syedzayyan/paper_mill_benchmark huggingface dataset:
BRAF mutation is not associated with an increased risk of recurrence in patients undergoing resection of colorectal liver metastases.

Braf mutation is associated with a poor prognosis in patients with metastatic colorectal cancer.For patients with resectable colorectal liver metastases (crlms), the prognostic impact of braf mutation is unknown and the benefit of surgery debated.This nationwide intergroup (achbt, french, ageo) study aimed to evaluate the oncological outcome of patients undergoing liver resection for braf-mutated crlms.Methods the study included patients who underwent resection for braf-mutated crlms in 24 centres between 2012 and 2016.A case-matched comparison was made with 183 patients who underwent resection of crlms with wild-type braf during the same interval.Results sixty-six patients who underwent resection for braf-mutated crlms in 24 centres were compared with 183 patients with wild-type braf.The 1- and 3-year disease-free survival (dfs) rates were 46 and 19 per cent for the braf-mutated group, and 55·4 and 27·8 per cent for the group with wild-type braf (p = 0·430).In multivariable analysis, braf mutation was not associated with worse dfs (hazard ratio 1·16, 95 per cent c.i.0·72 to 1·85; p = 0·547).The 1- and 3-year overall survival rates after surgery were 94 and 54 per cent respectively among patients with braf mutation, and 95·8 and 82·9 per cent in those with wild-type braf (p = 0·004).Median survival after disease progression was 23·0 (95 per cent c.i.11·0 to 35·0) months among patients with mutated braf and 44·3 (35·9 to 52·6) months in those with wild-type braf (p = 0·050).Multisite disease progression was more common in the braf-mutated group (48 versus 29·8 per cent; p = 0·034).Conclusion these results support surgical treatment for resectable braf-mutated crlm, as braf mutation by itself does not increase the risk of relapse after resection.Braf mutation is associated with worse survival in patients whose disease relapses after resection of crlm, as for non-metastatic colorectal cancer.

Journal: The British journal of surgery (2019)
Publication types: Journal Article
An intraosseous epidermal cyst developing in a metacarpal bone after K-wire fixation: a case report.

Intraosseous epidermal cysts (iecs) are rare benign lesions caused by the proliferation of epidermal cells within the bone.The pathogenesis of iec remains unclear; however, trauma-triggered infiltration of the bone by epidermal elements has been suggested.Here, we present a case of an iec in the metacarpal bone of the little finger associated with k-wire fixation for treatment of a fifth metacarpal fracture.

Journal: Skeletal radiology (2015)
Publication types: Case Reports;Journal Article
Radiographer Perspectives on current occurrence and management of claustrophobia in MRI.

Introduction magnetic resonance imaging (mri) is well known to be a source of anxiety for patients, commonly appearing as claustrophobia.One of the main reasons for this is due to the physical nature of the scanner itself.Despite technological improvements, there is lacking evidence on whether these improvements have resulted in a reduction in claustrophobia and anxiety in the clinical setting.Background anxiety associated with the current covid-19 pandemic may also have shown an increase in prevalence.Therefore, the aim of this study was to survey mri radiographers on their perspectives on the occurrence and management of claustrophobia in modern day clinical practice.Methods following ethical approval, an online survey was used to gather the opinions of mri radiographers.This used closed ranking questions as well as open responses to gain insight into how this issue may be presenting in practice, preferences in management, and barriers to providing support.Results responses provide an up-to-date view on how radiographers perceive both displays of anxiety and associated impacts on patient outcome, the considered sources of anxiety, the use and effectiveness of support strategies, barriers to providing this support, and views on how covid-19 has impacted on practice.Conclusion the study provides a current view from radiographers on their experience of claustrophobia in practice.It shows that this remains a regular part of practice within the modality.Therefore, for mri radiographers managing this is an essential component of their role.Communication and interaction with the patient are recognised as important, although time is a barrier to always being able to provide patient centred care.Implications for practice ongoing support is needed for both patients and radiographers to improve experience within mri.

Journal: Radiography (London, England : 1995) (2022)
Publication types: Journal Article
Study of marsh wetland landscape pattern evolution on the Zoigê Plateau due to natural/human dual-effects.

Zoigê plateau, china's largest plateau marsh wetland, has experienced large-scale degradation of the marsh wetland and evolution of the wetland landscape pattern over the past 40 years due to climate warming and human activities.How exactly do the wetland landscape pattern characteristics change?How do climatic change and human activities affect the wetland evolution?These questions are yet to be systematically investigated.In order to investigate changes to the marsh wetland on the zoigê plateau, field investigations, spatial and statistical analysis were undertaken.Findings from our study indicate that from 1977-2016, the area of marsh wetland on the plateau reduced by 56.54%, approximately 66,700 hm2of marsh wetland has been lost.The centroids of both marsh and marshy meadow migrated and the landscape centroid migration behaviors were also correlated with the distribution and variation of the marsh wetland on different slopes.In addition, the number of marsh landscape patches initially increased before decreasing; the number of marshy meadow landscape patches also recorded an initial increase, followed by a decline before a final increase.As the effects of human activities weakened, the aggregation degrees of both marsh and marshy meadow increased.Overall, the fragmentation degree, diversity and fractal dimension of the marsh wetland all declined.An investigation into the driving factors affecting the plateau area shows that the increase of annual average temperature was the natural factor while trenching and overgrazing were the main human factors resulting in wetland degradation.Results from this study provide basic data and theoretical foundation for the protection and restoration of marsh wetland in alpine regions.

Journal: PeerJ (2020)
Publication types: Journal Article
Recurrence Rates of Inflammation after Switching from the Originator Infliximab to Biosimilar Infliximab-abda for Noninfectious Uveitis.

To describe the frequency of ocular flares in patients with noninfectious uveitis who were switched from the originator infliximab to a biosimilar infliximab.Design retrospective case series.Methods all patients with noninfectious uveitis who were switched from the originator infliximab to biosimilar infliximab-abda for nonmedical reasons were reviewed.Patients were excluded if they had less than 3 months of follow-up on either drug.Data included patient demographics, infliximab dosage information, additional immunosuppression medications, and numbers of and times to flares.The main study outcome was frequency of flares, defined as new or worsening inflammatory activity on examination or imaging.Results a total of 17 patients met the inclusion criteria.There were no statistical differences between the duration of follow-up while on the originator and the duration while on the biosimilar infliximab (12.0 vs.10.1 months, respectively; p = .307).Patients experienced more flares per person-years after switching to infliximab-abda (.92), than on the originator infliximab (0.19; p = .028).Four of the 6 patients (66.7%) who experienced flare after switching to infliximab-abda did so within 90 days.Only 1 patient had flares while on originator infliximab went on to develop a single flare on infliximab-abda.The final normalized dosage for patients who flared and remained on infliximab-abda (1.301 mg/kg/week) was higher than that for those who did not flare (1.186 mg/kg/week) but was not statistically significant (p = .417).Conclusions patients who were switched to biosimilar infliximab-abda experience more flares than when previously treated with the originator infliximab.Providers should closely observe patients who switch to biosimilar infliximab, especially within the first 90 days.Patients who do have flares after switching may achieve quiescence with increased biosimilar dosage.

Journal: American journal of ophthalmology (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Melittin Inhibits Hypoxia-Induced Vasculogenic Mimicry Formation and Epithelial-Mesenchymal Transition through Suppression of HIF-1α/Akt Pathway in Liver Cancer.

In this study, we investigated whether melittin could suppress hypoxia-induced vasculogenic mimicry (vm) formation in liver cancer and explored the underlying mechanisms.Melittin significantly inhibited the proliferation of liver cancer cells with or without co cl2presence.Melittin also significantly inhibited co cl2-induced migration, invasion, and vm formation of liver cancer cells.Co cl2treatment suppressed the expression of e-cadherin and elevated the expression of n-cadherin and vimentin.Melittin reversed the changes in the protein and m rna levels of these epithelial-mesenchymal transition (emt) markers.Co cl2-induced accumulation of hif-1αincreased the level of phosphorylated akt and upregulated the expression of vegf and mmp-2/9.Melittin decreased the hif-1αlevel and thereby suppressed the levels of p-akt, vegf, and mmp-2/9.In addition, the inhibitor of pi3k/akt also suppressed co cl2-induced emt and liver cancer cells migration, and the activator of akt, sc-79, partly blocked the effect of melittin on co cl2-induced emt and liver cancer cells migration.In the xenograft tumor model in nude mice, melittin treatment significantly suppressed the tumor growth, vm formation, and hif-1αexpression in the tumor.In conclusion, this study indicates melittin may inhibit hypoxia-induced vm formation and emt in liver cancer through inhibiting hif-1α/akt pathway.

Journal: Evidence-based complementary and alternative medicine : eCAM (2019)
Publication types: Journal Article
Current Strategies to Minimize Ischemia-Reperfusion Injury in Liver Transplantation: A Systematic Review.

Hepatic ischemia reperfusion injury (iri) is a serious threat that characterizes the liver but also other transplantable organs.The worst effect of long-term iri on an impaired graft could lead to irreversible damage and organ failure.Several events characterize the cascade that ultimately leads to organ failure.Among all, multiple strategies have been attempted to identify early phenomena of iri with divergent results, and biomarkers might represent a novel approach to early detect ischemic damage.Methods a literature review of the current state-of-the-art on iri was conducted in the present manuscript.Information was collected from worldwide clinical trials conducted in highly specialized institutions.Experiments conducted on iri animal models and clinical studies were screened.The final outcomes were analyzed and reported in the present review.Results matrix metalloproteinases (mmps) represent an interesting example of the early detector of neutrophil invasion after acute and chronic hepatic iri.Neutrophil gelatinase-associated lipocalin (ngal) is another biomarker which seems more predictable of the iri gravity phase.Mitochondrial flavin mononucleotide (fmn) was recently discovered and might become a reliable biomarker of hepatic iri during hypothermic oxygenation machine perfusion (hope).Conclusion the available strategies to avoid iri, despite constantly improving, are still lacking a gold standard method.Further studies are still needed to explore new options in the iri diagnosis and treatment, and to this purpose, regenerative medicine and tissue engineering surely can play a pivotal role in the transplantation field.

Journal: Reviews on recent clinical trials (2021)
Publication types: Journal Article;Systematic Review
Systematic vector solitary waves from their linear limits in one-dimensional n-component Bose-Einstein condensates.

We systematically construct a series of vector solitary waves in harmonically trapped one-dimensional three-, four-, and five-component bose-einstein condensates.These stationary states are continued in chemical potentials from the analytically tractable low-density linear limit of respective states, as independent linear quantum harmonic oscillator states, to the high-density nonlinear thomas-fermi regime.A systematic interpolation procedure is proposed to achieve this sequential continuation via a trajectory in the multidimensional space of the chemical potentials.The bogoliubov-de gennes spectral analysis shows that all of the states considered herein can be fully stabilized in suitable chemical potential intervals in the thomas-fermi regime.Finally, we present some typical su(n)-rotation-induced and driving-induced dynamics.This method can be extended to higher dimensions and shows significant promise for finding a wide range of solitary waves ahead.

Journal: Physical review. E (2021)
Publication types: Journal Article
Longitudinal MR spectroscopy to detect progression in patients with lower-grade glioma in the surveillance phase.

Monitoring lower-grade gliomas (lr ggs) for disease progression is made difficult by the limits of anatomical mri to distinguish treatment related tissue changes from tumor progression.Mr spectroscopic imaging (mrsi) offers additional metabolic information that can help address these challenges.The goal of this study was to compare longitudinal changes in multiparametric mri, including diffusion weighted imaging, perfusion imaging, and 3d mrsi, for lr gg patients who progressed at the final time-point and those who remained clinically stable.Methods forty-one patients with lr gg who were clinically stable were longitudinally assessed for progression.Changes in anatomical, diffusion, perfusion and mrsi data were acquired and compared between patients who remained clinically stable and those who progressed.Results thirty-one patients remained stable, and 10 patients progressed.Over the study period, progressed patients had a significantly greater increase in normalized choline, choline-to-n-acetylaspartic acid index (cni), normalized creatine, and creatine-to-n-acetylaspartic acid index (crni), than stable patients.Crni was significantly associated with progression status and who type.Progressed astrocytoma patients had greater increases in crni than stable astrocytoma patients.Conclusions lr gg patients in surveillance with tumors that progressed had significantly increasing choline and creatine metabolite signals on mrsi, with a trend of increasing t2 flair volumes, compared to lr gg patients who remained stable.These data show that mrsi can be used in conjunction with anatomical imaging studies to gain a clearer picture of lr gg progression, especially in the setting of clinical ambiguity.

Journal: Neuro-oncology advances (2022)
Publication types: Journal Article
Resolving the Multidecade-Long Mystery in MoaA Radical SAM Enzyme Reveals New Opportunities to Tackle Human Health Problems.

Moa a is one of the most conserved radical s-adenosyl-l-methionine (sam) enzymes, and is found in most organisms in all three kingdoms of life.Moa a contributes to the biosynthesis of molybdenum cofactor (moco), a redox enzyme cofactor used in various enzymes such as purine and sulfur catabolism in humans and anaerobic respiration in bacteria.Unlike many other cofactors, in most organisms, moco cannot be taken up as a nutrient and requires de novo biosynthesis.Consequently, moco biosynthesis has been linked to several human health problems, such as human moco deficiency disease and bacterial infections.Despite the medical and biological significance, the biosynthetic mechanism of moco's characteristic pyranopterin structure remained elusive for more than two decades.This transformation requires the actions of the moa a radical sam enzyme and another protein, moa c.Recently, moa a and moa c functions were elucidated as a radical sam gtp 3',8-cyclase and cyclic pyranopterin monophosphate (c pmp) synthase, respectively.This finding resolved the key mystery in the field and revealed new opportunities in studying the enzymology and chemical biology of moa a and moa c to elucidate novel mechanisms in enzyme catalysis or to address unsolved questions in moco-related human health problems.Here, we summarize the recent progress in the functional and mechanistic studies of moa a and moa c and discuss the field's future directions.

Journal: ACS bio & med chem Au (2022)
Publication types: Journal Article;Review
Detailed Analysis of Estimated pH, Activity Coefficients, and Ion Concentrations between the Three Aerosol Thermodynamic Models.

In this work, we utilize a rich set of simulated and ground-based observational data in tianjin, china to examine and compare the differences in aerosol acidity and composition predicted by three popular thermodynamic equilibrium models: isorropia ii, the extended aerosol inorganics model vision iv (e-aim iv), and the aerosol inorganic-organic mixtures functional groups activity coefficients model (aiomfac).The species used to estimate aerosol acidity for both simulated and ambient data were nh4+, na+, so42-, no3-, and cl-.For simulated data, there is good agreement between isorropia ii and e-aim iv predicted acidity in the forward and metastable mode, resulting from the hydrogen ion activity coefficient (γ(h+)) and the molality (m(h+)) showing opposite trends.While almost all other inorganic species concentrations are found to be similar among the three models, such is not the case for the bisulfate ion (hso4-), which is linked tom(h+).We find that differences in predicted bisulfate between the three models primarily result from differences in the treatment of the hso4-↔ h++ so42-reaction for highly acidic conditions.This difference in bisulfate is responsible for much of the difference in estimated p h for the ambient data (average p h of 3.5 for isorropia ii and 3.0 for e-aim iv).

Journal: Environmental science & technology (2019)
Publication types: Journal Article
Lung autoantibodies: Ready for prime time?

Despite advances in our understanding of the immunology of lung allograft tolerance and a reduction in the rate of acute allograft rejection using contemporary immunosuppressive protocols, the rate of chronic lung allograft dysfunction (clad), both obstructive and restrictive, remains unacceptably high.Clad, particularly the restrictive phenotype, is a harbinger of a foreshortened survival.The development of a consensus approach to the diagnosis of antibody-mediated rejection by the international society for heart and lung transplantation has highlighted the need for a uniform approach toward the investigation, diagnosis, implications and management of both human leukocyte antigen (hla) and non-hla-related antibody formation.This perspective summarizes the current information that underpins the way forward in recognizing the potential importance of non-hla-related antibody formation with respect to allograft injury and outcomes.

Journal: The Journal of heart and lung transplantation : the official publication of the International Society for Heart Transplantation (2017)
Publication types: Editorial
Recurrent Parotid Adenocarcinoma Presenting as Diffuse Myocardial Metastatic Disease.

A 64-year-old man who had undergone treatment for left parotid adenocarcinoma presented with progressive exertional shortness of breath.Evaluation revealed metastatic invasion of the myocardium as a rare presentation of recurrent parotid adenocarcinoma.This case highlights the importance of using multimodal imaging methods in diagnostic evaluation and a collaborative multidisciplinary approach in managing patient care.

Journal: Texas Heart Institute journal (2022)
Publication types: Case Reports;Journal Article
Tapering of biological treatment in autoinflammatory diseases: a scoping review.

Biological treatment and treat-to-target approaches guide the achievement of inactive disease and clinical remission in autoinflammatory diseases (aid).However, there is limited evidence addressing optimal tapering strategies and/or discontinuation of biological treatment in aid.This study evaluates available evidence of tapering biological treatment and explores key factors for successful tapering.Methods a systematic literature search was conducted in embase, medline, cochrane database of systematic reviews and cochrane central register of controlled trials using the ovid platform (1990-08/2020).Bibliographic search of relevant reviews was also performed.Studies/case series (n ≥ 5) in aid patients aged ≤ 18 years with biological treatment providing information on tapering/treatment discontinuation were included.After quality assessment aggregated data were extracted and synthesized.Tapering strategies were explored.Results a total of 6035 records were identified.Four papers were deemed high quality, all focused on systemic juvenile idiopathic arthritis (s jia) (1 open-label randomized trial, 2 prospective, 1 retrospective observational study).Biological treatment included anakinra (n = 2), canakinumab (n = 1) and tocilizumab (n = 1).Strategies in anakinra tapering included alternate-day regimen.Canakinumab tapering was performed randomized for dose reduction or interval prolongation, whereas tocilizumab was tapered by interval prolongation.Key factors identified included early start of biological treatment and sustained inactive disease.Conclusion tapering of biological treatment after sustained inactive disease should be considered.Guidance for optimal strategies is limited.Future studies may leverage therapeutic drug monitoring in combination with pharmacometric modelling to further enhance personalized "taper-to-target" strategies respecting individual patients and diseases aspects.

Journal: Pediatric rheumatology online journal (2022)
Publication types: Journal Article;Review
Sudden Cardiac Death Prevention in Patients with Ischemic Heart Disease-Beyond the Ejection Fraction.

Sudden cardiac death (scd) in patients with ischemic heart disease remains a leading cause of death.Prediction of who is at risk is based on the left ventricular ejection fraction (ef).However, the majority of victims of scd have a normal ef, and the majority of patients implanted with an implantable cardioverter- defibrillator based on their ef are never treated by their device.Several parameters could allow better prediction of scd.Several signs on the ecg and periodic repolarization dynamics have been associated with increased risk.Elevated serum biomarkers such as pro-b type natriuretic peptides and serum soluble suppression of tumorigenicity 2 protein (s st2) are predictive of scd.On the echocardiogram, global longitudinal strain, speckle tracking and relative wall thickness have been implicated.Programmed ventricular stimulation studies and cardiac magnetic resonance are promising modalities that could be further investigated.In conclusion, the ef is an imperfect tool for predicting scd.Using the modalities reviewed, a model could be created for better prediction of patients at risk.

Journal: Reviews in cardiovascular medicine (2022)
Publication types: Journal Article;Review