syedzayyan/paper_mill_benchmark huggingface dataset:
Feasibility of Transcranial Motor Evoked Potentials and Electromyography during MRI-Guided Laser Interstitial Thermal Therapy for Glioblastoma.

Intraoperative neuromonitoring (ionm) is routinely used during neurosurgical procedures.Magnetic resonance imaging (mri)-guided laser interstitial thermal therapy (litt) is increasingly being used in patients with various brain lesions.Use of ionm (transcranial motor evoked potential [tc mep] and electromyography [emg]) during litt of a brain lesion has not been described previously.Methods in this report, we describe a 70-year-old man who presented with motor weakness in whom imaging revealed a left thalamic lesion.Due to the difficulty in accessing the lesion and proximity to the motor tracts, patient was offered mri-guided litt using tc mep and emg.Results the patient underwent satisfactory ablation of the lesion with successful recording of the tc mep and emg.Technical nuances related to the set-up and procedure is discussed in this report.No procedure-related complications were encountered.Conclusions we describe the first report of safety and feasibility of tc mep and emg during mri-guided litt for left thalamic glioblasatoma.This report paves the way for further prospective investigations regarding the utility of this technique for eloquent brain tumors.

Journal: World neurosurgery (2023)
Publication types: Case Reports;Journal Article
Peer Education and Peer Counselling for Health and Well-Being: A Review of Reviews.

Peer education and peer counselling for health and wellbeing have been recognized as complementary approaches to professional intervention for over 50 years, but it is relatively recently that research into effects has become adequate.Potentially, they have advantages in reaching where professionals cannot, but it has not been clear if that potential is fulfilled, although the measurement of effects is difficult.The present paper examines 58 narrative and systematic reviews and meta-analyses on the topic.In peer education, there were many reviews of sexual health and of hiv/aids interventions, followed by reviews of various medical conditions and in the context of prisons.More general reviews covered a wider field.In peer counselling, there were several reviews of breast-feeding and mental health.Many early reviews complained of the lack of evaluation; then, later reviews found knowledge gains but not behavior gains; then, still later reviews found both knowledge and behavior gains.Thus, peer education and counselling appear effective but only if organizational factors are well managed and the cultural context of the country respected.The implications for future practice, policy and research were outlined.

Journal: International journal of environmental research and public health (2022)
Publication types: Journal Article;Review
Shear wave imaging and classification using extended Kalman filter and decision tree algorithm.

Shear wave ultrasound elastography is a quantitative imaging approach in soft tissues based on viscosity-elastic properties.Complex shear modulus (csm) estimation is an effective solution to analyze tissues' physical properties for elasticity and viscosity based on the wavenumber and attenuation coefficient.Csm offers a way to detect and classify some types of soft tissues.However, csm-based elastography inherits some obstacles, such as estimation precision and calculation complexity.This work proposes an approach for two-dimensional csm estimation and soft tissue classification using the extended kalman filter (ekf) and decision tree (dt) algorithm, named the ekf-dt approach.Csm estimation is obtained by applying ekf to exploit shear wave propagation at each spatial point.Afterward, the classification of tissues is done by a direct and efficient decision tree algorithm categorizing three types of normal, cirrhosis, and fibrosis liver tissues.Numerical simulation scenarios have been employed to illustrate the recovered quality and practicality of the proposed method's liver tissue classification.With the ekf, the estimated wave number and attenuation coefficient are close to the ideal values, especially the estimated wave number.The states of three liver tissue types were automatically classified by applying the dt coupled with two proposed thresholds of elasticity and viscosity: (2.310 k pa, 1.885 pa.s) and (3.620 k pa 3.146 pa.s), respectively.The proposed method shows the feasibility of csm estimation based on the wavenumber and attenuation coefficient by applying the ekf.Moreover, the dt can automate the classification of liver tissue conditions by proposing two thresholds.The proposed ekf-dt method can be developed by 3d image reconstruction and empirical data before applying it in medical practice.

Journal: Mathematical biosciences and engineering : MBE (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
An Electroconductive, Thermosensitive, and Injectable Chitosan/Pluronic/Gold-Decorated Cellulose Nanofiber Hydrogel as an Efficient Carrier for Regeneration of Cardiac Tissue.

Myocardial infarction is a major cause of death worldwide and remains a social and healthcare burden.Injectable hydrogels with the ability to locally deliver drugs or cells to the damaged area can revolutionize the treatment of heart diseases.Herein, we formulate a thermo-responsive and injectable hydrogel based on conjugated chitosan/poloxamers for cardiac repair.To tailor the mechanical properties and electrical signal transmission, gold nanoparticles (au nps) with an average diameter of 50 nm were physically bonded to oxidized bacterial nanocellulose fibers (obc) and added to the thermosensitive hydrogel at the ratio of 1% w/v.The prepared hydrogels have a porous structure with open pore channels in the range of 50−200 μm.Shear rate sweep measurements demonstrate a reversible phase transition from sol to gel with increasing temperature and a gelation time of 5 min.The hydrogels show a shear-thinning behavior with a shear modulus ranging from 1 to 12 k pa dependent on gold concentration.Electrical conductivity studies reveal that the conductance of the polymer matrix is 6 × 10−2 s/m at 75 m m au.In vitro cytocompatibility assays by h9c2 cells show high biocompatibility (cell viability of >90% after 72 h incubation) with good cell adhesion.In conclusion, the developed nanocomposite hydrogel has great potential for use as an injectable biomaterial for cardiac tissue regeneration.

Journal: Materials (Basel, Switzerland) (2022)
Publication types: Journal Article
Novel High-Throughput Strategy for the Aqueous Solubility Assessment of Peptides and Proteins Exhibiting a Propensity for Gelation: Application to the Discovery of Novel Antibacterial Teixobactin Analogues.

A novel high-throughput aqueous solubility assay was developed for peptides and proteins exhibiting a high gelling propensity (in this case, antibacterial teixobactin analogues).By integrating the assessment of gel formation, as indicated by an increase in the solution viscosity, into the peptide equilibrium solubility screening assay, we were able to estimate the "free-flowing solubility", which is defined as the concentration at which the peptide solution not only is fully dissolved but also is a liquid exhibiting ideal flowing characteristics.In this workflow, peptide solutions passing the turbidity assessment were further screened by viscosity measurements based on nanobead-assisted dynamic light scattering analysis in a 96-well plate.The method is able to effectively detect the initiation of peptide gelation and facilitate compound ranking based on their aqueous solubility.The application of such an approach helped confirm that the substitution of ser3in teixobactin led to desired physicochemical improvements and provided a focal point for further chemistry structure-activity relationship exploration.

Journal: Molecular pharmaceutics (2021)
Publication types: Journal Article
CTRP3 alleviates cardiac ischemia/reperfusion injury via LAMP1/JIP2/JNK signaling pathway.

C1q/tumor necrosis factor-related protein 3 (ctrp3) has been reported to be a crucial regulator in myocardial infarction.Nevertheless, the potential molecular mechanism of ctrp3 in ischemia/reperfusion (i/r) injury remains largely unclear.Methods the cell model of myocardial i/r injury was established by oxygen-glucose deprivation/reoxygenation (ogd/r) of rat cardiomyocyte h9c2.Expression of ctrp3 and lysosomal-associated membrane protein 1 (lamp1) was detected in h9c2 cells treated with oxygen-glucose deprivation/reoxygenation (ogd/r).H9c2 cells were transfected with overexpression plasmids of ctrp3 (pc dna-ctrp3) and lamp1 (pc dna-lamp1), or ctrp3 small interfering rna (si-ctrp3) or/and pc dna-lamp1, and cell proliferation, apoptosis and oxidative stress were testified.Co-ip assay was performed to validate the relationship among ctrp3, lamp1 and jip2.The role of ctrp3 and lamp1 in jip2/jnk pathway was evaluated with western blot assay.Furthermore,in vivomyocardial i/r injury model was constructed to investigate the effect of ctrp3.Results overexpression of ctrp3 and lamp1 both significantly promoted cell proliferation, inhibited apoptosis and the production of reactive oxygen species (ros), malondialdehyde (mad) and cardiac troponin (c tn-i), while silencing ctrp3 exerted the opposite effects, and lamp1 overexpression reversed the effect of silencing ctrp3 on the aspects above.Ctrp3 interacted with lamp1, and both ctrp3 and lamp1 bound with jip2.Sp600125 (jnk inhibitor) could restore the effects of ctrp3 or lamp1 overexpression on the expression of jip2 and phosphorylated-jnk (p-jnk), proliferation and apoptosis.Moreover, overexpression of ctrp3 improved cardiac i/r injuryin vivo.Conclusion ctrp3 alleviates cardiac i/r injury by elevating lamp1 and activating jip2/jnk signaling pathway, which may serve as a potential therapeutic target for i/r injury.

Journal: Aging (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Case Report: AMiTfamily translocation renal cell carcinoma in the renal pelvis, calyces and upper ureter misdiagnosed as upper tract urothelial carcinoma.

Upper tract urothelial carcinoma (utuc) is the most common urothelial malignancy in the renal pelvis or ureter.Renal pelvic carcinoma accounts for 90% of all tumours in the renal pelvis, so the mass in the renal pelvis is usually considered a utuc.Renal cell carcinoma (rcc) in the renal pelvis, calyces and upper ureter is extremely rare, especially mi tfamily translocation rcc, which makes this case even more uncommon.Case presentation we report the case of a 54-year-old man had intermittent painless gross haematuria with occasional blood clots and urodynia for 2 years.Contrast-enhanced computed tomography (ct) and magnetic resonance imaging (mri) scan showed an enlarged left kidney, and a soft tissue mass was seen in the renal pelvis, calyces and upper ureter.The patient's urine-based cytology was positive three times.Due to the severity of the upper ureteral lumen stenosis, we did not perform pathological biopsy during ureteroscopy.In the current case, clinical symptoms, imaging examinations, urine-based cytology, and ureteroscopy were combined to obtain a preoperative diagnosis of utuc.Therefore, robot-assisted laparoscopic left radical nephroureterectomy and retroperitoneal lymphadenectomy were performed.Unexpectedly, the patient was pathologically diagnosed with mi tfamily translocation rcc after surgery.The surgery was uneventful.There was no intestinal tube injury or other complications perioperatively.The postoperative follow-up was satisfactory.Conclusion mi tfamily translocation rcc in the renal pelvis, calyces and upper ureter is extremely rare, and can be easily confused with utuc, resulting in the expansion of surgical scope.Preoperative ureteroscopy and biopsy or tumour punch biopsy should be used to obtain accurate pathology as far as possible, and the selection of correct surgical method is conducive to a good prognosis for patients.

Journal: Frontiers in oncology (2023)
Publication types: Case Reports;Journal Article
Review on the Effects of Electrochemical Exfoliation Parameters on the Yield of Graphene Oxide.

Recent years have witnessed many breakthroughs in research on graphene as well as a significant improvement in the electrochemical synthesis methods of graphene oxide (go).Go is a derivative of graphene which has attracted the focus of worldwide scientists and researchers because of its hydrophilic and easily functionalized properties.The electrochemical approach is popular because it saves time, creates zero explosion risk, releases no hazardous gases, and avoids environmental pollution.Although recent publications show that the green, rapid, and mass electrochemical synthesis of go has more advantages as compared with the traditional hummers method, it is crucial to study the effects of reaction parameters.Herein, we review recent various works regarding the influences of various reaction parameters on the synthesis of go sheets.The advancement, current challenges, and solutions of electrochemical synthesis methods of go are also outlined.Through this review, we hope to spark some clear ideas for anyone who wants to scale up the yield of go.

Journal: ACS omega (2022)
Publication types: Journal Article;Review
The Role of Matrix Metalloproteinase-13 (MMP13) in TGFβ/BMP Pathway Regulation of Fibro-Adipogenic Progenitor (FAP) Differentiation.

Muscle fibrosis and fatty infiltration (fi) are common complications seen in various muscle disease states.Recent studies indicate that muscle residential fibro/adipogenic progenitors (faps) are the major cellular source for muscle fibrosis and fi.We previously showed that mmp13 knockout (ko) mice have significantly increased fi, suggesting an important role of mmp13 in muscle fi.However, how mmp13 affects the differentiation of faps remains unknown.Methods in order to assess the role of mmp-13 on fap differentiation, we isolated faps from wildtype c57bl/6 and mmp13 knock out mice with facs using cd31-, cd45-, integrin α7- and sca-1+ markers.Faps were cultured in 24 well plate after facs.in standard media till 80% confluent and then switched to adipogenic medium.In order to study the role of tgfβ and bmp in their differentiation, faps from both wildtype and mmp13 ko mice were treated with tgfβ1 (5 ng/ml).For mmp13 inhibitor treatment, faps from wildtype mice were incubated in adipogenic medium containing 10 μm mmp13 inhibitor (or vehicle) for 2 weeks.Immunofluorescence and gene expression analysis were used to assess fap adipogenic and fibrogenic differentiation.Faps were stained with perilipin a (fitc, adipogenesis marker) and αsma (red, fibroblast marker), and dapi.Real time pcr was performed for gene expression evaluation.A two-tailed anova was used for statistical comparisons between groups, with p ≤ 0.05.Data are presented as mean ± standard deviation.Results in this study, we isolated faps from wildtype c57bl/6 and mmp13 ko mice and evaluated their adipogenic and fibrogenic differentiation in vitro.Mmp13 ko faps demonstrated enhanced adipogenesis but reduced fibrogenesis compared to wildtype faps.Treating wildtype faps with an mmp13 inhibitor simulated phenotypes seen in mmp13 ko faps.In order to assess the role of mmp13 on tgfβ/bmp signaling in regulating fap differentiation, we treated wildtype and mmp13 ko faps with tgfβ1, bmp7, tgfβ inhibitor, and bmp inhibitor.Tgfβ1 treatment significantly enhanced fibrogenesis, but inhibited adipogenesis of wildtype faps.However, treatment with bmp7 showed the opposite effect.Interestingly, the effect of tgfβ1/bmp7 was voided in mmp13 ko faps.Treating wildtype faps with mmp13 inhibitor also abolished the effect of tgfβ1/bmp7 in fap differentiation.Conclusion results from this study showed that tgfβ1 inhibits fap adipogenesis but stimulates fap fibrogenesis.Bmp7 was shown to promote fap adipogenesis but reduce its fibrogenesis.The role of the tgfβ/bmp signaling pathway regulating fap differentiation was found to be mmp13 dependent.This study suggests that mmp13 is a critical downstream effector in tgfβ/bmp pathway which may serve as a new therapeutic target for muscle fibrosis and fi.

Journal: Cellular physiology and biochemistry : international journal of experimental cellular physiology, biochemistry, and pharmacology (2022)
Publication types: Journal Article
IMU-Based Locomotion Mode Identification for Transtibial Prostheses, Orthoses, and Exoskeletons.

Active transtibial prostheses, orthoses, and exoskeletons hold the promise of improving the mobility of lower-limb impaired or amputated individuals.Locomotion mode identification (lmi) is essential for these devices precisely reproducing the required function in different terrains.In this study, a terrain geometry-based lmi algorithm is proposed.The environment should be built according to the inclination grade of the ground.For example, when the inclination angle is between 7 degrees and 15 degrees, the environment should be a ramp.If the inclination angle is around 30 degrees, the environment is preferred to be equipped with stairs.Given that, the locomotion mode/terrain can be classified by the inclination grade.Besides, human feet always move along the surface of terrain to minimize the energy expenditure for transporting lower limbs and get the required foot clearance.Hence, the foot trajectory estimated by an imu was used to derive the inclination grade of the terrain that we traverse to identify the locomotion mode.In addition, a novel trigger condition (an elliptical boundary) is proposed to activate the decision-making of the lmi algorithm before the next foot strike thus leaving enough time for performing preparatory work in the swing phase.When the estimated foot trajectory goes across the elliptical boundary, the decision-making will be executed.Experimental results show that the average accuracy for three healthy subjects and three below-knee amputees is 98.5% in five locomotion modes: level-ground walking, up slope, down slope, stair descent, and stair ascent.Besides, all the locomotion modes can be identified before the next foot strike.

Journal: IEEE transactions on neural systems and rehabilitation engineering : a publication of the IEEE Engineering in Medicine and Biology Society (2020)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Identification of conserved transcriptome features between humans and Drosophila in the aging brain utilizing machine learning on combined data from the NIH Sequence Read Archive.

Aging is universal, yet characterizing the molecular changes that occur in aging which lead to an increased risk for neurological disease remains a challenging problem.Aging affects the prefrontal cortex (pfc), which governs executive function, learning, and memory.Previous sequencing studies have demonstrated that aging alters gene expression in the pfc, however the extent to which these changes are conserved across species and are meaningful in neurodegeneration is unknown.Identifying conserved, age-related genetic and morphological changes in the brain allows application of the wealth of tools available to study underlying mechanisms in model organisms such as drosophila melanogaster.Rna sequencing data from human pfc and fly heads were analyzed to determine conserved transcriptome signatures of age.Our analysis revealed that expression of 50 conserved genes can accurately determine age in drosophila (r2 = 0.85) and humans (r2 = 0.46).These transcriptome signatures were also able to classify drosophila into three age groups with a mean accuracy of 88% and classify human samples with a mean accuracy of 69%.Overall, this work identifies 50 highly conserved aging-associated genetic changes in the brain that can be further studied in model organisms and demonstrates a novel approach to uncovering genetic changes conserved across species from multi-study public databases.

Journal: PloS one (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't;Research Support, U.S. Gov't, Non-P.H.S.
Overprescribing and Undereducating: a Survey of Pre- and Postoperative Pain Protocols for Pediatric Anterior Cruciate Ligament Surgery.

To establish a better understanding of the variations in pain management protocols and prescribing patterns for pediatric patients undergoing anterior cruciate ligament (acl) reconstruction or repair.Methods a 20-question multiple-choice survey was distributed to 3 professional orthopaedic societies to assess the pre-emptive and postoperative pain management prescribing patterns for pediatric patients undergoing acl reconstruction or repair.Clinical agreement (defined as agreement between >80% of participants) and general agreement (defined as agreement between >60% of participants) were calculated based on responses as previously reported.Results clinical agreement was observed among the 68 respondents in use of a single shot nerve block before induction of anesthesia versus continuous use when a peripheral nerve block was used, "always" counseling patients on postoperative pain control, the prescribing of opioids postoperatively, and a lack of change in postoperative protocol when concomitant meniscal repair or meniscectomy was performed.General agreement was observed in the use of a peripheral nerve block, some pre-emptive analgesia practices, and the lack of counseling patients with regard to disposal of unused opioid pain medication postoperatively.Opioids were prescribed by 88% of participants postoperatively, with 48% prescribing 11 to 19 pills and 15% prescribing ≥20 pills.Conclusions while pain management practices before and following acl reconstruction and repair in the pediatric population remain varied, opioids are frequently prescribed postoperatively with many providers neglecting to provide instruction on excess opioid disposal.Clinical relevance acl reconstruction and repair is becoming increasingly common in the pediatric population.Clinical guidelines that establish pre-emptive and postoperative pain-control protocols should be considered to determine safe and optimal pain control throughout the duration of care while minimizing opioid prescribing and consumption.

Journal: Arthroscopy, sports medicine, and rehabilitation (2021)
Publication types: Journal Article
Organizational Aspects and Outcomes of a Hearing Screening Program Among First-Grade Children in the Mazovian Region of Poland.

The purpose of this study is to describe and assess a hearing screening program of first-grade children in poland.The program aimed to detect hearing disorders and increase awareness among parents of hearing problems.Method a hearing screening program was conducted in all elementary schools of the biggest region in poland.A total of 34,618 first-graders were screened.The hearing screening protocol included video otoscopy and pure-tone audiometry.The program also included an information campaign directed to the local community and educational meetings between parents and medical staff.Results the estimated prevalence of hearing loss was 11%.Unilateral hearing loss was more common than bilateral hearing loss.Mild hearing loss was more frequent than moderate (or worse) hearing loss.In otoscopy, the most common positive result was otitis media with effusion.Parents and medical staff took part in 1,608 educational meetings, broadening the parents' knowledge of how to care for hearing.Conclusions a hearing screening program not only provides data on the prevalence of childhood hearing problems but is also an avenue for providing the local community with valuable knowledge about how to care for hearing.This study demonstrated the importance for systematic monitoring of children's hearing status and of increasing awareness among parents and teachers of the significance of hearing loss.The hearing screening of children starting school should become a standard part of school health care programs.

Journal: Language, speech, and hearing services in schools (2021)
Publication types: Journal Article