physicians. The average age was 28.6±3.7—DT—(95% CI 28.2 to 29.0), and 62.3% (202/324; 95% CI 57.3 to 67.2) were women. Smoking prevalence was 6.5% (21/324; 95% CI 3.5 to 9.3) with a further 5.2% (17/324; 95% CI 2.7 to 7.8) being ex-smokers. There were no significant differences in the prevalence of tobacco consumption according to age (P=0.266), sex (9.0% for men and 5.0% for women; P=0.128), medical specialty (P=0.651) or year of residency (P=0.975). A 52.7% decline in the number of young physician smokers was noted between 1986 and 2016 (95% CI −44.0 to −63.5), together with a 64.4% increase in non-smokers (95% CI 55.2 to 77.3). Conclusions We observed a significantly low prevalence of tobacco use among trainee physicians in the cohort, an effect of new antismoking laws, with positive role model implications for new physicians and medical students.
Mapping patterns of change in emotion-focused psychotherapy: Implications for theory, research, practice, and training

Abstract An important objective in humanistic-experiential psychotherapies and particularly emotion-focused psychotherapy (EFT) is to map patterns of change. Effective mapping of the processes and pathways of change requires that in-session processes be linked to in-session resolutions, immediate post-session changes, intermediate outcome, final therapy outcome, and longer-term change. This is a challenging and long-term endeavour. Fine-grained descriptions of in-session processes that lead to resolution of specific interpersonal and intrapersonal issues linked with longer-term outcomes are the foundation of EFT, the process-experiential approach. In this paper, evidence in support of EFT as a treatment approach will be reviewed along with research on two mechanisms of change, viewed as central to EFT, clients’ emotional processing and the therapeutic relationship conditions. The implications for psychotherapy research are discussed. Given the methodological constraints, there is a need for more innovative methodologies and strategies to investigate specific psychotherapy processes within and across different approaches to map patterns and mechanisms of change to enhance theory, research, practice, and training. Clinical or methodological significance of this article: This paper was first presented at the International Society for Psychotherapy Research’ Annual Conference in Philadelphia in June 2015 as a Presidential Address. The manuscript reviews research that has contributed to the evolution and development of Emotion-Focused Psychotherapy, beginning with the work of Rogers and Gendlin in the 1950s. Evidence supporting the efficacy of the approach as well as research relevant to the process of change linking in-session processes with distal outcomes is reviewed. Two important issues that have dominated the field of psychotherapy research, the differential effectiveness of various psychotherapy approaches and the impact of the therapeutic relationship conditions in facilitating change are discussed. It is argued that progress in these two lines of research has been constrained by methodological issues and that novel and innovative ways to explore the mechanisms and processes of change need to be developed to enhance theory, research, and practice.
External bone volume, ash, and fat-free dry weight of femurs of laying hens fed diets deficient or adequate in phosphorus.

Abstract The femurs of laying hens fed diets containing . 18, . 23, or . 43% available phosphorus were evaluated. External bone volume (V) and organic matter (OM) content and OM/V were not different. Ash (A), percent bone ash, and A/V were significantly less at the two lowest levels of dietary phosphorus. It was concluded that the femurs of phosphorus deficient laying hens have a reduction in mineral content but not organic matter, Determination of external bone V and expression of A/V may be of value in assessing osteoporotic bone.
The SNaP system: biomechanical and animal model testing of a novel ultraportable negative-pressure wound therapy system.

BACKGROUND Negative-pressure wound therapy is traditionally achieved by attaching an electrically powered pump to a sealed wound bed and applying subatmospheric pressure by means of gauze or foam. The Smart Negative Pressure (SNaP) System (Spiracur, Inc., Sunnyvale, Calif.) is a novel ultraportable negative-pressure wound therapy system that does not require an electrically powered pump. METHODS Negative pressure produced by the SNaP System, and a powered pump, the wound vacuum-assisted closure advanced-therapy system (Kinetic Concepts, Inc., San Antonio, Texas), were compared in vitro using bench-top pressure sensor testing and microstrain and stress testing with pressure-sensitive film and micro-computed tomographic scan analysis. In addition, to test in vivo efficacy, 10 rats underwent miniaturized SNaP (mSNaP) device placement on open wounds. Subject rats were randomized to a system activation group (approximately -125 mmHg) or a control group (atmospheric pressure). Wound measurements and histologic data were collected for analysis. RESULTS Bench measurement revealed nearly identical negative-pressure delivery and mechanical strain deformation patterns between both systems. Wounds treated with the mSNaP System healed faster, with decreased wound size by postoperative day 7 (51 percent versus 12 percent reduction; p < 0.05) and had more rapid complete reepithelialization (21 days versus 32 days; p < 0.05). The mSNaP device also induced robust granulation tissue formation. CONCLUSIONS The SNaP System and an existing electrically powered negative-pressure wound therapy system have similar biomechanical properties and functional wound-healing benefits. The potential clinical efficacy of the SNaP device for the treatment of wounds is supported.
Associations between apparent diffusion coefficient (ADC) and KI 67 in different tumors: a meta-analysis. Part 2: ADCmin

The purpose of this part of the meta-analysis was to summarize data regarding associations between minimum apparent diffusion coefficient (ADCmin) and KI 67 in different tumors. MEDLINE library was screened for associations between ADCmin and KI 67 in different tumors up to April 2017. Overall, 23 studies with 944 patients were identified. Associations between ADC and KI 67 were analyzed by Spearman's correlation coefficient. The pooled correlation coefficient between ADCmin and KI 67 for all included tumors was ρ = -0.47. In detail, the correlation coefficients for separate tumors were as follows: cerebral lymphoma: ρ = –0.61 (95% CI = [–0.82; –0.41]); cervical cancer: ρ = –0.56 (95% CI = [–0.68;–0.43]); pituitary adenoma: ρ = –0.55 (95% CI = [–1.31; 0.22]); glioma: ρ = –0.40 (95% CI = [–0.55; –0.24]); breast cancer: ρ = –0.37 (95% CI = [–0.74; –0.01]); meningioma, ρ = –0.15 (95% CI = [–0.38; 0.07]).
Resting State fMRI Functional Connectivity-Based Classification Using a Convolutional Neural Network Architecture

Machine learning techniques have become increasingly popular in the field of resting state fMRI (functional magnetic resonance imaging) network based classification. However, the application of convolutional networks has been proposed only very recently and has remained largely unexplored. In this paper we describe a convolutional neural network architecture for functional connectome classification called connectome-convolutional neural network (CCNN). Our results on simulated datasets and a publicly available dataset for amnestic mild cognitive impairment classification demonstrate that our CCNN model can efficiently distinguish between subject groups. We also show that the connectome-convolutional network is capable to combine information from diverse functional connectivity metrics and that models using a combination of different connectivity descriptors are able to outperform classifiers using only one metric. From this flexibility follows that our proposed CCNN model can be easily adapted to a wide range of connectome based classification or regression tasks, by varying which connectivity descriptor combinations are used to train the network.
More Robust Doubly Robust Off-policy Evaluation

We study the problem of off-policy evaluation (OPE) in reinforcement learning (RL), where the goal is to estimate the performance of a policy from the data generated by another policy(ies). In particular, we focus on the doubly robust (DR) estimators that consist of an importance sampling (IS) component and a performance model, and utilize the low (or zero) bias of IS and low variance of the model at the same time. Although the accuracy of the model has a huge impact on the overall performance of DR, most of the work on using the DR estimators in OPE has been focused on improving the IS part, and not much on how to learn the model. In this paper, we propose alternative DR estimators, called more robust doubly robust (MRDR), that learn the model parameter by minimizing the variance of the DR estimator. We first present a formulation for learning the DR model in RL. We then derive formulas for the variance of the DR estimator in both contextual bandits and RL, such that their gradients w.r. t. ~the model parameters can be estimated from the samples, and propose methods to efficiently minimize the variance. We prove that the MRDR estimators are strongly consistent and asymptotically optimal. Finally, we evaluate MRDR in bandits and RL benchmark problems, and compare its performance with the existing methods.
Efficient crowdsourcing for multi-class labeling

Crowdsourcing systems like Amazon's Mechanical Turk have emerged as an effective large-scale human-powered platform for performing tasks in domains such as image classification, data entry, recommendation, and proofreading. Since workers are low-paid (a few cents per task) and tasks performed are monotonous, the answers obtained are noisy and hence unreliable. To obtain reliable estimates, it is essential to utilize appropriate inference algorithms (e.g. Majority voting) coupled with structured redundancy through task assignment. Our goal is to obtain the best possible trade-off between reliability and redundancy. In this paper, we consider a general probabilistic model for noisy observations for crowd-sourcing systems and pose the problem of minimizing the total price (i.e. redundancy) that must be paid to achieve a target overall reliability. Concretely, we show that it is possible to obtain an answer to each task correctly with probability 1-ε as long as the redundancy per task is O((K/q) log (K/ε)), where each task can have any of the $K$ distinct answers equally likely, q is the crowd-quality parameter that is defined through a probabilistic model. Further, effectively this is the best possible redundancy-accuracy trade-off any system design can achieve. Such a single-parameter crisp characterization of the (order-)optimal trade-off between redundancy and reliability has various useful operational consequences. Further, we analyze the robustness of our approach in the presence of adversarial workers and provide a bound on their influence on the redundancy-accuracy trade-off. Unlike recent prior work [GKM11, KOS11, KOS11], our result applies to non-binary (i.e. K>2) tasks. In effect, we utilize algorithms for binary tasks (with inhomogeneous error model unlike that in [GKM11, KOS11, KOS11]) as key subroutine to obtain answers for K-ary tasks. Technically, the algorithm is based on low-rank approximation of weighted adjacency matrix for a random regular bipartite graph, weighted according to the answers provided by the workers.
Genome-wide mapping of large deletions and their population-genetic properties in dairy cattle

Abstract Large genomic deletions are potential candidate for loss-of-function, which could be lethal as homozygote. Analysing whole genome data of 175 cattle, we report 8,480 large deletions (199 bp–773 KB) with an overall false discovery rate of 8.8%; 82% of which are novel compared with deletions in the dbVar database. Breakpoint sequence analyses revealed that majority (24 of 29 tested) of the deletions contain microhomology/homology at breakpoint, and therefore, most likely generated by microhomology-mediated end joining. We observed higher differentiation among breeds for deletions in some genic-regions, such as ABCA12, TTC1, VWA3B, TSHR, DST/BPAG1, and CD1D. The genes overlapping deletions are on average evolutionarily less conserved compared with known mouse lethal genes (P-value = 2.3 × 10−6). We report 167 natural gene knockouts in cattle that are apparently nonessential as live homozygote individuals are observed. These genes are functionally enriched for immunoglobulin domains, olfactory receptors, and MHC classes (FDR = 2.06 × 10−22, 2.06 × 10−22, 7.01 × 10−6, respectively). We also demonstrate that deletions are enriched for health and fertility related quantitative trait loci (2-and 1.5-fold enrichment, Fisher’s P-value = 8.91 × 10−10 and 7.4 × 10−11, respectively). Finally, we identified and confirmed the breakpoint of a ∼525 KB deletion on Chr23:12,291,761-12,817,087 (overlapping BTBD9, GLO1 and DNAH8), causing stillbirth in Nordic Red Cattle.
Genomic Instability Associated with p53 Knockdown in the Generation of Huntington’s Disease Human Induced Pluripotent Stem Cells

Alterations in DNA damage response and repair have been observed in Huntington’s disease (HD). We generated induced pluripotent stem cells (iPSC) from primary dermal fibroblasts of 5 patients with HD and 5 control subjects. A significant fraction of the HD iPSC lines had genomic abnormalities as assessed by karyotype analysis, while none of our control lines had detectable genomic abnormalities. We demonstrate a statistically significant increase in genomic instability in HD cells during reprogramming. We also report a significant association with repeat length and severity of this instability. Our karyotypically normal HD iPSCs also have elevated ATM-p53 signaling as shown by elevated levels of phosphorylated p53 and H2AX, indicating either elevated DNA damage or hypersensitive DNA damage signaling in HD iPSCs. Thus, increased DNA damage responses in the HD genotype is coincidental with the observed chromosomal aberrations. We conclude that the disease causing mutation in HD increases the propensity of chromosomal instability relative to control fibroblasts specifically during reprogramming to a pluripotent state by a commonly used episomal-based method that includes p53 knockdown.
Partitioning of nutrients for growth and other metabolic functions: efficiency and priority considerations.

The raw materials for proteinaceous growth in the avian are amino acids supplied from protein ingestion and from body protein degradation. Maximal efficiency of utilization (i.e., retention) of absorbed nitrogen approximates 76%. This occurs when a well-balanced mixture of amino acids is ingested. The utilization efficiency of individual dietary amino acids varies around the 76% figure, with slow-turnover amino acids such as lysine being used more efficiently (80%) than fast-turnover amino acids such as isoleucine (61%). A paucity of information exists on metabolic priorities for amino acids at various levels of amino acid deficiency. It is clear, however, that dietary histidine is used with priority for protein synthesis before it is shunted toward carnosine or anserine biosynthesis. Likewise, cysteine use by chicks for growth has priority over cysteine use for glutathione (GSH) biosynthesis. With a cysteine-free diet containing the minimal methionine requirement for maximal growth, hepatic GSH is depressed and remains low and unchanged until about 30% of the growth need for cysteine is satisfied, at which point GSH begins accumulating rapidly. In rats, liver GSH begins accumulating rapidly even with very small doses of cysteine. This suggests that the metabolic priority for cysteine in rats is as great for GSH synthesis as it is for growth.
Role of Autoregulation and Relative Synthesis of Operon Partners in Alternative Sigma Factor Networks

Despite the central role of alternative sigma factors in bacterial stress response and virulence their regulation remains incompletely understood. Here we investigate one of the best-studied examples of alternative sigma factors: the σB network that controls the general stress response of Bacillus subtilis to uncover widely relevant general design principles that describe the structure-function relationship of alternative sigma factor regulatory networks. We show that the relative stoichiometry of the synthesis rates of σB, its anti-sigma factor RsbW and the anti-anti-sigma factor RsbV plays a critical role in shaping the network behavior by forcing the σB network to function as an ultrasensitive negative feedback loop. We further demonstrate how this negative feedback regulation insulates alternative sigma factor activity from competition with the housekeeping sigma factor for RNA polymerase and allows multiple stress sigma factors to function simultaneously with little competitive interference. Major Subject Areas: Computational and systems biology, Microbiology & Infectious disease Research Organism: Bacillus subtilis
Applications of End-Tidal Carbon Dioxide (ETCO2) Monitoring in Emergency Department; a Narrative Review

Capnograph is an indispensable tool for monitoring metabolic and respiratory function. In this study, the aim was to review the applications of end-tidal carbon dioxide (ETCO2) monitoring in emergency department, multiple databases were comprehensively searched with combination of following keywords: “ETCO2”, “emergency department monitoring”, and “critical monitoring” in PubMed, Google Scholar, Scopus, Index Copernicus, EBSCO and Cochrane Database.
Effects of Stomach Inflation on Cardiopulmonary Function and Survival During Hemorrhagic Shock: A Randomized, Controlled, Porcine Study

Background: Ventilation of an unprotected airway may result in stomach inflation. The purpose of this study was to evaluate the effect of clinically realistic stomach inflation on cardiopulmonary function during hemorrhagic shock in a porcine model. Methods: Pigs were randomized to a sham control group (n = 9), hemorrhagic shock (35 mL kg−1 over 15 min [n = 9]), and hemorrhagic shock combined with stomach inflation (35 mL kg−1 over 15 min and 5 L stomach inflation [n = 10]). Results: When compared with the control group, hemorrhagic shock (n = 9) increased heart rate (103 ± 11 vs. 146 ± 37 beats min−1; P = 0.002) and lactate (1.4 ± 0.5 vs. 4.0 ± 1.9 mmol L−1; P < 0.001), and decreased mean arterial blood pressure (81.3 ± 12.8 vs. 35.4 ± 8.1 mmHg; P < 0.001) and stroke-volume index (38.1 ± 6.4 vs. 13.6 ± 4.8 mL min−1 m−2; P < 0.001). Hemorrhagic shock combined with stomach inflation (n = 10) versus hemorrhagic shock only (n = 9) increased intra-abdominal pressure (27.0 ± 9.3 vs. 1.1 ± 1.0 mmHg; P < 0.001), and decreased stroke-volume index (9.9 ± 6.0 vs. 20.8 ± 8.5 mL min−1 m−2; P = 0.007), and dynamic respiratory system compliance (10.8 ± 4.5 vs. 38.1 ± 6.1 mL cmH2O−1; P < 0.001). Before versus after stomach evacuation during hemorrhagic shock, intra-abdominal pressure decreased (27.0 ± 9.3 vs. 9.8 ± 5.4 mmHg; P = 0.042). Survival in the sham control and hemorrhagic shock group was 9 of 9, respectively, and 3 of 10 after hemorrhagic shock and stomach inflation (P < 0.001). Conclusions: During hemorrhagic shock stomach inflation caused an abdominal compartment syndrome and thereby impaired cardiopulmonary function and aerobic metabolism, and increased mortality. Subsequent stomach evacuation partly reversed adverse stomach-inflation triggered effects.
Analytical validation of a reference laboratory ELISA for the detection of feline leukemia virus p27 antigen

Feline leukemia virus (FeLV) is an oncogenic retrovirus of cats. Immunoassays for the p27 core protein of FeLV aid in the detection of FeLV infections. Commercial microtiter-plate ELISAs have rapid protocols and visual result interpretation, limiting their usefulness in high-throughput situations. The purpose of our study was to validate the PetChek FeLV 15 ELISA, which is designed for the reference laboratory, and incorporates sequential, orthogonal screening and confirmatory protocols. A cutoff for the screening assay was established with 100% accuracy using 309 feline samples (244 negative, 65 positive) defined by the combined results of FeLV PCR and an independent reference p27 antigen ELISA. Precision of the screening assay was measured using a panel of 3 samples (negative, low-positive, and high-positive). The intra-assay coefficient of variation (CV) was 3.9–7.9%; the inter-assay CV was 6.0–8.6%. For the confirmatory assay, the intra-assay CV was 3.0–4.7%, and the inter-assay CV was 7.4–9.7%. The analytical sensitivity for p27 antigen was 3.7 ng/mL for inactivated whole FeLV and 1.2 ng/mL for purified recombinant FeLV p27. Analytical specificity was demonstrated based on the absence of cross-reactivity to related retroviruses. No interference was observed for samples containing added bilirubin, hemoglobin, or lipids. Based on these results, the new high-throughput design of the PetChek FeLV 15 ELISA makes it suitable for use in reference laboratory settings and maintains overall analytical performance.
Organic nanoparticle systems for spatiotemporal control of multimodal chemotherapy

ABSTRACT Introduction: Chemotherapeutic drugs are used in combination to target multiple mechanisms involved in cancer cell survival and proliferation. Carriers are developed to deliver drug combinations to common target tissues in optimal ratios and desirable sequences. Nanoparticles (NP) have been a popular choice for this purpose due to their ability to increase the circulation half-life and tumor accumulation of a drug. Areas covered: We review organic NP carriers based on polymers, proteins, peptides, and lipids for simultaneous delivery of multiple anticancer drugs, drug/sensitizer combinations, drug/photodynamic therapy or drug/photothermal therapy combinations, and drug/gene therapeutics with examples in the past three years. Sequential delivery of drug combinations, based on either sequential administration or built-in release control, is introduced with an emphasis on the mechanistic understanding of such control. Expert opinion: Recent studies demonstrate how a drug carrier can contribute to co-localizing drug combinations in optimal ratios and dosing sequences to maximize the synergistic effects. We identify several areas for improvement in future research, including the choice of drug combinations, circulation stability of carriers, spatiotemporal control of drug release, and the evaluation and clinical translation of combination delivery.