syedzayyan/paper_mill_benchmark huggingface dataset:
Similar Loss of Executive Function Performance after Exposure to Low (10 cGy) Doses of Single (4He) Ions and the Multi-Ion GCRSim Beam.

While astronauts are trained to deal with multiple issues that they are likely to encounter during a mission, it is likely that some problems will arise that astronauts have no direct experience in resolving.During international space station (iss) missions, astronauts can rely on mission control to help resolve complex problems, however during the long-duration space missions planned to the moon and mars, astronauts will have to act more autonomously, thus the ability of astronauts to conduct executive function will be critical for problem solving during deep space missions.Several studies have shown that exposure to space radiation results in decreased executive function performance.However, to date these studies have used single ions, whereas there is a complex mixture of ion species and energies within the space-radiation spectrum that astronauts will be exposed to.Thus, there is some concern that the neurocognitive impairments reported from single ion studies will not be representative of the severity, frequency or nature of cognitive deficits that arise following exposure to more complex space-radiation spectra.The current study has determined the relative impact that isodoses of he ions or the simplified 6-ion-galactic cosmic ray simulation (gcrsim) beams had on the performance of male wistar rats in executive function tasks, attentional set shifting (atset) task and unconstrained cognitive flexibility (ucflex).Exposure to 10 c gy gcrsim induced performance deficits in the simple discrimination (sd) stage of the atset task, which appears to be universally impacted by all space-radiation ions studied to date.The magnitude of the sd performance decrements in the gcrsim-irradiated rats were comparable to those observed in he-irradiated rats.Importantly, space-radiation exposure does not appear to decrease the ability of rats to identify the key cues in the atset task, but increased the time/number of iterations required to successfully find the solution.Practice effect (pe) analysis (comparing prescreen to the postirradiation sd performance) revealed that while the sham-treated rats completed the second atset task in 30% less time than they did the prescreen atset test (despite the perceptual domain of the relevant (rewarded) cue being changed), the space-radiation-exposed rats took 50% longer to do so.The space-radiation-induced delay in problem solving was not confined to the atset task, but was also observed when rats were screened for ucflex performance.Should similar changes occur in astronauts, these data raise the possibility that space-radiation exposure would reduce in-flight improvement in performance in repetitive tasks (pe) and may lead to a reduced ability to utilize transitive inference from "similar" problems to solve issues that have not been previously encountered.

Journal: Radiation research (2022)
Publication types: Journal Article;Research Support, U.S. Gov't, Non-P.H.S.
In Vitro Co-culture of Fibroblast and Endothelial Cells to Assess Angiogenesis.

Angiogenesis relies on the spatial and temporal coordination of endothelial migration and proliferation to form new blood vessels.This occurs through synchronous activation of multiple downstream pathways which facilitate vascular development.Proangiogenic growth factors and supporting extracellular matrix allow the formation of capillary-like tubules, reminiscent of microvascular beds, in vitro.In this chapter, we describe a methodology for the establishment of vascular networks by co-culture of endothelial cells and fibroblasts to facilitate the study of tubulogenic and angiogenic potential.We detail the use of si rna mediated knockdown to deplete target genes of interest, in either the endothelial or fibroblast cells, to allow the assessment of their role in angiogenesis.Finally, we detail how these vascular networks may be stained using immunofluorescence to allow quantification of angiogenic potential in vitro.

Journal: Methods in molecular biology (Clifton, N.J.) (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Rolling Bearing Fault Diagnosis Based on WOA-VMD-MPE and MPSO-LSSVM.

In order to further improve the accuracy of fault identification of rolling bearings, a fault diagnosis method based on the modified particle swarm optimization (mpso) algorithm optimized least square support vector machine (lssvm), combining parameter optimization variational mode decomposition (vmd) and multi-scale permutation entropy (mpe), was proposed.Firstly, to solve the problem of insufficient decomposition and mode mixing caused by the improper selection of mode component kand penalty factorαin vmd algorithm, the whale optimization algorithm (woa) was used to optimize the penalty factor and mode component number in the vmd algorithm, and the optimal parameter combination (k,α) was obtained.Secondly, the optimal parameter combination (k,α) was used for the vmd of the rolling bearing vibration signal to obtain several intrinsic mode functions (imfs).According to the pearson correlation coefficient (pcc) criterion, the optimal imf component was selected, and its optimal multi-scale permutation entropy was calculated to form the feature set.Finally, k-fold cross-validation was used to train the mpso-lssvm model, and the test set was input into the trained model for identification.The experimental results show that compared with pso-svm, lssvm, and pso-lssvm, the mpso-lssvm fault diagnosis model has higher recognition accuracy.At the same time, compared with vmd-se, vmd-mpe, and pso-vmd-mpe, woa-vmd-mpe can extract more accurate features.

Journal: Entropy (Basel, Switzerland) (2022)
Publication types: Journal Article
Macrophage Uptake Behavior and Anti-inflammatory Response of Bovine Brain- or Soybean-derived Phosphatidylserine Liposomes.

Phosphatidylserine (ptd ser) is mainly derived from the bovine brain cortex or soybean lecithin.We investigated macrophage uptake behavior and the anti-inflammatory response induced by liposomes containing bovine brain- (b-psl) or soybean-derived ptd ser (s-psl).The size of b-psl and s-psl was very similar.There were no significant differences in the uptake of b-psl and s-psl by raw 264.7 macrophage cells.Addition of b-psl or s-psl decreased the production of the inflammatory cytokines, il-1α, il-6 and tnf-α, in lipopolysaccharide-treated raw 264.7 cells, but there were no differences between them.These results suggest that s-psl may be used as an anti-inflammatory agent.

Journal: Journal of oleo science (2018)
Publication types: Journal Article
Integrative assessment of ecological responses and chemical contamination of urban wastewater outfalls on soft bottom sediments of an estuarine system.

Sewage outfalls are one of the main anthropogenic impacts to coastal systems.Linking the chemical analysis in sediment, and changes in the ecological responses is one of the main tasks in ecosystem assessment for the protection of the marine environment.A three-tiered approach to evaluate the impact of the sewage of a recently built and obsolete urban waste water treatment plants (uwwtps) was performed.The sewage from each uwwtp differentially affected surrounding sediments.Macrobenthic community changes were influenced by the chemical composition in the sediments but also by grain size and organic matter.Abundance of the different families of the macrobenthic communities were correlated with most of the chemicals analyzed.On the contrary, toxicity bioassays were correlated with zn and pcb concentrations but not with environmental variables.The toxicity tests linked the effect of chemical contamination on macrobenthic communities.A joint assessment of both chemical concentrations and their ecological effects is recommended.

Journal: Marine environmental research (2021)
Publication types: Journal Article
Selective conversion of acetone to mesitylene over tantalum phosphate catalysts.

We report the synthesis of a tantalum phosphate catalyst with abundant strong acid sites, which is very active for the catalytic conversion of acetone into mesitylene.Characterizations, kinetic studies, and theoretical results show a relationship between the acidic sites and catalytic performance in this reaction.

Journal: Chemical communications (Cambridge, England) (2022)
Publication types: Journal Article
Airway stenting: Technological advancements and its role in interventional pulmonology.

As offers rapid and sustained relief of symptoms in most patients treated for malignant or benign cao and can also be curative in itself in cases of benign tracheobronchial stenosis.In the past 30 years, this field has seen significant progress, from the misuse of vascular non-covered metallic stents to the development of silicone airway stents with an increasingly large panel of shapes and of hybrid, partially or fully covered, sems customized to the airways.This study aims to offer an overview on: (i) the respective advantages and drawbacks of these two main categories of devices; (ii) the main indications for as and the rationale behind the choice of stent in each situation; and (iii) the main promises borne from the progress made in the field in the past few years, including the development of drug-eluting, biodegradable or patient-specific customized as.

Journal: Respirology (Carlton, Vic.) (2020)
Publication types: Journal Article;Review
Targeted delivery of nanomedicines for promoting vascular regeneration in ischemic diseases.

Ischemic diseases, the leading cause of disability and death, are caused by the restriction or blockage of blood flow in specific tissues, including ischemic cardiac, ischemic cerebrovascular and ischemic peripheral vascular diseases.The regeneration of functional vasculature network in ischemic tissues is essential for treatment of ischemic diseases.Direct delivery of pro-angiogenesis factors, such as vegf, has demonstrated the effectiveness in ischemic disease therapy but suffering from several obstacles, such as low delivery efficacy in disease sites and uncontrolled modulation.In this review, we summarize the molecular mechanisms of inducing vascular regeneration, providing the guidance for designing the desired nanomedicines.We also introduce the delivery of various nanomedicines to ischemic tissues by passive or active targeting manner.To achieve the efficient delivery of nanomedicines in various ischemic diseases, we highlight targeted delivery of nanomedicines and controllable modulation of disease microenvironment using nanomedicines.

Journal: Theranostics (2022)
Publication types: Journal Article;Review;Research Support, Non-U.S. Gov't
Rab GTPases: The principal players in crafting the regulatory landscape of endosomal trafficking.

After endocytosis, diverse cargos are sorted into endosomes and directed to various destinations, including extracellular macromolecules, membrane lipids, and membrane proteins.Some cargos are returned to the plasma membrane via endocytic recycling.In contrast, others are delivered to the golgi apparatus through the retrograde pathway, while the rest are transported to late endosomes and eventually to lysosomes for degradation.Rab gtpases are major regulators that ensure cargos are delivered to their proper destinations.Rabs are localized to distinct endosomes and play predominant roles in membrane budding, vesicle formation and motility, vesicle tethering, and vesicle fusion by recruiting effectors.The cascades between rabs via shared effectors or the recruitment of rab activators provide an additional layer of spatiotemporal regulation of endocytic trafficking.Notably, several recent studies have indicated that disorders of rab-mediated endocytic transports are closely associated with diseases such as immunodeficiency, cancer, and neurological disorders.

Journal: Computational and structural biotechnology journal (2022)
Publication types: Journal Article;Review
Implications of Free Temporoparietal Fascial Flap Reconstruction in the Pediatric Population.

The temporoparietal fascial flap (tpff) is a versatile tool that can be used in the reconstruction of head and neck and distal upper and lower extremity defects.The tpff may be harvested as a pedicle or free flap as well as with the temporalis muscle and/or adjacent calvarial bone as a composite flap.As a free flap, the tpff has been used as a joint gliding surface with coverage of nerves and tendons, for extremity soft tissue repair, for tracheal and pharyngeal coverage and for defects of the nose, scalp, and auricle.This article focuses on the use of the free tpff in the pediatric population through systemic review of the medical literature.Current perspectives on the use of this flap and microsurgery in general in pediatric patients are addressed.

Journal: The Journal of craniofacial surgery (2021)
Publication types: Journal Article
Allele frequency spectra in structured populations: Novel-allele probabilities under the labelled coalescent.

We address the effect of population structure on key properties of the ewens sampling formula.We use our previously-introduced inductive method for determining exact allele frequency spectrum (afs) probabilities under the infinite-allele model of mutation and population structure for samples of arbitrary size.Fundamental to the sampling distribution is the novel-allele probability, the probability that given the pattern of variation in the present sample, the next gene sampled belongs to an as-yet-unobserved allelic class.Unlike the case for panmictic populations, the novel-allele probability depends on the afs of the present sample.We derive a recursion that directly provides the marginal novel-allele probability across afss, obviating the need first to determine the probability of each afs.Our explorations suggest that the marginal novel-allele probability tends to be greater for initial samples comprising fewer alleles and for sampling configurations in which the next-observed gene derives from a deme different from that of the majority of the present sample.Comparison to the efficient importance sampling proposals developed by de iorio and griffiths and colleagues indicates that their approximation for the novel-allele probability generally agrees with the true marginal, although it may tend to overestimate the marginal in cases in which the novel-allele probability is high and migration rates are low.

Journal: Theoretical population biology (2020)
Publication types: Journal Article;Research Support, N.I.H., Extramural
Psychological outcomes for young adults after disastrous events: A mixed-methods scoping review.

Rationale young adulthood (18 to 34) is a time of transitional change where individuals can be highly susceptible to mental health concerns.Despite similar vulnerabilities to their adolescent counterparts, the psychological outcomes for young adults following disasters are not well understood.Objective this scoping review aimed to explore the literature on the psychological outcomes for young adults after disaster events.Methods a systematic search of the literature was conducted in seven electronic databases, including psyc info, medline, cinahl, pilots, embase, scopus, and pro quest dissertations and theses global.In total, 91 reports from 15 countries were included.Results findings suggested that young adults experience a range of psychological consequences after disasters, including posttraumatic stress symptoms, depression, anxiety, and other psychological outcomes, such as general/non-specific psychological distress.Pre-disaster, peri-disaster, and post-disaster factors were also found to influence the degree of psychological outcomes experienced by young adults, including prior psychological functioning and disaster exposure, among a host of other factors.Conclusion future research is recommended to better understand young adults' psychological outcomes, experiences, and service needs following disasters.

Journal: Social science & medicine (1982) (2021)
Publication types: Journal Article;Review
Camera-Based Monitoring of Neck Movements for Cervical Rehabilitation Mobile Applications.

Vision-based interfaces are used for monitoring human motion.In particular, camera-based head-trackers interpret the movement of the user's head for interacting with devices.Neck pain is one of the most important musculoskeletal conditions in prevalence and years lived with disability.A common treatment is therapeutic exercise, which requires high motivation and adherence to treatment.In this work, we conduct an exploratory experiment to validate the use of a non-invasive camera-based head-tracker monitoring neck movements.We do it by means of an exergame for performing the rehabilitation exercises using a mobile device.The experiments performed in order to explore its feasibility were: (1) validate neck's range of motion (rom) that the camera-based head-tracker was able to detect; (2) ensure safety application in terms of neck rom solicitation by the mobile application.Results not only confirmed safety, in terms of rom requirements for different preset patient profiles, according with the safety parameters previously established, but also determined the effectiveness of the camera-based head-tracker to monitor the neck movements for rehabilitation purposes.

Journal: Sensors (Basel, Switzerland) (2021)
Publication types: Journal Article
The effect of material assignment in nasal cavity on dose calculation for nasopharyngeal carcinoma (NPC) using Acuros XB.

To evaluate the effect of material assignment in nasal cavity on dose calculation for the volumetric modulated arc therapy (vmat) of nasopharyngeal carcinoma (npc) using acuros xb (axb) algorithm.Methods the vmat plans of 30 patients with npc were calculated using axb with material auto-assignment of nasal cavity to lung and reassignment to air respectively.The doses to the planning target volumes (ptvs) overlapping with nasal cavity with material auto-assignment of lung (axb_lung) were compared to the values obtained when nasal cavity was reassigned to air (axb_air) under the dose-to-medium (dm) reporting mode of axb.Results for dose calculated under axb_lung, the d98%, d2%, and dmeanof the ptv69.96_air cavity (ptv of prescription dose 69.96 gy overlapping with nasal cavity) were on average 16.1%, 1.6%, and 8.6% larger than that calculated under axb_air, respectively.Up to 19.5% difference in d98%, 3% difference in d2%, and 11.2% difference in dmeanwere observed in the worst cases for ptv69.96.Similar trend was observed for the ptv5940_air cavity, in which the d98%, d2%, and dmeancalculated under axb_lung were on average 14.7%, 2.5%, and 10.2% larger than that calculated under axb_air, respectively.In the worst cases, the difference observed in d98%, d2%, and dmeancould be up to 17.7%, 4.5%, and 12.7%, respectively.Conclusions significant dose difference calculated by axb between the material assignment of lung and air in nasal cavity for npc cases might imply the possibility of underdosage to the ptvs that overlap with inhomogeneity.Therefore, attention should be put to ensure that accurate material assignment for dose calculation under axb such that optimal dosage was given for tumor control.

Journal: Journal of applied clinical medical physics (2022)
Publication types: Journal Article
Toxicological effects of two metabolites derived from o-toluidine and o-anisidine after 28-day oral administration to rats.

Although both o-toluidine and o-anisidine are known as aromatic amines with bladder carcinogenicity, the specific metabolites involved in carcinogenesis are still unclear.Here, we examined the toxicological effects of head-to-tail dimers of o-toluidine and o-anisidine, 2-methyl-n4-(2-methylphenyl) benzene-1,4-diamine (mmbd) and 2-methoxy-n4-(2-methoxyphenyl) benzene-1,4-diamine (mx mx bd), respectively, in rats.Six-week-old male f344 rats were orally administered mmbd, mx mx bd, o-toluidine, and o-anisidine at a dose of 100 mg/kg/day for 28 days.Rats administered 400 mg/kg o-toluidine and 600 mg/kg/day o-anisidine were set as high-dose groups for comparison.Histopathology and immunohistochemistry for γ-h2ax, a dna damage biomarker, and bladder stem cell markers, including aldehyde dehydrogenase 1a1 (aldh1a1), were performed.Mmbd and mx mx bd caused different toxicities than their monomers, inducing hepatotoxicity such as vacuolar degeneration but not splenic lesions due to methemoglobinemia.Bladder lesions, including urothelial hyperplasia, were observed in the high-dose o-toluidine and o-anisidine groups, whereas no obvious changes were induced in the low-dose groups or their dimers.Although γ-h2ax formation was significantly increased by o-toluidine and o-anisidine treatment, γ-h2ax formation did not differ among the mmbd, mx mx bd, and control groups.Notably, immunohistochemistry revealed marked increases in aldh1a1 expression in the bladder urothelium of the mmbd and mx mx bd groups and in the o-toluidine and o-anisidine groups, suggesting that the two dimers may contribute to the bladder carcinogenic effects of o-toluidine and o-anisidine to some extent.The degrees of bladder lesions and γ-h2ax formation did not correlate with the amount of unchanged o-toluidine and o-anisidine in urine, indicating the presence of other metabolites responsible for these findings.

Journal: The Journal of toxicological sciences (2022)
Publication types: Journal Article
Fusion of EEG-Based Activation, Spatial, and Connection Patterns for Fear Emotion Recognition.

At present, emotion recognition based on electroencephalograms (eegs) has attracted much more attention.Current studies of affective brain-computer interfaces (bcis) focus on the recognition of happiness and sadness using brain activation patterns.Fear recognition involving brain activities in different spatial distributions and different brain functional networks has been scarcely investigated.In this study, we propose a multifeature fusion method combining energy activation, spatial distribution, and brain functional connection network (bfcn) features for fear emotion recognition.The affective brain pattern was identified by not only the power activation features of differential entropy (de) but also the spatial distribution features of the common spatial pattern (csp) and the eeg phase synchronization features of phase lock value (plv).A total of 15 healthy subjects took part in the experiment, and the average accuracy rate was 85.00% ± 8.13%.The experimental results showed that the fear emotions of subjects were fully stimulated and effectively identified.The proposed fusion method on fear recognition was thus validated and is of great significance to the development of effective emotional bci systems.

Journal: Computational intelligence and neuroscience (2022)
Publication types: Journal Article
Deeper investigation into the utility of functional class scoring in missing protein prediction from proteomics data.

Functional class scoring (fcs) is a network-based approach previously demonstrated to be powerful in missing protein prediction (mpp).We update its performance evaluation using data derived from new proteomics technology (swath) and also checked for reproducibility using two independent datasets profiling kidney tissue proteome.We also evaluated the objectivity of the fcsp-value, and followed up on the value of mpp from predicted complexes.Our results suggest that (1) fcsp-values are non-objective, and are confounded strongly by complex size, (2) best recovery performance do not necessarily lie at standardp-value cutoffs, (3) while predicted complexes may be used for augmenting mpp, they are inferior to real complexes, and are further confounded by issues relating to network coverage and quality and (4) moderate sized complexes of size 5 to 10 still exhibit considerable instability, we find that fcs works best with big complexes.While fcs is a powerful approach, blind reliance on its non-objectivep-value is ill-advised.

Journal: Journal of bioinformatics and computational biology (2019)
Publication types: Journal Article