syedzayyan/paper_mill_benchmark huggingface dataset:
Surgical intervention for malignant bowel obstruction caused by gastrointestinal malignancies.

Malignant bowel obstruction (mbo) is a common event for end-stage gastrointestinal cancer patients.Previous studies had demonstrated manifestations and clinical management of mbo with mixed malignancies.There still lack reports of the surgical treatment of mbo.Aim to analyze the short-term outcomes and prognosis of palliative surgery for mbo caused by gastrointestinal cancer.Methods a retrospective chart review of 61 patients received palliative surgery between january 2016 to october 2018 was performed, of which 31 patients underwent massive debulking surgery (mds) and 30 underwent ostomy/by-pass surgery (obs).The 60-d symptom palliation rate, 30-d morbidity and mortality, and overall survival rates were compared between the two groups.Results the overall symptom palliation rate was 75.4% (46/61); patients in the mds group had significantly higher symptom palliation rate than obs group (90%vs61.2%,p= 0.016).Patients with colorectal cancer who were in the mds group showed significantly higher symptom improvement rates compared to the obs group (overall, 76.4%; mds, 61.5%; obs, 92%;p= 0.019).However, patients with gastric cancer did not show a significant difference in symptom palliation rate between the mds and obs groups (obs, 60%; mds, 80%;p= 1.0).The median survival time in the mds group was significantly longer than in the obs group (10.9 movs5.3 mo,p= 0.05).Conclusion for patients with mbo caused by peritoneal metastatic colorectal cancer, mds can improve symptom palliation rates and prolong survival, without increasing mortality and morbidity rates.

Journal: World journal of gastrointestinal oncology (2020)
Publication types: Journal Article
A preliminary investigation of childhood anxiety/depressive symptomatology and working memory across multiple units of analysis.

This exploratory study examined multiple units of working memory (wm) analysis in a transdiagnostic, treatment-seeking, pediatric sample.This included a) an electroencephalography marker of wm (coupling of theta and gamma oscillations [i.e., theta-gamma coupling] in frontal brain regions), b) wm test performance, and c) parent-reported wm symptoms.A composite score combining each of these units of analysis correlated with self-reported depressive and anxiety symptoms, with only theta-gamma coupling independently predicted anxiety/depressive symptoms.Results confirm prior findings on the association between wm and anxiety/depression, although the majority of this variance was explained by frontal theta-gamma coupling during wm demands.

Journal: Psychiatry research (2021)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Two Newly IsolatedEnterobacter-Specific Bacteriophages: Biological Properties and Stability Studies.

In an era of antibiotic therapy crisis caused by spreading antimicrobial resistance, and when recurrent urinary tract infections constitute a serious social and medical problem, the isolation and complex characterization of phages with a potential therapeutic application represents a promising solution.It is an inevitable, and even a necessary direction in the development of current phage research.In this paper, we present two newly isolated myoviruses that show lytic activity against multidrug-resistant clinical isolates of enterobacterspp.(e.Cloacae,e.Hormaechei, and e.Kobei), the genomes of which belong to a poorly represented phage group.Both phages were classified as part of the tevenvirinaesubfamily (entb_43 was recognized as karamvirusand entb_45 as kanagawavirus).Phage lytic spectra ranging from 40 to 60% were obtained.The most effective phage-to-bacteria ratios (moi = 0.01 and moi = 0.001) for both the phage amplification and their lytic activity against planktonic bacteria were also estimated.Complete adsorption to host cells were obtained after about 20 min for entb_43 and 10 min for entb_45.The phage lysates retained their initial titers even during six months of storage at both -70 °c and 4 °c, whereas storage at 37 °c caused a complete loss in their activity.We showed that phages retained their activity after incubation with solutions of silver and copper nanoparticles, which may indicate possible synergistic antibacterial activity.Moreover, a significant reduction in phage titers was observed after incubation with a disinfectant containing octenidinum dihydrochloridum and phenoxyethanol, as well as with 70% ethanol.The observed maintenance of phage activity during incubation in a urine sample, along with other described properties, may suggest a therapeutic potential of phages at the infection site after intravesical administration.

Journal: Viruses (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Did Usage of Mental Health Apps Change during COVID-19? A Comparative Study Based on an Objective Recording of Usage Data and Demographics.

This paper aims to objectively compare the use of mental health apps between the pre-covid-19 and during covid-19 periods and to study differences amongst the users of these apps based on age and gender.The study utilizes a dataset collected through a smartphone app that objectively records the users' sessions.The dataset was analyzed to identify users of mental health apps (38 users of mental health apps pre-covid-19 and 81 users during covid-19) and to calculate the following usage metrics; the daily average use time, the average session time, the average number of launches, and the number of usage days.The mental health apps were classified into two categories: guidance-based and tracking-based apps.The results include the increased number of users of mental health apps during the covid-19 period as compared to pre-covid-19.Adults (aged 24 and above), compared to emerging adults (aged 15-24 years), were found to have a higher usage of overall mental health apps and guidance-based mental health apps.Furthermore, during the covid-19 pandemic, males were found to be more likely to launch overall mental health apps and guidance-based mental health apps compared to females.The findings from this paper suggest that despite the increased usage of mental health apps amongst males and adults, user engagement with mental health apps remained minimal.This suggests the need for these apps to work towards improved user engagement and retention.

Journal: Life (Basel, Switzerland) (2022)
Publication types: Journal Article
Super-resolution stimulated Raman scattering microscopy with the phase-shifted spatial frequency modulation.

We present a unique super-resolution stimulated raman scattering (srs) microscopy technique based on phase-shifted spatial frequency modulation (psfm) under wide-field illumination, permitting super-resolution chemical imaging with single-pixel detection.Through projecting a series of the pump and stokes laser patterns with varying spatial frequencies onto the sample and combining with the proposed π-phase shift, the higher spatial information can be rapidly retrieved by implementing the fast inverse fourier-transform on the spatial frequency-encoded srs data.We have derived the theory of the psfm-srs technique for super-resolution imaging.Our further modeling results confirm that psfm-srs microscopy provides a ∼2.2-fold improvement in spatial resolution but with a much-reduced laser excitation power density required as compared with conventional point-scan srs microscopy, suggesting its potential for label-free super-resolution chemical imaging in cells and tissue.

Journal: Optics letters (2022)
Publication types: Journal Article
Development and In Vitro Evaluation of 2-Methoxyestradiol Loaded Polymeric Micelles for Enhancing Anticancer Activities in Prostate Cancer.

The present study aimed to formulate and optimize 2me-loaded pms (2me-pms) for enhancing the anticancer activity of 2me in prostate cancer (pc).The 2me-pms were formulated using peg-plga (pl), tween 80 (tw80), and alpha-lipoic acid (ala).The optimization was carried out using a box-behnken design with the pl, tw80, and ala as the independent variables and particle size (ps) as the response.The formulation was optimized for the lowest possible ps, and the software suggested optimum formula with 100.282 mg, 2%, and 40 mg for pl, tw80, and ala, respectively.The optimized pms had spherical morphology with ps of 65.36 ± 2.2 nm, polydispersity index (pdi) of 0.273 ± 0.03, and entrapment efficiency of 65.23 ± 3.5%.The in vitro drug release was 76.3 ± 3.2% after 24 h.The cell line studies using pc-3 cells showed ic50values of 18.75 and 54.41 μmol for 2me-pm and 2me, respectively.The estimation of tumor biomarkers was also carried out.The tumor biomarkers caspase-9 (17.38 ± 1.42 ng/m l), tumor protein p53 (p53) (1050.0 ± 40.9 pg/m l), nitric oxide (no) (0.693 ± 0.03 pg/m l), interleukin-1β (il-1β) (25.84 ± 2.23 pg/m l), nuclear factor kappa b (nf-k b) (0.719 ± 0.07 pg/m l), interleukin-6 (il-6) (2.53 ± 0.16 folds), and cyclooxygenase-2 (cox-2) (3.04 ± 0.5 folds) were determined for 2me-pms and the results showed that these values changed significantly compared to those of 2me.Overall, the results showed that the formulation of 2me to 2me-pms enhances the anticancer effect.The exploration of the combined advantages of peg, plga, ala, and pms in cancer therapy and the delivery of 2me is the major importance of this research work.Peg reduces the elimination of 2me, plga enhances 2me loading, ala has an inherent apoptotic effect, and pms can efficiently target tumor cells.

Journal: Polymers (2021)
Publication types: Journal Article
Classification of the facets of lateral atlantoaxial joints in patients with congenital atlantoaxial dislocation.

To investigate the morphological characteristics and para-positions of the facets of lateral atlantoaxial joints (flajs) in patients with congenital atlantoaxial dislocation (caad) and to propose a classification system for the flajs.Methods a total of 93 cases of caad were included in this retrospective study.The obliquity and slippage of the flajs in the sagittal and coronal planes were measured and observed in the ct images of all of the cases.The obliquity and slippage of the flajs represented the morphological characteristics and the para-positions, respectively, and were used as classification parameters.Accordingly, a classification system for the flajs was established.We additionally investigated the correlation between the classifications of the flajs and various types of caad.The classifications of the flajs in 34 patients with irreducible aad (iaad) were also investigated.Results one hundred eighty-six flajs in 93 patients were classified into 6 types (namely, a, b1, b2, c, d1, and d2) for obliquity and 3 types (namely, s0, s1, and s2) for slippage.Among the 186 flajs, type b1 and type s0were the most common obliquity and slippage types, respectively.There were 11 combination types for obliquity and 5 combination types for slippage of bilateral flaj in 93 patients.Most of the patients (69.7%, 47/70) with anteroposterior aad had accompanying slippage and anteversion of the flaj in the sagittal plane.Rotational aad was found in 10 patients with asymmetrical slippage in both flajs in the sagittal plane.Lateral translational aad was found in 6 patients with an s1-type flaj in the coronal plane.In 5 patients with lateral angular aad, flajs of types d1 and s2were observed on one side.Among the 34 patients with iaad, 31 patients had both obliquity and slippage in the flajs on one or both sides.Conclusion the morphological characteristics and para-positions of the flajs on both sides largely determine the types of aad in patients with caad.The types of obliquity and slippage of the flaj are related to the reducibility of aad.

Journal: European spine journal : official publication of the European Spine Society, the European Spinal Deformity Society, and the European Section of the Cervical Spine Research Society (2020)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Early Life Exposure to a Diet With a Supramolecular Lipid Structure Close to That of Mammalian Milk Improves Early Life Growth, Skeletal Development, and Later Life Neurocognitive Function in Individually and Socially Housed Male C57BL/6J Mice.

Breastfeeding (duration) can be positively associated with infant growth outcomes as well as improved cognitive functions during childhood and later life stages.(prolonged) exposure to optimal lipid quantity and quality, i.e., the supramolecular structure of lipids, in mammalian milk, may contribute to these beneficial effects through nutritional early-life programming.In this pre-clinical study, we exposed male c57bl/6j mice from post-natal days 16 to 42 (i.e., directly following normal lactation), to a diet with large lipid droplets coated with bovine milk fat globule membrane-derived phospholipids, which mimic more closely the supramolecular structure of lipid droplets in mammalian milk.We investigated whether exposure to this diet could affect growth and brain development-related parameters.As these outcomes are also known to be affected by the post-weaning social environment in mice, we included both individually housed and pair-wise housed animals and studied whether effects of diet were modulated by the social environment.After day 42, all the animals were fed standard semi-synthetic rodent diet.Growth and body composition were assessed, and the mice were subjected to various behavioral tests.Individual housing attenuated adolescent growth, reduced femur length, and increased body fat mass.Adult social interest was increased due to individual housing, while cognitive and behavioral alterations as a result of different housing conditions were modest.The diet increased adolescent growth and femur length, increased lean body mass, reduced adolescent anxiety, and improved adult cognitive performance.These effects of diet exposure were comparable between individually and socially housed mice.Hence, early life exposure to a diet with lipid droplets that mimic the supramolecular structure of those in mammalian milk may improve adolescent growth and alters brain function in both socially and individually housed mice.These findings suggest that lipid structure in infant milk formula may be a relevant target for nutritional solutions, targeting both healthy infants and infants facing growth challenges.

Journal: Frontiers in neuroscience (2022)
Publication types: Journal Article
Colorectal Carcinoma in the Background of Pelvic Inflammatory Disease.

Colorectal carcinoma (crc) is a common malignancy with steadily declining incidence rates and mortality, secondary to improved screening and lifestyle changes (eg, decreased smoking rates).The association between pelvic inflammatory disease (pid) and crc has been unclear in the past.However, multiple studies showed a positive association between pid and underlying malignancy (gynecologic and pelvic primarily).Several studies evaluated the relation between pid and crc, but the results were conflicting.We describe a case of a 33-year-old female patient, with a history of pid and recurrent pelvic abscesses, who was found to have crc.Of note, the patient's diagnosis was based on abnormal computed tomography findings, which were further investigated (by colonoscopy and biopsy), rather than on symptoms suggestive of crc, such as rectal bleeding, constipation, symptomatic anemia, or abdominal pain.

Journal: Journal of investigative medicine high impact case reports (2022)
Publication types: Case Reports;Journal Article
Higher Concentration of Adrenocorticotropic Hormone Predicts Post-Stroke Depression.

Post-stroke depression (psd) is the most common neuropsychiatric complication after stroke, seriously affecting the quality of survivors' life.As one of the important causes of psd, neuroendocrine mechanism has been widely studied in recent years.The main objective of this study was to investigate the relationship between adrenocorticotropic hormone (acth) on admission and psd at 3 months.Methods this is a hospital-based prospective cohort study, which was conducted at three independent hospitals (tongji hospital, wuhan first hospital and wuhan central hospital) between august 2018 and june 2019.A total of 768 ischemic stroke patients were finally eligible for analysis and categorized into equal tertiles according to the distribution of acth and the number of patients.Theχ2-test, mann-whitney u-test and kruskal-wallis test were used to check for statistical significance.And restricted cubic spline (rcs) regression model was used to explore the non-linear relationship between continuous acth levels and psd at 3 months.Results the optimal cut-off points of acth were as follows: (t1) 0.32-20.55 pg/m l, (t2) 20.56-39.79 pg/m l, (t3) 39.80-143.40 pg/m l.A total of 305 patients (39.7%) were diagnosed as psd at 3 months follow-up.Significant differences were found between the psd and non-psd groups in acth concentration (p = 0.001).After adjustment for all conventional confounders, the odds ratios of psd were 1.735 (95% ci = 1.176-2.560, p = 0.005) for the highest tertile of acth and 1.496 (95% ci = 1.019-2.194, p = 0.040) for the middle tertile of acth, as compared with the lowest tertile.In multiple-adjusted rcs regression, continuous acth showed saturation effect relation with psd risk after 31.02 pg/m l (p for nonlinear = 0.0143).Conclusion higher acth level on admission is a significant and independent biomarker to predict the development of psd at 3 months follow-up.Besides, saturation effect was revealed even if the underlying mechanism is unclear.For stroke patients, doctors should pay attention to the baseline acth for screening high-risk psd in clinical practice.

Journal: Clinical interventions in aging (2022)
Publication types: Journal Article
High precision, high throughput generation of droplets containing single cells.

The poisson limit is a major problem for the isolation of single cells in different single-cell technologies and applications.In droplet-based single-cell assays, a scheme that is increasingly popular, the intrinsic randomness during single-cell encapsulation in droplets requires most of the created droplets to be empty, which has a profound impact on the efficiency and throughput of such techniques, and on the predictability of the combinatory droplet assays.Here we present a simple passive microfluidic system overcoming this limitation with unprecedented efficacy, allowing the generation of single-cell droplets for a wide range of operating conditions, with extremely high throughput (more than 22 000 single-cell loaded droplets per minute) and with an extremely low fault ratio (doublets or empty droplets), applicable to any cells and deformable particles.This versatile technique will shift the paradigm of single-cell encapsulation and will impact single-cell sequencing, rare cell isolation, multicellular/bead studies in immunology or cancer biology,etc.

Journal: Lab on a chip (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't
Engineering of a Baeyer-Villiger monooxygenase reveals key residues for the asymmetric oxidation of omeprazole sulfide.

The structure-guided engineering of a bvmo from rhodococcus aetherivorans(ra bvmo) was performed for its asymmetric sulfoxidation activity toward omeprazole sulfide.Based on the structural model of ra bvmo, key residues that line the substrate entrance tunnel and the binding pocket were identified, and variants were interrogated with sulfides of varied sizes.The best mutant mt2 (f442a/r337p) was obtained with a specific activity of 2.54 u g-1and excellent enantioselectivity (≥99%,s) toward omeprazole sulfide, while wild-type ra bvmo exhibited no activity.Further structural analysis reveals that both mutations, f442a and r337p, could render an expanded substrate tunnel and an enlarged substrate binding pocket to enable easier access to the catalytic center for omeprazole sulfide.This work provides valuable guidance for engineering-related bvmos for improved activity and enantio-preference toward bulky substrates.

Journal: Chemical communications (Cambridge, England) (2022)
Publication types: Journal Article
Hybrid biofabrication of 3D osteoconductive constructs comprising Mg-based nanocomposites and cell-laden bioinks for bone repair.

Tissue engineering approaches for bone repair have rapidly evolved due to the development of novel biofabrication technologies, providing an opportunity to fabricate anatomically-accurate living implants with precise placement of specific cell types.However, limited availability of biomaterial inks, that can be 3d-printed with high resolution, while providing high structural support and the potential to direct cell differentiation and maturation towards the osteogenic phenotype, remains an ongoing challenge.Aiming towards a multifunctional biomaterial ink with high physical stability and biological functionality, this work describes the development of a nanocomposite biomaterial ink (mg-pcl) comprising of magnesium hydroxide nanoparticles (mg) and polycaprolactone (pcl) thermoplastic for 3d printing of strong and bioactive bone regenerative scaffolds.We characterised the mg nanoparticle system and systematically investigated the cytotoxic and osteogenic effects of mg supplementation to human mesenchymal stromal cells (h mscs) 2d-cultures.Next, we prepared mg-pcl biomaterial ink using a solvent casting method, and studied the effect of mg over mechanical properties, printability and scaffold degradation.Furthermore, we delivered mscs within mg-pcl scaffolds using a gelatin-methacryloyl (gel ma) matrix, and evaluated the effect of mg over cell viability and osteogenic differentiation.Nanocomposite mg-pcl could be printed with high fidelity at 20 wt% of mg content, and generated a mechanical reinforcement between 30%-400% depending on the construct internal geometry.We show that mg-pcl degrades faster than standard pcl in an accelerated-degradation assay, which has positive implications towards in vivo implant degradation and bone regeneration.Mg-pcl did not affect mscs viability, but enhanced osteogenic differentiation and bone-specific matrix deposition, as demonstrated by higher alp/dna levels and alizarin red calcium staining.Finally, we present proof of concept of mg-pcl being utilised in combination with a bone-specific bioink (sr-gel ma) in a coordinated-extrusion bioprinting strategy for fabrication of hybrid constructs with high stability and synergistic biological functionality.Mg-pcl further enhanced the osteogenic differentiation of encapsulated mscs and supported bone ecm deposition within the bioink component of the hybrid construct, evidenced by mineralised nodule formation, osteocalcin (ocn) and collagen type-i (col i) expression within the bioink filaments.This study demonstrated that magnesium-based nanocomposite bioink material optimised for extrusion-based 3d printing of bone regenerative scaffolds provide enhanced mechanical stability and bone-related bioactivity with promising potential for skeletal tissue regeneration.

Journal: Bone (2022)
Publication types: Journal Article;Research Support, Non-U.S. Gov't