syedzayyan/paper_mill_benchmark huggingface dataset:
Renal Cancer Detection: Fusing Deep and Texture Features from Histopathology Images.

Histopathological images contain morphological markers of disease progression that have diagnostic and predictive values, with many computer-aided diagnosis systems using common deep learning methods that have been proposed to save time and labour.Even though deep learning methods are an end-to-end method, they perform exceptionally well given a large dataset and often show relatively inferior results for a small dataset.In contrast, traditional feature extraction methods have greater robustness and perform well with a small/medium dataset.Moreover, a texture representation-based global approach is commonly used to classify histological tissue images expect in explicit segmentation to extract the structure properties.Considering the scarcity of medical datasets and the usefulness of texture representation, we would like to integrate both the advantages of deep learning and traditional machine learning, i.e., texture representation.To accomplish this task, we proposed a classification model to detect renal cancer using a histopathology dataset by fusing the features from a deep learning model with the extracted texture feature descriptors.Here, five texture feature descriptors from three texture feature families were applied to complement alex-net for the extensive validation of the fusion between the deep features and texture features.The texture features are from (1) statistic feature family: histogram of gradient, gray-level cooccurrence matrix, and local binary pattern; (2) transform-based texture feature family: gabor filters; and (3) model-based texture feature family: markov random field.The final experimental results for classification outperformed both alex-net and a singular texture descriptor, showing the effectiveness of combining the deep features and texture features in renal cancer detection.

Journal: BioMed research international (2022)
Publication types: Journal Article
Chinese Public Perception of Climate Change on Social Media: An Investigation Based on Data Mining and Text Analysis.

Climate change is a serious threat to humankind.As broad public participation is required in climate change mitigation efforts, it is critical to understand how the public talk about climate change on social media.This study sets out to increase the understanding of chinese public awareness of climate change, as well as explore the potential and limitations of social media for public engagement on climate change issues.It examines the chinese public's discussion about climate change on social media weibo during the last six years through data mining and text analysis.The analyses include volume analysis, keyword extraction, topic modeling, and sentiment analysis.The results indicate three main aspects of public awareness and concern regarding climate change.First, public awareness of climate change is growing in china.Second, the sentiment analysis shows that the general sentiment toward climate change is becoming more positive over time.Third, based on keyword extraction and topic modeling, the discussion on climate change shows a top-down perspective, an optimistic economic perspective, and a preference for celebrity content.The study provides a comprehensive picture of chinese social media users' views on climate change issues, based on large-scale research data.It contributes to a better understanding of what chinese people think about climate change on social media generally.These findings may provide government and environmental organizations with valuable insights for better climate change campaigns on social media.

Journal: Journal of environmental and public health (2022)
Publication types: Journal Article
Determination of basal bone mineral density in the femur bones of male and female Wistar rats.

Changes in bone mineral content of calcium (ca), phosphorous (p), magnesium and potassium for male and female wistar rats during their development from 3 weeks old to adulthood (27 weeks old) were measured.Bone mineral content was related to areal bone mineral density (bmd) which was measured in vivo at the femoral neck using a calibrated x-ray transmission system to obtain basal curves as a function of the age of the specimen.Diagnostic curves were built to determine low bmd (osteopaenia) and osteoporosis in female rats fed a ca-depleted diet (50%) based on the obtained data and the criteria established by the world health organization.Bone mineral content is directly related to sex and age, but p did not change throughout the experimental period.P content did not exhibit significant changes with growing, while ca was greatest in male rats, producing significant differences in the ca:p ratio.Male rats reach the ca:p ratio peak before female rats.However, areal bmd does not follow the same trend.On the other hand, osteoporosis produced a 45% decrease in this parameter for young and mature adults.These results make z-score values available to diagnose bone-mass losses and hence the possibility of improving the conditions of non-contact measurement of bmd in vivo.This technique can be used for future experiments with wistar rats.

Journal: Laboratory animals (2021)
Publication types: Journal Article
Uptake of public health measures and vaccine acceptance during the COVID-19 pandemic in rural Zambia.

Vaccines are effective tools to prevent covid-19-related morbidity.However, coverage is low throughout sub-saharan africa.Uptake of public health measures, perceptions of covid-19 illness and vaccines, and intention to vaccinate were evaluated in 2021-2022 in rural zambia.Adherence to public health measures, perceptions of covid-19 risk and severity, and vaccine acceptance increased significantly over time, particularly in december 2021, coinciding with the fourth pandemic wave and relaunch of the national vaccine campaign.Vaccine acceptance was associated with perceptions of vaccine safety and effectiveness, but not disease severity.These findings highlight the importance of strong pandemic response and public communication for increased uptake of mitigatory measures, including vaccine acceptance.

Journal: Human vaccines & immunotherapeutics (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't;Research Support, N.I.H., Extramural
Tire rubber chemicals reduce juvenile oyster (Crassostrea gigas) filtration and respiration under experimental conditions.

Tires can release a large number of chemical compounds that are potentially hazardous for aquatic organisms.An ecophysiological system was used to do high-frequency monitoring of individual clearance, respiration rates, and absorption efficiency of juvenile oysters (8 months old) gradually exposed to four concentrations of tire leachates (equivalent masses: 0, 1, 10, and 100 μg tire m l-1).Leachates significantly reduced clearance (52 %) and respiration (16 %) rates from 1 μg m l-1, while no effect was observed on the absorption efficiency.These results suggest that tire leachates affect oyster gills, which are the organ of respiration and food retention as well as the first barrier against contaminants.Calculations of scope for growth suggested a disruption of the energy balance with a significant reduction of 57 %.Because energy balance directs whole-organism functions (e.g., growth, reproductive outputs), the present study calls for an investigation of the long-term consequences of chemicals released by tires.

Journal: Marine pollution bulletin (2022)
Publication types: Journal Article
The impact of progredient vessel and tissue stiffening for the development of metabolic syndrome.

Established risk factors for the metabolic syndrome as diabetes and arterial hypertension are believed to be the cause of arteriosclerosis and subsequently following diseases like coronary heart disease, apoplexy, or chronic renal failure.Based on broad evidence from the already available experimental literature and clinical experience, an alternative hypothesis is presented that puts an increased vessel and organ stiffness to the beginning of the pathophysiological scenario.The stiffness itself is caused by a persistent activation of mechano-sensitive cation channels like the epithelial/endothelial sodium channel.A further enhancement takes place by proteins like jacd and rho a coupled phospholipase c coupled g-protein receptors and integrins.A self-enhancing positive feedback loop by activation of yap/taz signaling is a further central pillar of this theory.Further investigations are necessary to verify this hypothesis.If this hypothesis could be confirmed fundamental changes regarding the pharmacologic therapy of the diseases that are currently summarizes as metabolic syndrome would be the consequence.

Journal: Pflugers Archiv : European journal of physiology (2022)
Publication types: Journal Article;Review;Research Support, Non-U.S. Gov't
Electrospun 1D-NiO hollow nanowires on glass support for the sunlight-driven photodegradation of methylene blue.

Sunlight-driven semiconductor photocatalysts have received substantial attention due to environmental degradation, but a simple and reusable photocatalyst design has been a challenging task.Herein, we report the fabrication of a one-dimensional hollow semiconducting nanowire structure by electrospun-mediated nickel oxide nanowires (ni o nws) as a reusable photocatalyst by direct deposition on glass substrates.The effective control of the sunlight-driven hollow nanowires as the photocatalyst has a high surface area for multiple light-harvesting and interface redox reactions, a nanostructured thin shell for accelerated charge separation, transportation, and a large length-diameter ratio for easy recycling.The electrospun ni o nws were nest-like hollow nanostructure fibers, crystalline, and with a high density, and the synthesis and parameters were thoroughly investigated to achieve the characteristic shape of the hollow ni o nws.Further, the photocatalytic activity of the ni o nws on glass substrates for the selective breakdown of methylene blue (mb) under sunlight irradiation to optimize the efficiency of the ni o nws, such as degradation techniques, concentration, and p h of the mb solution.The stability and reusability of the ni o nws were tested successfully in several reusable cycles, with only a 2% degradation difference.The reaction rate was found to be 0.054 min-1for mb (5 μm) and 0.033 min-1for mb (10 μm) at p h 11 for 60 min, and the higher activity parameter was calculated to be 3.3 × 10-3min-1mg-1l-1due to their hollow structure and effective area of the ni o nws.They contain more superficially-entrapped holes that change with chemisorbed oxyhydroxyl oh or h2o to form oh-radicals.The specific active hollow surface area rises, whereas the rate of optical-electronic hole recombination drops.The photocatalytic degradation performance of the fabricated one-step electrospun hollow ni o nw-based photocatalyst on substrates showed speed, reusability, and promoted the formation of radicals capable of decomposing organic pollutants, which were shown to have application in photocatalysis.

Journal: RSC advances (2022)
Publication types: Journal Article
Rapid Screening for Salmonella in Raw Pet Food by Loop-Mediated Isothermal Amplification.

Raw pet food, composed of raw meat and vegetables, has increased in popularity in recent years.Multiple surveys and frequent recalls indicate that this commodity has a high risk of contamination with salmonella and other foodborne pathogens.Improved screening methods are needed to meet the growing demand for testing.This matrix verification study aimed to apply a salmonella loop-mediated isothermal amplification (lamp) method, recently completed multilaboratory validation in dry dog food, in several raw pet food matrices, following the u.s.Food and drug administration (fda)'s method validation guidelines.Five types of raw pet food, consisting of freeze-dried beef and chicken treats and frozen beef, pork, and turkey complete foods, were evaluated.For each matrix, two sets of ten 25-g test portions (seven inoculated with ≤30 cells of salmonella typhimurium and three uninoculated controls) were examined.One set was preenriched in buffered peptone water and the other one was preenriched in lactose broth, which was followed by lamp screening using two isothermal master mixes (iso-001 and iso-004).All results were confirmed by culture as specified in the fda bacteriological analytical manual (bam).The lamp method accurately detected salmonella in all inoculated test portions of the five raw pet food samples, regardless of the preenrichment broth used.Positive results could be obtained within 4 min of the lamp run using the iso-004 master mix.All uninoculated controls tested negative using lamp or bam.In addition, one turkey-based complete pet food sample was found to be already contaminated with three salmonella serovars harboring multiple antimicrobial resistance genes.The salmonella lamp method offers a rapid, reliable, and robust tool for routine screening of salmonella in raw pet food, which will help better ensure product safety and protect public health.Highlights

Journal: Journal of food protection (2021)
Publication types: Journal Article
Validation of Reference Genes in a Population of Blueberry(Vaccinium corymbosum)Plants Regenerated in Colchicine.

For the first time we report the validation of reference genes in plants from a population of blueberry (vaccinium corymbosum) clones cultured in vitro on a colchicine-supplemented medium.Nodal segment explants of the cultivar duke were regenerated by organogenesis under different periods of colchicine 1 mg/l exposure (1, 2, 3, 5, 30 days).The clones selected for the study showed variability for phenotypic traits after 2 years of adaptation to field conditions, compared to plants of the donor genotype that were regenerated on a medium without colchicine.vaccinium myrtillus(gapdh) and vaccinium macrocarpon(atp1, nadh, rpoband cox2) were used as reference genomes for primer design.The results show that colchicine treatments can cause genomic changes in blueberry plants.At the molecular level, exposure of plants to colchicine in early periods could promote an increase in gene expression of specific genes such as atp1, cox2, gapdh, matk, nadhand rpob.However, prolonged exposure (30 days) could decrease gene expression of the genes studied.For q pcr assays, the primers designed for atp1, cox2, gapdhand matkgenes showed high efficiency.In addition, the gapdh,atp1,nadhand cox2genes showed high stability and could be recommended as potential reference genes for gene expression assays in vaccinium.

Journal: Plants (Basel, Switzerland) (2022)
Publication types: Journal Article
Obese endometrial cancer survivors' perceptions of weight loss strategies and characteristics that may influence participation in behavioral interventions.

We aimed to evaluate obese endometrial cancer (ec) survivors' perceptions of weight loss barriers and previously attempted weight loss methods and to identify characteristics that predicted willingness to enroll in a behavioral intervention trial.We administered a 27-question baseline survey at an academic institution to ec survivors with body mass index ≥ 30 kg/m2.Survivors were asked about their lifestyles, previous weight loss attempts, perceived barriers, and were offered enrollment into an intervention trial.Data was analyzed using fisher's exact, kruskal-wallis, and univariate and multivariate regressions.155 of 358 (43%) eligible obese ec survivors were surveyed.Nearly all (n = 148, 96%) had considered losing weight, and 77% (n = 120) had tried two or more strategies.Few had undergone bariatric surgery (n = 5, 3%), psychologic counseling (n = 2, 1%), or met with physical therapists (n = 9, 6%).Lower income was associated with difficulty in accessing interventions.Survivors commented that negative self-perceptions and difficulties with follow-through were barriers to weight loss, and fear of complications and self-perceived lack of qualification were deterrents to bariatric surgery.80 (52%) of those surveyed enrolled in the trial.In a multivariate model, adjusting for race and stage, survivors without recurrence were 4.3 times more likely to enroll than those with recurrence.Most obese ec survivors have tried multiple strategies to lose weight, but remain interested in weight loss interventions, especially women who have never experienced recurrence.Providers should encourage weight loss interventions early, at the time of initial diagnosis, and promote underutilized strategies such as psychological counseling, physical therapy, and bariatric surgery.

Journal: Gynecologic oncology reports (2021)
Publication types: Journal Article
Classification of Partial Discharge Measured under Different Levels of Noise Contamination.

Cable joint insulation breakdown may cause a huge loss to power companies.Therefore, it is vital to diagnose the insulation quality to detect early signs of insulation failure.It is well known that there is a correlation between partial discharge (pd) and the insulation quality.Although many works have been done on pd pattern recognition, it is usually performed in a noise free environment.Also, works on pd pattern recognition in actual cable joint are less likely to be found in literature.Therefore, in this work, classifications of actual cable joint defect types from partial discharge data contaminated by noise were performed.Five cross-linked polyethylene (xlpe) cable joints with artificially created defects were prepared based on the defects commonly encountered on site.Three different types of input feature were extracted from the pd pattern under artificially created noisy environment.These include statistical features, fractal features and principal component analysis (pca) features.These input features were used to train the classifiers to classify each pd defect types.Classifications were performed using three different artificial intelligence classifiers, which include artificial neural networks (ann), adaptive neuro-fuzzy inference system (anfis) and support vector machine (svm).It was found that the classification accuracy decreases with higher noise level but pca features used in svm and ann showed the strongest tolerance against noise contamination.

Journal: PloS one (2017)
Publication types: Journal Article
Effects of taurine and ginseng extracts on energy metabolism during exercise and their anti-fatigue properties in mice.

/objectives ginseng extract (gse) and taurine (tr) are widely used antifatigue resources in functional foods.However, the mechanism underlying the antifatigue effects of gse and tr are still unclear.Hence, we investigated whether gse and tr have synergistic effects against fatigue in mice.Materials/methods l6 cells were treated with different concentrations of tr and gse, and cell viability was determined using 2-(4-iodophenyl)-3-(4-nitrophenyl)-5-(2,4-disulfophenyl)-2h-tetrazolium.Oxidative stress was analyzed by immunocytochemistry using mito trackertm red fm and an anti-8-oxoguanine antibody.Respiratory gas analysis was performed to investigate metabolism.Expression of an activated protein kinase was analyzed using immunohistochemistry.Gene expression of cluster of differentiation 36 and pyruvate dehydrogenase lipoamide kinase isozyme 4 was measured using reverse transcription-polymerase chain reaction.Mice were orally administered tr, gse, or their combination for 30 days, and then fatigue-related parameters, including lactate, blood urea nitrogen, and glycogen, were measured after forced swimming.Results tr and gse reduced oxidative stress levels in hydrogen peroxide-stimulated l6 cells and enhanced the oxygen uptake and lipid metabolism in mice after acute exercise.After oral administration of tr or gse for 30 days, the fatigue-related parameters did not change in mice.However, the mice administered gse (400 mg/kg/day) alone for 30 days could swim longer than those from the other groups.Further, no synergistic effect was observed after the swimming exercise in mice treated with the tr and gse combination for 30 days.Conclusions taken together, our data suggest that tr and gse may exert antifatigue effects in mice after acute exercise by enhancing oxygen uptake and lipid oxidation.

Journal: Nutrition research and practice (2022)
Publication types: Journal Article
Distribution of Caskin1 protein and phenotypic characterization of its knockout mice using a comprehensive behavioral test battery.

Calcium/calmodulin-dependent serine protein kinase (cask)-interacting protein 1 (caskin1) is a direct binding partner of the synaptic adaptor protein cask.Because caskin1 forms homo-multimers and binds not only cask but also other neuronal proteins in vitro, it is anticipated to have neural functions; but its exact role in mammals remains unclear.Previously, we showed that the concentration of caskin1 in the spinal dorsal horn increases under chronic pain.To characterize this protein, we generated caskin1-knockout (caskin1-ko) mice and specific anti-caskin1 antibodies.Biochemical and immunohistochemical analyses demonstrated that caskin1 was broadly distributed in the whole brain and spinal cord, and that it primarily localized at synapses.To elucidate the neural function of caskin1 in vivo, we subjected caskin1-ko mice to comprehensive behavioral analysis.The mutant mice exhibited differences in gait, enhanced nociception, and anxiety-like behavior relative to their wild-type littermates.In addition, the knockouts exhibited strong freezing responses, with or without a cue tone, in contextual and cued-fear conditioning tests as well as low memory retention in the barnes maze test.Taken together, these results suggest that caskin1 contributes to a wide spectrum of behavioral phenotypes, including gait, nociception, memory, and stress response, in broad regions of the central nervous system.

Journal: Molecular brain (2018)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
The 6C model for accurately capturing the patient's medical history.

Diagnostic errors are an internationally recognized patient safety concern, and leading causes are faulty data gathering and faulty information processing.Obtaining a full and accurate history from the patient is the foundation for timely and accurate diagnosis.A key concept underlying ideal history acquisition is "history clarification," meaning that the history is clarified to be depicted as clearly as a video, with the chronology being accurately reproduced.A novel approach is presented to improve history-taking, involving six dimensions: courtesy, control, compassion, curiosity, clear mind, and concentration, the '6 c's'.We report a case that illustrates how the 6c approach can improve diagnosis, especially in relation to artificial intelligence tools that assist with differential diagnosis.

Journal: Diagnosis (Berlin, Germany) (2021)
Publication types: Journal Article