Miracle-dz/UniFAR-FTUs huggingface dataset:
Bidirectional selection for body weight on standing genetic variation in a chicken model 1 2

1 2 Mette Lillie*1, Christa F. Honaker†, Paul B. Siegel†, Örjan Carlborg* 3 4 * Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, 5 Sweden 6 † Department of Animal and Poultry Sciences, Virginia Polytechnic Institute and State 7 University, Blacksburg, Virginia, USA 8 9 Corresponding author: Mette Lillie, mette.lillie@bioenv.gu. se 10 1 Current affiliations: Department of Biological and Environmental Sciences, University of 11 Gothenburg, Gothenburg, Sweden and Department of Ecology and Genetics, Uppsala 12 University, Uppsala, Sweden 13 14 15 Data Availability Statement: 16 Pooled genome data generated for this study is available from the Short Read Archive (SRA) 17 BioProject: PRJNA516366; BioSample: SAMN10787895; Accessions: SRR848063218 SRR8480641 (Release date: 2019-04-01). 19 Supplementary Material (Figures S1, S2, S3 and S4 and Tables S1, and S2) has been 20 deposited on figshare. 21 22 G3: Genes|Genomes|Genetics Early Online, published on February 8, 2019 as doi:10.1534/g3.119. 400038
The effectiveness of substance use interventions for homeless and vulnerably housed persons:#_#x00A0; A systematic review of systematic reviews on supervised consumption facilities, managed alcohol programs, and pharmacological agents for opioid use disorder

Olivia MagwoodID , Ginetta SalvalaggioID , Michaela Beder, Claire KendallID , Victoire Kpade, Wahab Daghmach, Gilbert HabonimanaID , Zack Marshall, Ellen Snyder, Tim O’SheaID , Robin Lennox, Helen Hsu, Peter Tugwell, Kevin PottieID * 1 C.T. Lamont Primary Health Care Research Centre, Bruyère Research Institute, Ottawa, ON, Canada, 2 Department of Family Medicine, University of Alberta, Edmonton, AB, Canada, 3 St. Michael’s Hospital, University of Toronto Dept of Psychiatry, Toronto, ON, Canada, 4 Departments of Family Medicine & School of Epidemiology and Public Health, University of Ottawa, Ottawa, ON, Canada, 5 Department of Medicine, McGill University, Montreal, QC, Canada, 6 School of Social Work, McGill University, Montreal, QC, Canada, 7 Public Health and Preventative Medicine Residency Program, University of Ottawa, Ottawa, ON, Canada, 8 Department of Medicine, Population Health Research Institute, McMaster University, Hamilton, ON, Canada, 9 Department of Family Medicine, McMaster University, Hamilton, ON, Canada, 10 Department of Medicine, University of Ottawa, Ottawa, ON, Canada
Preliminary report of improved sleep quality in patients with dry eye disease after initiation of topical therapy

Purpose: Dry eye disease (DED) is potentially associated with sleep and mood disorders. This study evaluated sleep quality in patients with DED using a questionnaire-based survey before and after topical eyedrop treatment. The effectiveness of sleep and ophthalmic services in assisting with sleep problems in patients with eye disease was also assessed. Methods: Seventy-one consecutive patients with DED visiting eight general eye clinics in various locations answered a questionnaire containing the Pittsburgh Sleep Quality Index and Hospital Anxiety and Depression Scale. Photophobia and chronotype (morningness/ eveningness) were also evaluated with two representative questions from established questionnaires (National Eye Institute Visual Function Questionnaire-25 and Morningness/Eveningness questionnaire). Follow-up evaluation was conducted by interview or mail 3–10 months after the initial evaluation. A sleep service was established in two eye clinics to identify possible ocular diseases related to sleep and mood disorders; it comprised a questionnaire, sleep diary, actigram, medical interviews, visual field testing, retinal ganglion cell layer thickness measurement, and DED examination. Results: Patients with newly diagnosed DED exhibited a greater improvement in sleep after DED treatment compared with patients with established DED. Improvement in Pittsburgh Sleep Quality Index was significant ( P  0.05) and strongly correlated with improvement in Hospital Anxiety and Depression Scale ( P  0.05) for new patients, but not for patients with established DED. Ten eye clinic patients visited the sleep service and nine of them had DED. They were successfully treated with eyedrops and sleep services, which included blue-light-shield eyewear and wearable blue-light therapy lamps according to their problem. Conclusion: Sleep quality improved in patients with DED after topical treatment with or without the sleep service. Psychiatric treatment focusing on sleep disorders could be beneficial for patients
Ginkgo biloba extract mitigates liver fibrosis and apoptosis by regulating p38 MAPK, NF- κ B/i κ B α , and Bcl-2/Bax signaling

Background: Liver fibrosis is the consequence of diverse liver injuries and can eventually develop into liver cirrhosis. Ginkgo biloba extract (GBE) is an extract from dried ginkgo leaves that has many pharmacological effects because of its various ingredients and has been shown to be hepatoprotective. Purpose and methods: Aimed to investigate the underlying protective mechanisms of GBE on carbon tetrachloride (CCl 4 )-induced liver fibrosis in rats. Male Sprague Dawley rats were randomly divided into four groups: control group (C), model group (M), low-dose group (L), and high-dose group (H). Liver fibrosis was induced by CCl 4 groups M, L, and H: group C was administered saline. In addition, GBE at different doses was used to treat groups L and H. Results: The results of hematoxylin and eosin staining, Masson’s trichrome staining, a liver function index, and a liver fibrosis index showed that GBE application noticeably mitigated fibrosis and improved the function of the liver. The western blotting and immunohistochemistry analyses indicated that GBE reduced liver fibrosis not only by inhibiting p38 MAPK and NF- κ Bp65 via inhibition of I κ B α degradation but also by inhibiting hepatocyte apoptosis via downregulation of Bax, upregulation of Bcl-2, and subsequent inhibition of caspase-3 activation. Inflammation-associated factors and hepatic stellate cell (HSC)-activation markers further demonstrated that GBE could effectively inhibit HSC activation and inflammation as a result of its regulation of p38 MAPK and nuclear factor-kappa B/I κ B α signaling. Conclusion: Our findings indicated a novel role for GBE in the treatment of liver fibrosis. The potential mechanisms may be associated with the following signaling pathways: 1) the p38 MAPK and nuclear factor-kappa B/I κ B α signaling pathways (inhibiting inflammation and HSCs activation) and 2) the Bcl-2/Bax signaling pathway (inhibiting the apoptosis of hepatocytes).
Growth and yield response of maize (Zea mays L.) to organic and inorganic sources of nitrogen.

A field experiment was conducted to study growth and yield response of maize to organic and inorganic sources of N at the Agronomic Research Area, Univ. of Agriculture, Faisalabad. Two maize varieties namely Composite-78 and Composite-79 were fertilized with farm yard manure @15000 kg ha and urea @ 260 kg ha on a sandy clay loamy soil. Composite varieties differed significantly in plant height, numbers of cobs per plant, number of grains per cobs, 1000-grains weight, grains yield and harvest index. Composite -78 performed best with respect to all growth and yield parameters expect numbers of plants per unit area and number of cob bearing plants. Combined use of urea and farm yard manure performed best than their sole application in respect of grain yield which was 6.13 tons ha.
Targeted Disruption of the Extracellular Polymeric Network of Pseudomonas aeruginosa

Powell, Lydia, Pritchard, Manon F, Ferguson, Elaine, Powell, Kate A, Patel, Shree U, Rye, Phil D, Sakellakou, Stavroula-Melina, Buurma, Niklass J, Brilliant, Charles D, Coping, Jack M, Menzies, Georgina, Lewis, Paul D, Hill, Katja E and Thomas, David W 2018. Targeted disruption of the extracellular polymeric network of pseudomonas aeruginosa biofilms by alginate oligosaccharides. npj Biofilms and Microbiomes file
Impact Assessment of Human Activities and Seasonal Variation on River Benue, within Makurdi Metropolis

The physico-chemical properties of river Benue water were assessed during wet and dry seasons, to ascertain the impact of human activities on the water quality. Temperature, colour, turbidity, total suspended solids (TSS), total dissolved solid (TDS), electrical conductivity, pH, hardness, dissolved oxygen (DO), biochemical oxygen demand (BOD), chemical oxygen demand (COD), nitrates, phosphates and total coliforms were determined. The result of temperature was found to range between 26-32 o C during the two seasons. Colour, turbidity, TDS, SS and pH were found to be between 106.10-147(PtCo colour), 18.18-24.29 (FTU), 17.19-38.78(mgL -1 ), 12.55-49.57 (mgL -1 ), and 6.76-6.81(mgL -1 ), respectively, during the wet
Structure and evolutionary history of a large family of NLR 1 proteins in the zebrafish 2

45 Animals and plants have evolved a range of mechanisms for recognizing noxious substances and organisms. A particular challenge, most successfully met by the adaptive immune system 47 in vertebrates, is the specific recognition of potential pathogens, which themselves evolve to 48 escape recognition. A variety of genomic and evolutionary mechanisms shape large families 49 of proteins dedicated to detecting pathogens and create the diversity of binding sites needed 50 for epitope recognition. One family involved in innate immunity are the NACHT-domain-and 51 Leucine-Rich-Repeat-containing (NLR) proteins. Mammals have a small number of NLR 52 proteins, which are involved in first-line immune defense and recognize several conserved 53 molecular patterns. However, there is no evidence that they cover a wider spectrum of 54 differential pathogenic epitopes. In other species, mostly those without adaptive immune 55 systems, NLRs have expanded into very large families. A family of nearly 400 NLR proteins 56 is encoded in the zebrafish genome. They are subdivided into four groups defined by their 57 NACHT and effector domains, with a characteristic overall structure that arose in fishes from 58 a fusion of the NLR domains with a domain used for immune recognition, the B30.2 domain. 59 The majority of the genes are located on one chromosome arm, interspersed with other large 60 multi-gene families, including a new family encoding proteins with multiple tandem arrays of 61 Zinc fingers. This chromosome arm may be a hot spot for evolutionary change in the 62 zebrafish genome. NLR genes not on this chromosome tend to be located near chromosomal 63 ends.
the manuscript: \A new evaluation framework for topic modeling algorithms based on synthetic corpora"

LDA requires hyperparameter values for the topicdocument distribution, a Ka-dimensional vector α⃗ = (αj)j=1,. ,Ka (where Ka is the assumed number of topics), and the word-topic distribution, a V -dimensional vector β⃗ = (βw)w=1,. ,V (where V is the size of the vocabulary). We assume symmetric priors, i.e. αj = α and βw = β, such that the hyperparameters are fully determined by the scalar parameters α and β. For LDAVB we use the default values of the gensim implementations. For LDAGS we use the default values of the gensim-wrapper of the mallet implementation.
Consensus Guidelines for the Treatment of Peritonitis in Pediatric Patients Receiving Peritoneal Dialysis

Although the diagnostic criteria for peritonitishave not been validated in clinical studies, they rep-resent an international consensus among adult andpediatric nephrologists (4–11). Abdominal pain andfever are generally features that are too nonspecificin children to predict peritonitis in the absence of anelevated dialysate leukocyte count. If the effluent iscloudy, the initial sample is optimal for evaluation,irrespective of the length of the exchange dwell time.In equivocal cases, or in patients on cycler dialysiswith short exchange dwell times and with systemicor abdominal symptoms, and in whom the effluentappears to be clear, a second exchange is performedwith a dwell time of at least 1 hour and the appear-ance of the effluent is re-evaluated. It is noteworthythat 6% of adults with culture-positive peritonitispresent with clear fluid and abdominal pain (10). (Only two thirds of these patients subsequently de-velop cloudy effluent.) Dialysate culture results aretypically not available before 24 hours and, albeit con-firming the diagnosis in retrospect, are not helpfulin initial clinical decision making. A negative cul-ture does not exclude bacterial peritonitis. In up to20% of pediatric peritonitis episodes, culture resultsare negative (4,11–14). Eosinophilic peritonitis (diagnosed when eosi-nophils represent more than 10% of the total di-alysate polymorphonuclear leukocyte count) iscommonly associated with the development ofcloudy effluent in an asymptomatic patient new todialysis. It is likely secondary to a local allergicreaction to components of the dialysis fluid or sub-stances released from the dialysis equipment. It istypically self-limited (4,10).
Improved Detection of Circulating Epithelial Cells in Patients with Intraductal Papillary Mucinous Neoplasms

Early detection strategies for pancreatic ductal adenocarcinoma are needed. This article describes a high‐sensitivity platform for detection of epithelial cells shed from preneoplastic lesions at a high risk of becoming malignant and a combination of technologies that could be used for early detection of disease in high‐risk patients.
a novel method of proxy reporting questionnaire based measures of health-related quality of life of people with dementia in residential care: a psychometric evaluation

Smith, Sarah C; Hendriks, Aa Jolijn; Regan, Jemma; Black, Nick; (2018) A novel method of proxy reporting questionnaire based measures of health-related quality of life of people with dementia in residential care: a psychometric evaluation. Patient related outcome measures, 9. pp. 221-230. ISSN 1179-271X DOI: https://doi.org/10.2147/PROM.S144000 Downloaded from: http://researchonline.lshtm. ac.uk/id/eprint/4648593/ DOI: https://doi.org/10.2147/PROM.S144000
a novel method of proxy reporting questionnaire based measures of health-related quality of life of people with dementia in residential care: a psychometric evaluation

Smith, SC; Hendriks, AJ; Regan, J; Black, N; (2018) A novel method of proxy reporting questionnaire based measures of health-related quality of life of people with dementia in residential care: a psychometric evaluation. Patient related outcome measures, 9. pp. 221-230. ISSN 1179-271X DOI: https://doi.org/10.2147/PROM.S144000 Downloaded from: http://researchonline.lshtm. ac.uk/4648593/ DOI: https://doi.org/10.2147/PROM.S144000
Nanoscale ferroelastic twins formed in strained LaCoO3 films

The coexistence and coupling of ferroelasticity and magnetic ordering in a single material offers a great opportunity to realize novel devices with multiple tuning knobs. Complex oxides are a particularly promising class of materials to find multiferroic interactions as they often possess rich phase diagrams and the interactions are very sensitive to external perturbations. Still, there are very few examples of these systems. Here we report the observation of twinning domains in ferroelastic LaCoO3 epitaxial thin films and their geometric control of structural symmetry that are intimately linked to the material electronic and magnetic states. A unidirectional structural modulation is achieved by selective choice of substrates possessing two-fold rotational symmetry. This modulation perturbs the crystal field splitting energy, leading to unexpected in plane anisotropy of orbital configuration and magnetization. These findings demonstrate the utilization of structural modulation to control multiferroic interactions and may enable a great potential for stimulation of exotic phenomena through artificial domain engineering.
Perish : Definition and Analysis of an n-Person Publication Impact Game Extended

We consider the following abstraction of competing publications. There are n players vying for the attention of the audience. The attention of the audience is abstracted by a single slot which holds, at any given time, the name of the latest release. Each player needs to choose, ahead of time, when to release its product, and the goal is to maximize the amount of time its product is the latest release. Formally, each player i chooses a point xi ∈ [0, 1], and its payoff is the distance from its point xi to the next larger point, or to 1 if xi is the largest. For this game, we give a complete characterization of the Nash equilibrium for the two-player, continuous-action game, and, more important, we give an efficient approximation algorithm to compute numerically the symmetric Nash equilibrium for the n-player game. The approximation is computed via a discrete-action version of the game. In both cases, we show that the (symmetric) equilibrium is unique. Our algorithmic approach to the n-player game is non-standard in that it does not involve solving a system of differential equations. We believe that our techniques can be useful in the analysis of other timing games.
Ieee Transactions on Visualization and Computer Graphics 1 Energy Conservation for the Simulation of Deformable Bodies

—We propose a novel technique that allows one to conserve energy using the time integration scheme of one's choice. Traditionally, the time integration methods that deal with energy conservation, such as symplectic, geometric, and variational integrators, have aimed to include damping in a manner independent of the size of the time step, stating that this gives more control over the look and feel of the simulation. Generally speaking, damping adds to the overall aesthetics and appeal of a numerical simulation, especially since it damps out the high frequency oscillations that occur on the level of the discretization mesh. We propose an alternative technique that allows one to use damping as a material parameter to obtain the desired look and feel of a numerical simulation, while still exactly conserving the total energy-in stark contrast to previous methods in which adding damping effects necessarily removes energy from the mesh. This allows, for example, a deformable bouncing ball with aesthetically pleasing damping (and even undergoing collision) to collide with the ground and return to its original height exactly conserving energy, as shown in Figure 2. Furthermore, since our method works with any time integration scheme, the user can choose their favorite time integration method with regards to aesthetics and simply apply our method as a post-process to conserve all or as much of the energy as desired.
Model synthesis

Paul C. Merrell: Model Synthesis. (Under the direction of Dinesh Manocha.) Three-dimensional models are extensively used in nearly all types of computer graphics applications. The demand for 3D models is large and growing. However, despite extensive work in modeling for over four decades, model generation remains a labor-intensive and difficult process even with the best available tools. We present a new procedural modeling technique called model synthesis that is designed to generate many classes of objects. Model synthesis is inspired by developments in texture synthesis. Model synthesis is designed to automatically generate a large model that resembles a small example model provided by the user. Every small part of the generated model is identical to a small part of the example model. By altering the example model, a wide variety of objects can be produced. We present several different model synthesis algorithms and analyze their strengths and weaknesses. Discrete model synthesis generates models built out of small building blocks or model pieces. Continuous model synthesis generates models on set of parallel planes. We also show how to incorporate several additional user-defined constraints to control the largescale structure of the model, to control how the objects are distributed, and to generate symmetric models. The generality of the approach will be demonstrated by showing many models produced using each approach including cities, landscapes, spaceships, and castles. The models contain hundreds of thousands of model pieces and are generated in only a few minutes.
Higher dietary carbohydrate content during intensified running training results in better maintenance of performance and mood state

[PDF] [Full Text] [Abstract] , October 1, 2004; 97 (4): 1245-1253. J Appl Physiol S. L. Halson, G. I. Lancaster, J. Achten, M. Gleeson and A. E. Jeukendrup after intensified cycling training Effects of carbohydrate supplementation on performance and carbohydrate oxidation [PDF] [Full Text] [Abstract] , April 1, 2008; 104 (4): 1045-1055. J Appl Physiol A. Bonen, E. A. Richter and P. Hespel K. De Bock, W. Derave, B. O. Eijnde, M. K. Hesselink, E. Koninckx, A. J. Rose, P. Schrauwen, carbohydrate intake Effect of training in the fasted state on metabolic responses during exercise with
linc01296 promotes proliferation, migration, and invasion of hcc cells by targeting mir-122-5P and modulating eMT activity

Introduction: Long noncoding RNAs (lncRNAs) play an important role in the origination and progression of hepatocellular carcinoma (HCC). However, the biological function of the long intergenic non-protein-coding RNA, LINC01296, in HCC remains unknown. Methods: Here, we observed an increase in the expression levels of LINC01296 in HCC tissues and cell lines using reverse transcription quantitative PCR; these data were consistent with that obtained from The Cancer Genome Atlas database. Results: A higher expression level was correlated with higher alpha fetoprotein levels, a larger tumor size, an advanced TNM stage, and a poorer overall survival rate. Upregulation of LINC01296 promoted the proliferation, migration, and invasion of HCC cells. Improvement of cell migration and invasion attributable to the overexpression of LINC01296 was related to an increase in epithelial–mesenchymal transition (EMT). Mechanistically, miR-122-5P can bind to LINC01296 and decrease its oncogenic effect. Conclusion: Collectively, the results of this study revealed that LINC01296 is a tumor promoter that can promote the migration and invasion of HCC cells through EMT, while miR-122-5P is involved in the underlying mechanisms.