syedzayyan/paper_mill_benchmark huggingface dataset:
Sugar-Assisted Cryopreservation of Stem Cell-Laden Gellan Gum-Collagen Interpenetrating Network Hydrogels.

Tissue engineering involves the transplantation of stem cell-laden hydrogels as synthetic constructs to replace damaged tissues.However, their time-consuming fabrication procedures are hurdles to widespread application in clinics.Fortunately, similar to cell banking, synthetic tissues could be cryopreserved for subsequent central distribution.Here, we report the use of trehalose and gellan gum as biomacromolecules to form a cryopreservable yet directly implantable hydrogel system for adipose-derived stem cell (adsc) delivery.Through a modified cell encapsulation method and a preincubation step, adequate cryoprotection was afforded at 0.75 m trehalose to the encapsulated adscs.At this concentration, trehalose demonstrated lower propensity to induce apoptosis than 10% dmso, the current gold standard cryoprotectant.Moreover, when cultured along with trehalose after thawing, the encapsulated adscs retained their stem cell-like phenotype and osteogenic differentiation capacity.Taken together, this study demonstrates the feasibility of an "off-the-shelf" biomacromolecule-based synthetic tissue to be applied in widespread tissue engineering applications.

Journal: Biomacromolecules (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
The prevalence of elevated-rim polyethylene liner use in primary total hip arthroplasty in the New York State metropolitan area.

In existing radiographic studies on primary total hip arthroplasty (tha) examining the spino-pelvic effect on tha instability, there is no control of the type of polyethylene liner used, which may be a significant confounder of the results.We sought to determine the prevalence of the use of elevated liners in primary tha using regional implant company sales data.A total of 12,528 liners were analyzed, demonstrating that the overall regional percentage use of lipped liner use is high and varies inversely with larger head sizes.This prevalence data suggests that it is important to consider the use of lipped liners as a confounding variable that should not be overlooked in radiographic studies analyzing cup position and tha instability.

Journal: Arthroplasty today (2019)
Publication types: Journal Article
ISOFLURANE RESPIRATORY ANESTHETIC INDEX IN CHICKENS (GALLUS GALLUS DOMESTICUS).

Respiratory depression from isoflurane seems to be greater in birds than in mammals.Isoflurane respiratory anesthetic index (ai) has only been evaluated in ducks (anas platyrhynchos), which indeed showed a lower ai compared to mammals, but the isoflurane ai for other avian species is not known.The aim of this study was to evaluate the isoflurane ai in chickens (gallus gallus domesticus).Six adult hens were anesthetized with isoflurane for determination of the minimum anesthetic concentration (mac) using the bracketing method.During a second anesthetic event, the isoflurane ai was determined by progressively increasing the expired fraction of isoflurane by 0.5 times mac until apnea was achieved (etiso-apnea).The isoflurane ai was considered the ratio between the etiso-apneaand the mac.Heart rate, systolic arterial pressure, respiratory rate, and end-tidal carbon dioxide were continuously monitored throughout both anesthetic events.Data were analyzed using a mixed-effect model with greenhouse-geisser correction, followed by tukey's test.The mac for isoflurane was 1.18% ± 0.09% (mean ± sd).The etiso-apneawas 3.31% ± 0.34% and the isoflurane ai was 2.80 ± 0.26.In chickens, isoflurane ai is similar to that measured in mammals, which is in contrast with published data in other avian species.

Journal: Journal of zoo and wildlife medicine : official publication of the American Association of Zoo Veterinarians (2021)
Publication types: Clinical Trial, Veterinary;Journal Article
Pharmaceutical application of multivariate modelling techniques: a review on the manufacturing of tablets.

The tablet manufacturing process is a complex system, especially in continuous manufacturing (cm).It includes multiple unit operations, such as mixing, granulation, and tableting.In tablet manufacturing, critical quality attributes are influenced by multiple factorial relationships between material properties, process variables, and interactions.Moreover, the variation in raw material attributes and manufacturing processes is an inherent characteristic and seriously affects the quality of pharmaceutical products.To deepen our understanding of the tablet manufacturing process, multivariable modeling techniques can replace univariate analysis to investigate tablet manufacturing.In this review, the roles of the most prominent multivariate modeling techniques in the tablet manufacturing process are discussed.The review mainly focuses on applying multivariate modeling techniques to process understanding, optimization, process monitoring, and process control within multiple unit operations.To minimize the errors in the process of modeling, good modeling practice (gmo p) was introduced into the pharmaceutical process.Furthermore, current progress in the continuous manufacturing of tablets and the role of multivariate modeling techniques in continuous manufacturing are introduced.In this review, information is provided to both researchers and manufacturers to improve tablet quality.

Journal: RSC advances (2021)
Publication types: Journal Article;Review
Granulomatous Mastitis: A Therapeutic and Diagnostic Challenge.

Granulomatous mastitis (gm) is a rare benign inflammatory breast disease that affects mostly women of childbearing age with a history of breastfeeding.The etiopathogenesis is still unknown; however, inflammation as the result of a reaction to trauma, metabolic or hormonal processes, autoimmunity, and an infection with corynebacterium kroppenstedtiihave all been implicated.Clinical findings are pain, mass, hyperemia, and inflammation.Because the clinical presentation can mimic infectious mastitis or inflammatory carcinoma, the disease course is often protracted.The diagnosis is made by histopathology.Biopsies show a granulomatous formation in combination with a localized infiltration of multi-nucleated giant cells, epithelioid histiocytes, and plasma cells.Ultrasound, mammography, and magnetic resonance imaging are not specific; however, ultrasound and mammography should be done to exclude other pathologies.Due to the lack of data including randomized controlled studies, the management of gm is controversial.In western industrialized countries, most authors use a therapy regimen starting with antibiotics and corticosteroids, followed by continuous steroid therapy and surgery in patients with persisting symptoms.More data are needed to define the best therapy.The role of immunotherapy has not yet been ascertained.The implementation of a registry to collect more information on this rare disease is highly recommended.

Journal: Breast care (Basel, Switzerland) (2018)
Publication types: Journal Article;Review
Assessment of Metal Accumulation byArthrospira platensisand Its Adaptation to Iterative Action of Nickel Mono- and Polymetallic Synthetic Effluents.

Cyanobacteria-mediated wastewater remediation is an economical, efficient, and eco-friendly technology.The present work deals with the bioaccumulation performance of arthrospira platensis(spirulina) grown for four cycles in a medium containing nickel mono- and polymetallic synthetic effluents.The metal uptake by spirulina biomass was evaluated using neutron activation analysis.The effects of effluents on biomass production, protein, and phycobiliprotein content were assessed.Metal accumulation in the biomass depended on the effluent composition and metal ion concentrations.Nickel accumulation in the biomass was directly proportional to its concentration in effluents, and maximum uptake (1310 mg/kg) was attained in the ni/cr/fe system.In the same system, biomass accumulated 110 times more chromium and 4.7 times more iron than control.The highest accumulation of copper (2870 mg/kg) was achieved in the ni/cu/zn/mo system and zinc (1860 mg/kg)-in the ni/cu/zn/sr system.In biomass grown in the media loaded with nickel and also chromium, iron, copper, strontium, zinc, and molybdenum, a decrease in productivity (on average by 10%) during the first cycle of cultivation and moderate reduction of protein content (by 15-27%) was observed.The presence of metals in the cultivation media inhibited phycobiliprotein synthesis, especially of phycocyanin, and promoted the synthesis of allophycocyanin.The maximum reduction of phycocyanin content was 77%, and the increase of allophycocyanin content-by 45%.arthrospira platensismay be deemed as bioremediation of nickel-polluted wastewaters of complex composition.

Journal: Microorganisms (2022)
Publication types: Journal Article
Complexity and disequilibrium in the dipole-type Hamiltonian mean-field model.

This research studies information properties, such as complexity and disequilibrium, in the dipole-type hamiltonian mean-field model.A fundamental analytical assessment is the partition function in the canonical ensemble to derive statistical, thermodynamical, and information measures.They are also analytical, dependent on the number of particles, consistent with the theory for high temperatures, and rising some limitations at shallow temperatures, giving us a notion of the classicality of the system defining an interval of temperatures where the model is well working.

Journal: Chaos (Woodbury, N.Y.) (2022)
Publication types: Journal Article
Arginyl-fructosyl-glucose from red ginseng alleviates TGF-β1-induced epithelial-mesenchymal transition of renal tubular epithelial cells.

This study aims to explore the effect and mechanism of arginyl-fructosyl-glucose (afg) on tgf-β1-induced epithelial-mesenchymal transition (emt) of renal tubular epithelial cells.Hk-2 cells were induced by tgf-β1 and then co-cultured with afg at different concentrations (0, 25, 50, and 100 μmol/l) for 48 h.The morphology of hk-2 cells was observed under an inverted microscope and the expressions of α-sma, vimentin, and e-cadherin were assessed by q rt-pcr, western blot, and immunofluorescence.The m rna expressions of erk and stat3 were also examined by q rt-pcr, and the protein levels of erk, stat3, p-erk, and p-stat3 were measured by western blot.Finally, cck-8 and transwell assays were used to detect cell proliferation and invasion.Tgf-β1 treatment significantly induced emt in hk-2 cells.The expressions of p-erk and p-stat3 were signally increased after tgf-β1 induction, while mogrol treatment inhibited p-erk, p-stat3, α-sma, and vimentin expression levels, enhanced e-cadherin expression, and suppressed cell proliferation and invasion.Afg exposure could also inhibit p-erk, p-stat3, α-sma, and vimentin expressions, promote e-cadherin expression, and markedly inhibit hk-2 cell proliferation and invasion.Afg inhibited tgf-β1-induced emt of renal tubular epithelial cells by regulating phosphorylation of erk and stat3.

Journal: General physiology and biophysics (2022)
Publication types: Journal Article
The interaction analysis between human serum albumin with chlorpyrifos and its derivatives through sub-atomic docking and molecular dynamics simulation techniques.

Chlorpyrifos (cpf) is an extensively used organophosphate pesticide for crop protection.However, there are concerns about it contaminating the environment and human health, with estimated three lakh deaths annually.The molecular modeling protocol was assisted in redesigning thirteen well-known cpf linkers and inserting them at five selectable cpf (r1-r5) positions of cpf to get 258 cpf derivatives.Cpf and its derivatives were optimized using lig prep and docked to a grid centralized on trp214 using extra precision glide docking.The binding free energy of complexes was calculated using molecular mechanics/generalized born surface area (mm-gbsa).Cpf and cpfd-225 have glide scores of - 3.08 and - 6.152 kcal/mol, respectively, with human serum albumin and δg bind for cpf (- 33.041817 kcal/mol) (- 52.825 kcal/mol) for cpf-d225.The top ten cpf derivatives showed at least ninefold better binding free energy than the cpf proposed for polyclonal antibody production.Subsequently, molecular docking studies revealed that cpf and its derivatives could bind to human serum albumin (hsa).Furthermore, using the desmond package, a 100-ns molecular dynamics (md) simulation was performed on the potential binding site.The final systems of cpf-hsa and cpf-222d complexes consist of 76,014 and 76,026 atoms, respectively.The physical stability of both the systems (cpf-hsa and cpf-222d) was analyzed by considering the overall potential energy, rmsf, rmsd, hydrophobic interactions, and water-mediated patterns, which showed total energy of - 141,610 kcal/mol and - 140,150 kcal/mol, respectively.Supplementary information the online version contains supplementary material available at .

Journal: 3 Biotech (2022)
Publication types: Journal Article
Pharmacokinetic, pharmacodynamic, and transcriptomic analysis of chronic levetiracetam treatment in 5XFAD mice: A MODEL-AD preclinical testing core study.

Introduction hyperexcitability and epileptiform activity are commonplace in alzheimer's disease (ad) patients and associated with impaired cognitive function.The anti-seizure drug levetiracetam (lev) is currently being evaluated in clinical trials for ability to reduce epileptiform activity and improve cognitive function in ad.The purpose of our studies was to establish a pharmacokinetic/pharmacodynamic (pk/pd) relationship with lev in an amyloidogenic mouse model of ad to enable predictive preclinical to clinical translation, using the rigorous preclinical testing pipeline of the model organism development and evaluation for late-onset alzheimer's disease preclinical testing core.Methods a multi-tier approach was applied that included quality assurance and quality control of the active pharmaceutical ingredient, pk/pd modeling, positron emission tomography/magnetic resonance imaging (pet/mri), functional outcomes, and transcriptomics.5xfad mice were treated chronically with lev for 3 months at doses in line with those allometrically scaled to the clinical dose range.Results pharmacokinetics of lev demonstrated sex differences in cmax, auc0-∞, and cl/f, and a dose dependence in auc0-∞.After chronic dosing at 10, 30, 56 mg/kg, pet/mri tracer18f-av45, and18f-fluorodeoxyglucose (18f-fdg) showed specific regional differences with treatment.Lev did not significantly improve cognitive outcomes.Transcriptomics performed by nano string demonstrated drug- and dose-related changes in gene expression relevant to human brain regions and pathways congruent with changes in18f-fdg uptake.Discussion this study represents the first report of pk/pd assessment of lev in 5xfad mice.Overall, these results highlighted non-linear kinetics based on dose and sex.Plasma concentrations of the 10 mg/kg dose in 5xfad overlapped with human plasma concentrations used for studies of mild cognitive impairment, while the 30 and 56 mg/kg doses were reflective of doses used to treat seizure activity.Post-treatment gene expression analysis demonstrated lev dose-related changes in immune function and neuronal-signaling pathways relevant to human ad, and aligned with regional18f-fdg uptake.Overall, this study highlights the importance of pk/pd relationships in preclinical studies to inform clinical study design.Highlights significant sex differences in pharmacokinetics of levetiracetam were observed in 5xfad mice.plasma concentrations of 10 mg/kg levetiracetam dose in 5xfad overlapped with human plasma concentration used in the clinic.drug- and dose-related differences in gene expression relevant to human brain regions and pathways were also similar to brain region-specific changes in 18f-fluorodeoxyglucose uptake.

Journal: Alzheimer's & dementia (New York, N. Y.) (2022)
Publication types: Journal Article
Conservative surgical treatment for metatarsal osteomyelitis in diabetic foot: experience of two French centres.

S conservative surgery (cs) for diabetic foot osteomyelitis (dfo) consists in removing all or part of the infected bone tissues without amputation, in complement with antibiotic therapy.Data on cs for dfo therapy are scarce.Material and methods we performed a retrospective analysis of all dfo episodes treated with cs between 06/2007 and 12/2017.Remission was defined by the absence of soft-tissue infection, complete sustained (i.e.> 1 month) healing of the foot ulcer, favourable (i.e., stabilisation or improvement) radiological outcome, and no need for additional surgery during a 1-year follow-up.Results during the study period, 47 episodes (in 41 patients) were analysed.Excluding deaths (all unrelated to the dfo; n = 3) or loss to follow-up before 1 year (n = 5), the remission rate was 64.2%.Most failures occurred during the first 6 months (79%, 11/14).Patients who experienced failure had a higher rate of peripheral arterial disease with arterial stenosis than patients in remission (57% vs.24%, p = 0.03), a higher c-reactive protein rate at admission (116 ± 112 mg/l vs.48 ± 46 mg/l, p = 0.02), and a trend for a higher rate of abscesses (29% vs.4%, p = 0.06).At 1-year follow-up, foot ulcers related to transfer lesion were identified in 25.5% of the cases.At the last follow-up (mean 3 ± 2 years), the remission rate was 23/25 (92%).Conclusions our results suggest that cs is a therapeutic option in patients with localised but severe dfo.Clinicians should, however, consider the necessity of revascularisation, and higher risk of failure if surgery is performed in patients presenting with acute foot infections.

Journal: Diabetes/metabolism research and reviews (2022)
Publication types: Journal Article
Agents of Campylobacteriosis in Different Meat Matrices in Brazil.

We aimed to identify the prevalence of thermophilic species of campylobacterin meats of different species available on the brazilian commercial market and to determine the genetic diversity, antimicrobial resistance and virulence potential of the isolates.A total of 906 samples, including chicken, beef and pork carcasses and chicken and beef livers, were purchased in retail outlets, and prevalences of 18.7% (46/246), 3.62% (5/138), 10.14% (14/138), 3.62% (5/138) and 4.47% (11/132), respectively, were identified, evidencing the dissemination of genotypes in the main producing macro-regions.Of all isolates, 62.8% were classified as multidrug resistant (mdr), with resistance to amoxicillin-clavulanate (49.4%), tetracycline (51.8%) and ciprofloxacin (50.6%) and co-resistance to macrolides and fluoroquinolones (37.1%).Multivirulent profiles were identified mainly in isolates from chicken carcasses (84.8%), and the emergence of mdr/virulent strains was determined in pork isolates.All isolates except those from chicken carcasses showed a high potential for biofilm formation (71.4%lux s) and consequent persistence in industrial food processing.For chicken carcasses, the general virulence was higher in c.Jejuni(54.3%), followed by c.Coli(24%) and campylobacterspp.(21.7%), and in the other meat matrices,campylobacterspp.Showed a higher prevalence of virulence (57.2%).The high rates of resistance and virulence reinforce the existence of strain selection pressure in the country, in addition to the potential risk of strains isolated not only from chicken carcasses, but also from other meat matrices.

Journal: International journal of environmental research and public health (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Locality-Constrained Discriminative Matrix Regression for Robust Face Identification.

Regression-based methods have been widely applied in face identification, which attempts to approximately represent a query sample as a linear combination of all training samples.Recently, a matrix regression model based on nuclear norm has been proposed and shown strong robustness to structural noises.However, it may ignore two important issues: the label information and local relationship of data.In this article, a novel robust representation method called locality-constrained discriminative matrix regression (ldmr) is proposed, which takes label information and locality structure into account.Instead of focusing on the representation coefficients, ldmr directly imposes constraints on representation components by fully considering the label information, which has a closer connection to identification process.The locality structure characterized by subspace distances is used to learn class weights, and the correct class is forced to make more contribution to representation.Furthermore, the class weights are also incorporated into a competitive constraint on the representation components, which reduces the pairwise correlations between different classes and enhances the competitive relationships among all classes.An iterative optimization algorithm is presented to solve ldmr.Experiments on several benchmark data sets demonstrate that ldmr outperforms some state-of-the-art regression-based methods.

Journal: IEEE transactions on neural networks and learning systems (2022)
Publication types: Journal Article
Pelvic bone morphometric analysis in the dugong (Dugong dugon).

The dugong (dugong dugon müller) is recognized as an endangered marine mammal.There is limited available anatomical data on the dugong's skeletal system, while what is available has not been well established due to the limited number of archived samples and limited access to them.Importantly, there are certain key questions that should be answered when examining the bones and/or remains of animals such as; what kind of bone is it?; what species does it belong to?; what sex was the animal?; how old was the animal?Or how big was it?, etc.In this study, we have focused on the pelvic bone of the dugong by asserting the hypothesis that pelvic bone morphology is related to age, sex, and body size.Here, we have established certain morphometric data encompassing 8 parameters and 5 indexes to analyze the morphology of the pelvic bones obtained from 88 specimens (45 dugongs).We will present three main findings: (1) the pelvic bone in mature male subjects is larger than it is in female subjects, (2) a high rate of accuracy can be established for sex identification using morphometric data obtained from the pelvic bone, and (3) the pelvic bone has the highest degree of correlation with body length, followed by body weight and age.Notably, the important data on the pelvic bone of the dugong acquired in this study can be reliable and extremely useful in sex identification and body size estimation.

Journal: Scientific reports (2020)
Publication types: Journal Article;Research Support, Non-U.S. Gov't