syedzayyan/paper_mill_benchmark huggingface dataset:
Medical data formatting to improve physician interpretation speed in the Military Healthcare System.

The purpose of this project was to improve ease and speed of physician comprehension when interpreting daily laboratory data for patients admitted within the military healthcare system (mhs).Materials and methods a java script program was created to convert the laboratory data obtained via the outpatient electronic medical record (emr) into a "fishbone diagram" format that is familiar to most physicians.Using a balanced crossover design, 35 internal medicine trainees and staff at naval medical center portsmouth were asked to complete timed comprehension tests for laboratory data sets formatted in the outpatient emr's format and in fishbone diagram format.The number of responses per second and error rate per response were measured for each format.Participants were asked to rate relative ease of use for each format and indicate which format they preferred.Results comprehension speed increased 37% (6.28 seconds per interpretation) with the fishbone diagram format with no observed increase in errors.Using a likert scale of 1-5 (1 being hard, 5 easy), participants indicated the new format was easier to use (4.14 for fishbone vs 2.14 for table) with 89% expressing preference for the new format.Discussion the publically available web application that converts tabular lab data to fishbone diagram format is currently used 10 000-12 000 times per month across the mhs, delivering significant benefit to the enterprise in terms of time saved and improved physician experience.Conclusions this study supports the use of fishbone diagram formatting for laboratory data for inpatients within the mhs.

Journal: JAMIA open (2022)
Publication types: Journal Article
Leg Movement Rate before and after a Caregiver-Provided Intervention for Infants at Risk of Developmental Disability: A Pilot Study.

Our purpose was to assess daily leg movement rate before and after a caregiver-provided in-home intervention for infants at risk for developmental disability.We also assessed adherence and quality of caregiver-child interaction.Methods twelve infants, at risk for developmental disabilities, and their caregivers participated in an intervention focused on increasing leg movements.Intervention started between 3- and 6-months corrected age and ended once the infant was able to sit independently or at 9 months corrected age, whichever occurred first.Infants were assessed monthly.Results infants at risk for developmental disabilities who were moving less than 1200 leg movements per hour awake at the start of the intervention increased their daily leg movement rate following the intervention (median [range]: pre-1047 [506-1056], post- 1104 [655-1359],p= 0.040).Additionally, the caregivers had a high adherence (median: 89%, range: 11.43%-329.17%) and good quality of caregiver-child interaction (median ncast total: 46, range: 34-59); and maintained similar amounts of adherence (p = 0.575) and quality of caregiver-child interaction (p = 0.432) throughout the intervention.Conclusion this study provides preliminary evidence that leg movement rate has the potential to be used as an outcome measure to assess an infant's progress and motor practice during an intervention.

Journal: Physical & occupational therapy in pediatrics (2022)
Publication types: Journal Article
Enhanced silver nanoparticle-induced pulmonary inflammation in a metabolic syndrome mouse model and resolvin D1 treatment.

Metabolic syndrome (met s) exacerbates susceptibility to inhalation exposures such as particulate air pollution, however, the mechanisms responsible remain unelucidated.Previously, we determined a met s mouse model exhibited exacerbated pulmonary inflammation 24 h following ag np exposure compared to a healthy mouse model.This enhanced response corresponded with reduction of distinct resolution mediators.We hypothesized silver nanoparticle (ag np) exposure in met s results in sustained pulmonary inflammation.Further, we hypothesized treatment with resolvin d1 (rv d1) will reduce exacerbations in ag np-induced inflammation due to met s.Results to evaluate these hypotheses, healthy and met s mouse models were exposed to vehicle (control) or ag nps and a day later, treated with resolvin d1 (rv d1) or vehicle (control) via oropharyngeal aspiration.Pulmonary lung toxicity was evaluated at 3-, 7-, 14-, and 21-days following ag np exposure.Met s mice exposed to ag nps and receiving vehicle treatment, demonstrated exacerbated pulmonary inflammatory responses compared to healthy mice.In the ag np exposed mice receiving rv d1, pulmonary inflammatory response in met s was reduced to levels comparable to healthy mice exposed to ag nps.This included decreases in neutrophil influx and inflammatory cytokines, as well as elevated anti-inflammatory cytokines.Conclusions inefficient resolution may contribute to enhancements in met s susceptibility to ag np exposure causing an increased pulmonary inflammatory response.Treatments utilizing specific resolution mediators may be beneficial to individuals suffering met s following inhalation exposures.

Journal: Particle and fibre toxicology (2022)
Publication types: Journal Article;Research Support, N.I.H., Extramural
Reduction of X-ray-induced DNA damage in normal human cells treated with the PrC-210 radioprotector.

The aim of our study was to determine the protective efficacy of the pr c-210 aminothiol radioprotector against x-ray-induced dna damage in normal human cells and to establish dose- and time-effect models for future pr c-210 use in humans.The pr c-210 structure has a branched structure which enables scavenging of reactive oxygen species (ros) away from dna.Normal human blood lymphocytes, fibroblasts and naked genomic dna were exposed to pr c-210 seconds to hours prior to irradiation.Biological (γ-h2ax foci), chemical (8-oxo-deoxyguanosine) and physical (genomic dna electrophoretic migration) dna damage endpoints were scored to determine the ability of pr c-210 to suppress radiation-induced dna damage.X-ray-induced γ-h2ax foci in blood lymphocytes were reduced by 80% after irradiation with 10, 50 and 100 m gy, and dna double-strand breaks in fibroblasts were reduced by 60% after irradiation with 20 gy.Additionally, we observed a reduction of 8-oxo-deoxyguanosine (an ros-mediated, dna damage marker) in human genomic dna to background in a pr c-210 dose-dependent manner.Pr c-210 also eliminated radiation-induced cell death in colony formation assays after irradiation with 1 gy.The protective efficacy of pr c-210 in each of these assay systems supports its development as a radioprotector for humans in multiple radiation exposure settings.

Journal: Biology open (2018)
Publication types: Journal Article
Effect of Ultrasound-Assisted Sodium Bicarbonate Treatment on Aggregation and Conformation of Reduced-Salt Pork Myofibrillar Protein.

To study the effects of an ultrasound (0, 30, and 60 min) and sodium bicarbonate (0% and 0.2%) combination on the reduced-salt pork myofibrillar protein, the changes in p h, turbidity, aggregation, and conformation were investigated.After the ultrasound-assisted sodium bicarbonate treatment, the p h increased by 0.80 units, the absolute value of zeta potential, hydrophobic force, and active sulfhydryl group significantly increased (p < 0.05), and the turbidity and particle size significantly decreased (p < 0.05).Meanwhile, the fluorescence intensity decreased from 894 to 623, and the fluorescence peak showed a significant redshift, which indicated that the ultrasound-assisted sodium bicarbonate treatment exposed the non-polarity of the microenvironment in which the fluorescence emission group was located, leading to the microenvironment and protein structure of myofibrillar tryptophan being changed.Overall, an ultrasound-assisted sodium bicarbonate treatment could significantly improve pork myofibrillar protein solubility and change the protein structure under a reduced-salt environment.

Journal: Molecules (Basel, Switzerland) (2022)
Publication types: Journal Article
Abnormal Echocardiographic Findings in Hospitalized Patients with Covid-19: A Systematic Review and Meta-analysis.

Coronavirus disease 2019 (covid-19) can lead to severe respiratory distress and acute cardiac injury, but it is unclear how often it can cause cardiac dysfunction.Objective in this systematic review, we aimed to summarize the main echocardiographic findings in patients with covid-19.Methods we systematically searched in pubmed, embase, lilacs and cochrane databases, in addition med rxiv and scielo preprints from inception to july 21st, 2021.Studies reporting echocardiographic data in patients with covid-19 were included.Demographic characteristics, previous cardiovascular disease (cvd), and echocardiographic findings were extracted.We performed a meta-analysis of proportions to estimate the main echocardiographic findings.The level of significance was p < 0.05.Results from 11,233 studies, 38 fulfilled inclusion criteria and were included in the meta-analysis.The estimated proportions of left ventricular (lv) systolic dysfunction were 25% (95%ci: 19, 31; i293%), abnormal global longitudinal strain 34% (95% ci 23, 45; i290%), righ ventricular (rv) systolic dysfunction 17% (95%ci 13, 21; i290%), pericardial effusion 17% (95%ci: 9, 26; i297%), and pulmonary hypertension 23% (95%ci: 15, 33, i2 96%).Lv systolic dysfunction was directly associated with study-specific prevalence of previous abnormal echocardiogram (p<0.001).The proportion of patients in mechanical ventilation, indicating severity of disease, did not explain the heterogeneity in the proportions of lv dysfunction (p=0.37).Conclusion among hospitalized patients with covid-19, lv dysfunction has been reported in one quarter, with smaller proportions of right ventricular dysfunction, pericardial effusion and pulmonary hypertension.However, there was a higher proportion of lv dysfunction among studies reporting the presence of prior heart disease, which suggests that cardiac dysfunction was mostly pre-existing.

Journal: Arquivos brasileiros de cardiologia (2022)
Publication types: Journal Article;Meta-Analysis;Systematic Review
Sector-Based Top-Down Estimates of NOx, SO2, and CO Emissions in East Asia.

Top-down estimates using satellite data provide important information on the sources of air pollutants.We develop a sector-based 4d-var framework based on the geos-chem adjoint model to address the impacts of co-emissions and chemical interactions on top-down emission estimates.We apply omi no2, omi so2, and mopitt co observations to estimate nox, so2, and co emissions in east asia during 2005-2012.Posterior evaluations with surface measurements show reduced normalized mean bias (nmb) by 7% (no2)-15% (so2) and normalized mean square error (nmse) by 8% (so2)-9% (no2) compared to a species-based inversion.This new inversion captures the peak years of chinese so2(2007) and nox(2011) emissions and attributes their drivers to industry and energy activities.The co peak in 2007 in china is driven by residential and industry emissions.In india, the inversion attributes noxand so2trends mostly to energy and co trend to residential emissions.

Journal: Geophysical research letters (2022)
Publication types: Journal Article
The human oxidation field.

Hydroxyl (oh) radicals are highly reactive species that can oxidize most pollutant gases.In this study, high concentrations of oh radicals were found when people were exposed to ozone in a climate-controlled chamber.Oh concentrations calculated by two methods using measurements of total oh reactivity, speciated alkenes, and oxidation products were consistent with those obtained from a chemically explicit model.Key to establishing this human-induced oxidation field is 6-methyl-5-hepten-2-one (6-mho), which forms when ozone reacts with the skin-oil squalene and subsequently generates oh efficiently through gas-phase reaction with ozone.A dynamic model was used to show the spatial extent of the human-generated oh oxidation field and its dependency on ozone influx through ventilation.This finding has implications for the oxidation, lifetime, and perception of chemicals indoors and, ultimately, human health.

Journal: Science (New York, N.Y.) (2022)
Publication types: Journal Article
Clinically Amyopathic Dermatomyositis Caused by a Tattoo.

Introduction clinically amyopathic dermatomyositis (cadm) is a rare disease with unknown origin.It is characterized by the specific skin lesions of dermatomyositis (dm) without clinical or laboratory evidence of myopathy.Previous studies indicated that tattoo may induce immune response.Case report a 22-year-old male who tattooed butterfly on the left chest with blue and red ink.Then, he gradually had typical gottron rash and interstitial lung disease (ild) without weakness of the muscle.The clinical presentation and laboratory test represent the diagnosis of cadm.According to the history, cadm was induced by the tattoo five months before admission.Discussion we first reported the cadm induced by a tattoo.However, further studies are still needed to approach the specific substances within the tattoo that trigger immune response.

Journal: Case reports in rheumatology (2018)
Publication types: Case Reports;Journal Article
Barium concentrations and speciation in surface waters collected from an active barium mining area in Guizhou Province, southwestern China.

Barium (ba) is a toxic element and can cause serious health effects.Humans have experienced increased exposure to ba due to its intensive usage in industrial areas and daily life.Anthropogenic activities of ba mining and the manufacture of ba containing products introduce the element into surrounding areas, posing environmental concerns.Concentrations of total ba (tba) and dissolved ba (dba) in water samples collected from active ba mines in tianzhu, east guizhou province, southwestern china were measured to show the regional dispersion of ba contamination.Aqueous ba species in water were calculated using the phreeqc program.The results showed that tba and dba concentrations ranged from 6.7 to 483.1 μg/l and from 7.5 to 222.7 μg/l, respectively.Tba concentrations presented a high average value of 126.6 μg/l and greatly exceeded the reported common value of 10 μg/l ba in surface water set by the ministry of environment protection of china.Phreeqc results indicated that ba species in water were present as ba2+, ba so4, ba hco3, ba co3, and ba oh+.The distribution of ba species in water is controlled by p h and total organic carbon (toc), and the lower p h (p h < 7) the higher the dissolved fractions.The log kdvalues (kd, dissolved-particulate distribution coefficients) varied from 2.41 to 6.32.Significant correlations were observed among ba2+and k+, na+, cl-, no3-, with pearson correlation coefficients of 0.425, 0.531, 0.853, 0.612, and 0.329, respectively (p < 0.01).Elevated ba concentrations in water indicated that the ba contamination and its distribution pattern in local aquatic ecosystems are derived from ba mining sites in the tianzhu area.

Journal: Environmental science and pollution research international (2018)
Publication types: Journal Article
Color-tunable bioluminescence imaging portfolio for cell imaging.

The present study describes a color-tunable imaging portfolio together with twelve novel coelenterazine (ctz) analogues.The three groups of ctz analogues create diverse hues of bioluminescence (bl) ranging from blue to far red with marine luciferases.We found that the hue completes the whole color palette in the visible region and shows red-shifted bl with a marine luciferase: for example, renilla luciferase 8 (rluc8) and artificial luciferase 16 (aluc16) show 187 nm- and 105 nm-redshifted spectra, respectively, by simply replacing the substrate ctz with 1d.The optical properties of the new ctz analogues were investigated such as the kinetic parameters, dose dependency, and luciferase specificity.The 2-series ctz analogues interestingly have specificity to alucs and are completely dark with rluc derivatives, and 3d is highly specific to only nano luc.We further determined the theoretical background of the red-shifted bl maximum wavelengths (λbl) values according to the extended π conjugation of the ctz backbone using density functional theory (dft) calculations.This color-tunable bl imaging system provides a useful multicolor imaging portfolio that efficiently images molecular events in mammalian cells.

Journal: Scientific reports (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Microbial surfactants: A journey from fundamentals to recent advances.

Microbial surfactants are amphiphilic surface-active substances aid to reduce surface and interfacial tensions by accumulating between two fluid phases.They can be generically classified as low or high molecular weight biosurfactants based on their molecular weight, whilst overall chemical makeup determines whether they are neutral or anionic molecules.They demonstrate a variety of fundamental characteristics, including the lowering of surface tension, emulsification, adsorption, micelle formation, etc.Microbial genera like bacillusspp.,pseudomonasspp., candidaspp., and pseudozymaspp.Are studied extensively for their production.The type of biosurfactant produced is reliant on the substrate utilized and the pathway pursued by the generating microorganisms.Some advantages of biosurfactants over synthetic surfactants comprise biodegradability, low toxicity, bioavailability, specificity of action, structural diversity, and effectiveness in harsh environments.Biosurfactants are physiologically crucial molecules for producing microorganisms which help the cells to grasp substrates in adverse conditions and also have antimicrobial, anti-adhesive, and antioxidant properties.Biosurfactants are in high demand as a potential product in industries like petroleum, cosmetics, detergents, agriculture, medicine, and food due to their beneficial properties.Biosurfactants are the significant natural biodegradable substances employed to replace the chemical surfactants on a global scale in order to make a cleaner and more sustainable environment.

Journal: Frontiers in microbiology (2022)
Publication types: Journal Article;Review
Older people in custody in a forensic psychiatric facility, prevalence of dementia, and community reintegration needs: an exploratory analysis.

Across much of the developed world, the number of older people in custody has been increasing, which presents challenges for correctional systems due to the complex social, medical and mental health needs of this subgroup, especially those living with dementia.The present study therefore aimed to increase insight into the extent to which older people in custody are (a) potentially living with dementia and (b) receiving appropriate supports/services (particularly, with respect to community reintegration).Results cross-sectional data were drawn from a sample of 29 older people in custody and 20 correctional health care professionals at a regional forensic psychiatric hospital in a medium-sized canadian city.In general, analyses revealed that: (a) scores from a modified version of the community screening instrument for dementia (csi'd') suggest that 45% of older individuals screened positive for dementia; (b) 35% of social workers and 25% of primary nurses (i.e., rns/rpns) suspected that at least one older individual on their caseload has dementia, and there was adequate agreement between health staffs' perception of the presence or absence of dementia and the csi'd' assessment; (c) varying supports/services may be required for older individuals' successful community reintegration and living; and (d) social workers and primary nurses generally lack training/education to adequately support older people in custody.Conclusions a substantial number of older people in custody may experience age-related challenges, including dementia.This necessitates the development and implementation of programming to effectively address older individuals' needs during incarceration and community reintegration and living.

Journal: Health & justice (2022)
Publication types: Journal Article
Retrospective Analysis of EEG in Patients With COVID-19: EEG Recording in Acute and Follow-up Phases.

Interest in electroencephalographic (eeg) coronavirus disease 2019 (covid-19) findings has been growing, especially in the search for a specific-features eeg of encephalopathy.methods.We made a retrospective analysis of 29 eegs recorded in 15 patients with covid-19 and neurological symptoms.We classified the eegs as "acute eeg" and "follow-up eeg." we did a statistical analysis between voltage and respiratory status of the patient, stay or not in the intensive care unit (icu), days of stay in the icu, sedative drugs, pharmacological treatment, type of symptoms predominating, and outcome.results.We found eeg abnormalities in all patients studied.We observed the amplitude of background <20 μv at 93% of "acute eeg," versus only 21.4% of "follow-up eeg." the average voltage went from 12.33 ± 5.09 μv in the acute eegs to 32.8 ± 20.13 μv in the follow-up eegs.A total of 60% of acute eegs showed an intermittent focal rhythmic.We have not found a statistically significant association between voltage of acute eeg and nonneurological clinical status (including respiratory) that may interfere with the eeg findings.conclusions.Nonspecific diffuse slowing eeg pattern in covid-19 is the most common finding reported, but we found in addition to that, as a distinctive finding, low voltage eeg, that could explain the low prevalence of epileptic activity published in these patients.A metabolic/hypoxic mechanism seems unlikely on the basis of our eeg findings.This pattern in other etiologies is reminiscent of severe encephalopathy states associated with poor prognosis.However, an unreactive low voltage pattern in covid-19 patients is not necessarily related to poor prognosis.

Journal: Clinical EEG and neuroscience (2022)
Publication types: Journal Article
Information theory in vertebrate stress physiology.

Information theory has been applied productively across biology, but it has been used minimally in endocrinology.Here, we advocate for the integration of information theory into stress endocrinology.Presently, the majority of models of stress center on the regulation of hormone concentrations, even though what interests most endocrinologists and matters in terms of individual health and evolutionary fitness is the information content of hormones.In neuroscience, the free energy principle, a concept offered to explain how the brain infers current and future states of the environment, could be a guide for resolving how information is instantiated in hormones such as the glucocorticoids.Here, we offer several ideas and promising options for research addressing how hormones encode and cells respond to information in glucocorticoids.

Journal: Trends in endocrinology and metabolism: TEM (2022)
Publication types: Journal Article;Research Support, U.S. Gov't, Non-P.H.S.;Review
Tackling the Burden of Osteoarthritis as a Health Care Opportunity in Indigenous Communities-A Call to Action.

Osteoarthritis is a highly prevalent and disabling disease, causing a significant individual and socioeconomic burden worldwide.Until now, there has been a dearth of research exploring the impact of osteoarthritis in global indigenous communities.Osteoarthritis has a similar risk factor profile to many chronic diseases that disproportionately affect indigenous peoples.In this editorial, we argue that osteoarthritis and associated mobility restrictions play a central role in the chronic disease profile of indigenous peoples.We present a call to action for clinicians and health care providers, researchers and policymakers to begin to recognise the interrelated nature of osteoarthritis and chronic disease.We have an opportunity to change the way we do business, to improve access to culturally secure osteoarthritis care and the health and wellbeing of indigenous communities.

Journal: Journal of clinical medicine (2020)
Publication types: Editorial