Miracle-dz/UniFAR-FTUs huggingface dataset:
Cisplatin-DNA adduct repair of transcribed genes is controlled by two circadian programs in mouse tissues

Significance Cisplatin is a front-line drug in treatment of most solid tissue cancers. It kills cancer cells by damaging their DNA. Although it is quite effective it has two major drawbacks. First, it has serious side effects, including nephrotoxicity, hepatotoxicity, and neurotoxicity. Secondly, some cancers exhibit primary or acquired resistance to the drug which limit its usefulness. Attempts have been made to administer the drug at certain times of the day (chronochemotherapy) to overcome these limitations but these attempts have had very limited success. Here, we generate genome-wide and at single-nucleotide-resolution circadian DNA repair maps for mouse kidney and liver with the ultimate goal of developing a rational cisplatin chronochemotherapy regimen. Cisplatin is a major cancer chemotherapeutic drug. It kills cancer cells by damaging their DNA, mainly in the form of Pt-d(GpG) diadducts. However, it also has serious side effects, including nephrotoxicity and hepatotoxicity that limit its usefulness. Chronotherapy is taking circadian time into account during therapy to improve the therapeutic index, by improving efficacy and/or limiting toxicity. To this end, we tested the impact of clock time on excision repair of cisplatin-induced DNA damage at single-nucleotide resolution across the genome in mouse kidney and liver. We found that genome repair is controlled by two circadian programs. Repair of the transcribed strand (TS) of active, circadian-controlled genes is dictated by each gene’s phase of transcription, which falls across the circadian cycle with prominent peaks at dawn and dusk. In contrast, repair of the nontranscribed strand (NTS) of all genes, repair of intergenic DNA, and global repair overall peaks at Zeitgeber time ZT08, as basal repair capacity, which is controlled by the circadian clock, peaks at this circadian time. Consequently, the TS and NTS of many genes are repaired out of phase. As most cancers are thought to have defective circadian rhythms, these results suggest that future research on timed dosage of cisplatin could potentially reduce damage to healthy tissue and improve its therapeutic index.
Deep Radio-Visual Localization

For many automated navigation applications, the underlying localization algorithm must be able to continuously produce both accurate and stable results by using a spectrum of redundant sensing technologies. To this end, various sensors have been used for localization, such as Wi-Fi, Bluetooth, GPS, LiDAR and cameras. In particular, a class of vision-based localization techniques using Structure from Motion (SfM) has been shown to produce very accurate position estimates in the real-world with moderate assumptions about the motion of the camera and the amount of visual texture in the environment. However, when these assumptions are violated, SfM techniques can fail catastrophically (i.e., cannot generate any estimate). Recently, a deep convolutional neural network (CNN) has been applied to images to robustly regress 6-DOF camera poses at the cost of lower accuracy than SfM. In this work, we propose improving image-based localization accuracy of deep CNN by combining Bluetooth radio-wave signal readings. In our experiments, we show that our proposed dual-stream CNN can robustly regress 6-DOF poses from images and radiowave signals better than one sensing modality alone. More importantly, we show that when both modes are used, the localization accuracy of the proposed deep CNN is comparable to that of SfM and significantly more robust than SfM.
Insomnia and Nightmares as Markers of Risk for Suicidal Ideation in Young People: Investigating the Role of Defeat and Entrapment.

STUDY OBJECTIVES Although converging evidence has identified sleep problems as robust predictors of suicidal ideation in young people, the psychological processes driving these associations are not yet known. The current study aimed to test predictions, informed by the Integrated Motivational-Volitional (IMV) Model of Suicidal Behavior, concerning the role of feelings of defeat and entrapment within the sleep-suicide relationship. METHODS Volunteers aged 15 to 17 years (n = 1,045) from Scottish secondary schools completed an anonymous self-report survey assessing insomnia symptoms, nightmares, suicidal ideation, depressive symptomology, and feelings of defeat and entrapment. RESULTS Both insomnia symptoms and nightmares were associated with an increased likelihood of reporting suicidal ideation (independent of depression). Perceptions of both defeat and entrapment were elevated in young people who reported clinically salient insomnia and/or nightmares, relative to those who did not. The relationship between insomnia and suicidal ideation was fully mediated by perceptions of defeat and entrapment, whereas nightmares were indirectly associated with suicidal ideation through perceptions of defeat and entrapment. CONCLUSIONS Taken together, these findings provide novel insights into the psychological mechanisms linking sleep disturbance and suicidality by highlighting the role of defeat and entrapment. Clinically, these findings have the potential to improve suicide risk assessment and prevention in young people experiencing difficulties with their sleep.
Stochastic approximation of quasi-stationary distributions on compact spaces and applications

In the continuity of a recent paper ([6]), dealing with finite Markov chains, this paper proposes and analyzes a recursive algorithm for the approximation of the quasi-stationary distribution of a general Markov chain living on a compact metric space killed in finite time. The idea is to run the process until extinction and then to bring it back to life at a position randomly chosen according to the (possibly weighted) empirical occupation measure of its past positions. General conditions are given ensuring the convergence of this measure to the quasi-stationary distribution of the chain. We then apply this method to the numerical approximation of the quasi-stationary distribution of a diffusion process killed on the boundary of a compact set and to the estimation of the spectral gap of irreducible Markov processes. Finally, the sharpness of the assumptions is illustrated through the study of the algorithm in a non-irreducible setting.
Five theories of the mechanism of depression

The neurobiology of mood disorders has been already for decades the subject of intensive experimental and clinical research. Several theories have been developed to explain the genesis of these disorders. We believe that the different mechanisms implicated by these theories are not independent from one another. Therefore, we will try to describe, how these different theories are interrelated. This will bring us finally to a model how two different brain structures induce low mood. We believe that a dysfunctioning of two different cortical-subcortical circuits is involved in major depressive disorders. The five theories of mood disorders give the mechanisms of how these circuits are affected by genetic and environmental circumstances.
GLOBALLY , FIT LOCALLY UNDER THE MANIFOLD SETUP : ASYMPTOTIC ANALYSIS OF LOCALLY LINEAR EMBEDDING

Since its introduction in 2000, Locally Linear Embedding (LLE) has been widely applied in data science. We provide an asymptotical analysis of LLE under the manifold setup. We show that for a general manifold, asymptotically we may not obtain the Laplace-Beltrami operator, and the result may depend on non-uniform sampling unless a correct regularization is chosen. We also derive the corresponding kernel function, which indicates that LLE is not a Markov process. A comparison with other commonly applied nonlinear algorithms, particularly diffusion map, is provided, and its relationship with locally linear regression is also discussed.
A supercritical CO2 extract of neem leaf (A. indica) and its bioactive liminoid, nimbolide, suppresses colon cancer in preclinical models by modulating pro‐inflammatory pathways

Colorectal cancer (CRC) is the third most commonly diagnosed cancer and the second leading cause of cancer death in men and women in the United States. Anti‐inflammatory blockade has been proven to be a promising avenue of colorectal cancer prevention. However, NSAIDs while effective in curbing CRC risk are too toxic for long‐term use in cancer prevention. The Neem tree (Azadirachta indica) is rich in liminoid terpenoids, collectively known as azadiractoids and has been shown to have anti‐inflammatory effects. To explore a role of neem in CRC, human colon cancer cell lines HCT116 and HT29 cells were treated with purified Super Critical Neem Extract (SCNE) or the neem liminoid, nimbolide. SCNE treatment resulted in a dose dependent inhibition of CRC cell proliferation and an increase in apoptosis. Treatment with SCNE and nimbolide decreased the expression of transcriptional factors, STAT3 and NF‐κB which plays a major role in gene regulation of multiple cellular processes. Protein expression of COX1, IL‐6, and TNF‐α were decreased on treatment with SCNE in CRC cells. Western blots and Zymogram assays results revealed anti‐invasive effect by decreased expression of MMP2 and MMP9 proteins in CRC cells. Overall, these data confirm a potential anti‐cancer effect of SCNE, reducing cell proliferation, inflammation, migration, and invasion in human colon cancer cells. Confirming these indications, we found that treatment of mice bearing HT29 and HCT116 xenografted tumors exhibited striking inhibition of colon tumor growth. Clearly we must explore the effect of neem in preclinical animal models for anti‐cancer therapy.
Note-Taking Interventions for College Students: A Synthesis and Meta-Analysis of the Literature

ABSTRACT Although note taking is frequently described as an important skill for postsecondary success, there have been few note-taking intervention studies involving multiple sessions spanning more than one week. In a systematic search, we identified seven peer-reviewed articles reporting 10 intervention studies published from 1990–2014. The only single-case design study addressed taking notes from texts, but four treatment-comparison studies that taught note taking during lectures assessed students' abilities when taking notes from texts. The remaining four treatment-comparison and one single-group design studies focused solely on note taking during lectures. Three types of notes were represented in the corpus: guided (seven studies), split-page (two studies), and self-restructured (one study). In comparing students who did and did not receive note-taking instruction, Hedges's g effect sizes on outcome measures of content learning and note quality ranged from −0.35 to 2.11. Across nine group design studies, the weighted average effect was 0.54 (CI95 = 0.47 to 0.62). The weighted average Tau-U of the single-case design was 1.00 (CI95 = 0.60 to 1.40).
The International Prognostic Index for Patients with Chronic Lymphocytic Leukemia Has the Higher Value in Predicting Overall Outcome Compared with the Barcelona-Brno Biomarkers Only Prognostic Model and the MD Anderson Cancer Center Prognostic Index

In recent years, new prognostic indexes (PIs) for chronic lymphocytic leukemia (CLL), which include clinical, biological, and genetic variables, have been validated, highlighting the MD Anderson Cancer Center prognostic index (MDACC PI), the CLL-international prognostic index (CLL-IPI), and the Barcelona-Brno biomarkers only prognostic model. The aim of this study is to compare the utility of these PIs in a cohort of Spanish patients. A retrospective analysis of 696 unselected CLL patients newly diagnosed and previously untreated from different Spanish institutions was performed. The MDACC PI, the CLL-IPI, and the biomarkers only PI were applied to these patients, and a comparison of the three PIs was performed. With a median follow-up time of 46 months, 394 patients were alive and 187 had received treatment. The median overall survival (OS) was 173 months and the median time to first therapy (TTFT) was 32 months. Significant differences were obtained in OS and TTFT for all subgroups when applying these PIs, with the CLL-IPI being the one with the higher c-index (0.676 for OS and 0.757 for TTFT). The three PIs were able to discriminate patients in different prognostic subgroups. In our cohort, the CLL-IPI showed higher power in predicting TTFT and OS.
Justifying diffusion approximations for multiclass queueing networks under a moment condition

Multiclass queueing networks (MQN) are, in general, difficult objects to study analytically. The diffusion approximation refers to using the stationary distribution of the diffusion limit as an approximation of the diffusion-scaled process (say, the workload) in the original MQN. To validate such an approximation amounts to justifying the interchange of two limits, t → ∞ and k → ∞, with t being the time index and k, the scaling parameter. Here, we show this interchange of limits is justified under a p∗th moment condition on the primitive data, the interarrival and service times; and we provide an explicit characterization of the required order (p∗), which depends naturally on the desired order of moment of the workload process.
Association of Pulmonary Hypertension With Inflammation and Fluid Overload in Hemodialysis Patients.

INTRODUCTION Pulmonary hypertension (PH) has been reported in hemodialysis patients, but data regarding its pathogenesis are scarce. This study aimed to evaluate the role of fluid overload in PH and its interrelationships with the usual biomarkers of micro-inflammatory state in hemodialysis patients. MATERIALS AND METHODS In is a cross-sectional and prospective study, 119 consecutive hemodialysis patients at a Brazilian referral university hospital were evaluated between March 2007 and February 2013. Based on the presence of echocardiographic parameters of PH, patients were allocated to two groups of the PH group and the non-PH group. Clinical parameters, site and type of vascular access, bio-impedance, and laboratory findings were compared between the two groups and a logistic regression model was elaborated. RESULTS Pulmonary hypertension was found in 23 (19.0%) of 119 patients. The groups significantly differed in extracellular water, ventricular thickness, left atrium diameter, and ventricular filling. Additionally, laboratory data associated with PH were alpha-1-acid glycoprotein (140.0 ± 32.9 versus 116.0 ± 35.5; P < .001); C-reactive protein (median, 1.1 versus 1.6; P = .01) and B-type natriuretic peptide (median, 328 versus 77; P = .03). The adjusted logistic regression model, including alpha-1-acid glycoprotein and B-type natriuretic peptide, showed significant associations for both (odds ratio, 1.023; 95% confidence interval, 1.008 to 1.043; P = .004 and odds ratio, 3.074; 95% confidence interval, 1.49-6.35; P = .002, respectively). CONCLUSIONS Pulmonary hypertension, cardiac hypertrophy, fluid overload, and inflammation were associated to each other in hemodialysis patients, providing insight into its pathogenesis. Longitudinal studies are warranted.
Oracle inequalities and adaptive estimation in the convolution structure density model

We study the problem of nonparametric estimation under L p-loss, p ∈ [1, ∞), in the framework of the convolution structure density model on R d. This observation scheme is a generalization of two classical statistical models , namely density estimation under direct and indirect observations. The original pointwise selection rule from a family of "kernel-type" estimators is proposed. For the selected estimator, we prove an L p-norm oracle inequality and several of its consequences. Next, the problem of adaptive minimax estimation under L p-loss over the scale of anisotropic Nikol'skii classes is addressed. We fully characterize the behavior of the minimax risk for different relationships between regularity parameters and norm indexes in the definitions of the functional class and of the risk. We prove that the proposed selection rule leads to the construction of an optimally or nearly optimally (up to logarithmic factors) adaptive estimator.
Associations between socioeconomic status and overweight among urban children aged 7-12 years in Chengdu, southwest China.

BACKGROUND AND OBJECTIVES Income inequality in China has risen steadily over the past decades. This study explored the relationship between socioeconomic status (SES) and overweight among urban children aged 7-12 years in Chengdu, a comparatively prosperous metropolis city located in "the West China", the backward, less developed region of China. METHODS AND STUDY DESIGN A population-based cross-sectional study was conducted in 2013 among urban children aged 7-12 years old in Chengdu city. A total of 853 urban students were involved in this analysis, with measured heights, weights, and filled in self-administered questionnaires. Overweight, including obesity, was defined according to the Working Group on Obesity in China. SES indicators included family income, parental education and occupation class. RESULTS Urban girls living in high-income households were more likely to be overweight than those living in low-income households (OR 2.19, 95% confidence interval, 1.02-4.83). However, no significant associations were found among boys and there were also null significant associations between other SES indicators and overweight in children of either sex. CONCLUSIONS Urban girls living in relatively affluent circumstances were at greatest risk for being overweight. This study implies that any future overweight prevention program in Chengdu city is needed to start at the family level beginning with individuals of a high socioeconomic background, especially in urban girls.
Long non‐coding RNA PlncRNA‐1 promotes cell proliferation and hepatic metastasis in colorectal cancer

Emerging evidence has identified that long non‐coding RNAs (lncRNAs) may play an important role in the pathogenesis of many cancer types, including colorectal cancer (CRC). However, the role of PlncRNA‐1 in CRC remains unclear. The aim of our present study was to investigate the potential functions of PlncRNA‐1 in CRC and to identify the underlying mechanisms of action. We demonstrated that up‐regulated PlncRNA‐1 in CRC tissues and cells promoted cell proliferation by accelerating cell cycle process and inhibiting cell apoptosis in vitro, enhanced tumor growth and matastasis in vivo and was associated with cell migration and invasion, EMT process of CRC cells. In addition, PlncRNA‐1 was a target of miR‐204 and enhanced the expression of an endogenous miR‐204 target, MMP9 in CRC cells. Furthermore, we found that PlncRNA‐1 activates Wnt/β‐catenin pathway through the miR‐204 in CRC cells. These results suggest that the PlncRNA‐1/miR‐204/ Wnt/β‐catenin regulatory network may shed light on tumorigenesis in CRC.
A two-wave cross-lagged study of business travel, work–family conflict, emotional exhaustion, and psychological health complaints

ABSTRACT By using a two-wave panel design, the present study aimed at studying longitudinally the relation between business travel and work–family conflict (WFC) as well as the reciprocal relationships among WFC, emotional exhaustion, and psychological health complaints. The study was conducted in a large Norwegian oil and gas company (n = 1702), and the company’s business travel database was utilized to examine business travel. The results showed a positive cross-lagged relation between business travel and WFC. In addition, WFC predicted emotional exhaustion over time, whereas emotional exhaustion predicted psychological health complaints over time. Reversed influences also existed, supporting our hypotheses on reciprocal relations. The longitudinal design of the current study makes an important contribution to the research on business travel and employees’ psychological health.
First Principles Study of Thermo-Mechanical Properties of Gallium Phosphide

Citation: Oladimeji D, Malakkal L, Szpunar B, Jossou E, Szpunar J (2017) First Principles Study of Thermo-Mechanical Properties of Gallium Phosphide. Int J Metall Met Phys 2:006 Copyright: © 2017 Oladimeji D, et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. *Corresponding author: Dotun Oladimeji, Department of Physics and Engineering Physics, University of Saskatchewan, Saskatoon, S7N 5E2, Canada, E-mail: dotun.john@usask.ca Received: April 12, 2017: Accepted: August 21, 2017: Published: August 24, 2017 VIBGYOR ISSN: 2631-5076
Behavior and biocompatibility of rabbit bone marrow mesenchymal stem cells with bacterial cellulose membrane

Background Tissue engineering has been shown to exhibit great potential for the creation of biomaterials capable of developing into functional tissues. Cellular expansion and integration depends on the quality and surface-determinant factors of the scaffold, which are required for successful biological implants. The objective of this research was to characterize and evaluate the in vitro characteristics of rabbit bone marrow mesenchymal stem cells (BM-MSCs) associated with a bacterial cellulose membrane (BCM). We assessed the adhesion, expansion, and integration of the biomaterial as well as its ability to induce macrophage activation. Finally, we evaluated the cytotoxicity and toxicity of the BCM. Methods Samples of rabbit bone marrow were collected. Mesenchymal stem cells were isolated from medullary aspirates to establish fibroblast colony-forming unit assay. Osteogenic, chondrogenic, and adipogenic differentiation was performed. Integration with the BCM was assessed by scanning electron microscopy at 1, 7, and 14 days. Cytotoxicity was assessed via the production of nitric oxide, and BCM toxicity was assessed with the MTT assay; phagocytic activity was also determined. Results The fibroblastoid colony-forming unit (CFU-F) assay showed cells with a fibroblastoid morphology organized into colonies, and distributed across the culture area surface. In the growth curve, two distinct phases, lag and log phase, were observed at 15 days. Multipotentiality of the cells was evident after induction of osteogenic, chondrogenic, and adipogenic lineages. Regarding the BM-MSCs’ bioelectrical integration with the BCM, BM-MSCs were anchored in the BCM in the first 24 h. On day 7 of culture, the cytoplasm was scattered, and on day 14, the cells were fully integrated with the biomaterial. We also observed significant macrophage activation; analysis of the MTT assay and the concentration of nitric oxide revealed no cytotoxicity of the biomaterial. Conclusion The BCM allowed the expansion and biointegration of bone marrow progenitor cells with a stable cytotoxic profile, thus presenting itself as a biomaterial with potential for tissue engineering.
Food as a way to convey masculinities: How conformity to hegemonic masculinity norms influences men’s and women’s food consumption

This study investigated how conformity to hegemonic masculinity norms affects men’s and women’s food consumption and whether such influence was contextually modulated. A total of 519 individuals (65% women; M = 44 years old) participated in a 2 (gender salience: low vs high) × 2 (participants’ sex: male vs female) quasi-experimental between-subjects design, completing the Conformity to Masculinity Norms Inventory (Portuguese version) and reporting their past week’s food consumption. Gender salience moderated the relation between men’s conformity to masculinity norms and food consumption; sex-related differences in food consumption were partially mediated by conformity to masculinity norms. Implications for food consumption interventions are discussed.