Miracle-dz/UniFAR-FTUs huggingface dataset:
Effect of histamine‐receptor antagonism on the circulating inflammatory cell and cytokine response to exercise: A pilot study

Abstract The purpose of this study was to gain insight into histamine's role in the exercise inflammatory response and recovery from exercise. To explore this, young healthy participants (n = 12) performed 300 eccentric leg extensions under control (Placebo) versus histamine H1 and H2 receptor antagonism (Blockade) in a randomized cross‐over study. Circulating leukocytes and cytokines were measured for 72 h after exercise. Circulating leukocytes were elevated at 6 and 12 h after exercise (p < 0.05) with the peak response being a 44.1 ± 11.7% increase with Blockade versus 13.7 ± 6.6% with Placebo (both p < 0.05 vs. baseline, but also p < 0.05 between Blockade and Placebo). Of the cytokines that were measured, only MCP‐1 was elevated following exercise. The response at 6 h post‐exercise was a 104.0 ± 72.5% increase with Blockade versus 93.1 ± 41.9% with Placebo (both p < 0.05 vs. baseline, p = 0.82 between Blockade and Placebo). The main findings of the present investigation were that taking combined histamine H1 and H2 receptor antagonists augmented the magnitude but not the duration of the increase of circulating immune cells following exercise. This suggests histamine is not only exerting a local influence within the skeletal muscle but that it may influence the systemic inflammatory patterns.
The Effect of E-waste Dumpsite Soil on Cultured Tilapia Fish and Associated Microorganisms

the study. performed the statistical analysis, the protocol the first of the and managed literature searches. the analyses of the study and literature ABSTRACT Aim: To evaluate the toxicological effect of e-waste on cultured tilapia and identifying microorganisms associated with the tilapia aquaria polluted with soil from e-waste dumpsite. Study Design: The soil samples, water and BMRJ, aquaria polluted with soil from e-waste dumpsite differs from those from controls. The ash content (9.68 a ±0.08 - 14.29 e ±0.51) showed improvement over the control (9.49 a ±0.20). Rise in fibre content of the tissue (0.86 b ±0.02 - 0.98 c ±0.01) was also observed over the control. Deformities of the gills and livers of the fish were observed while the packed cell volume, haemoglobin, oxygen carrying capacity and the red blood cell of fish from polluted aquaria were lower than that of fish from unpolluted aquaria. Immunological responses were also observed. Conclusion: The histopathological and the haematological effects alongside the effect on the proximate composition and the microbial isolate variation in the soil samples and aquaria showed the adverse effect of the e-waste on the fish and its environment.
Using qualitative geographic information systems to explore gendered dimensions for conservation agriculture production systems in the Philippines: A mixed methods approach

This research identifies gender-based constraints and opportunities for the adoption of conservation agriculture production systems (CAPS) based on a case-study with smallholder farmers in two villages in Misamis Oriental, Philippines. We explore gendered soil knowledge and perceptions, access to resources, and agricultural practices in the context of food security and soil conservation. Our approach combines qualitative and quantitative methods such as focus group discussions, household interviews, participatory mapping, and GPS mapping. We found that men and women have gendered soil perceptions which are linked to topography, gender roles, and access to assets. These could have implications for whether men and women adopt conservation agriculture. We also demonstrate the importance of combining geospatial techniques and participatory methods for gender research in a development context. Much of the qualitative GIS literature focuses on incorporating qualitative data into a GIS, yet we argue it is important to incorporate geospatial tools into qualitative, participatory research to understand the spatiality of people’s perceptions, practices, and resources.
Effect of hypoproteinemia on mortality of elderly male patients with chronic heart failure

To explore the effect of hypoproteinemia on cardiac function and prognosis in elderly male patients with chronic heart failure. Among the patients with chronic heart failure hospitalized in the General Hospital of Southern Theater Command from December 2014 to December 2015, 100 elderly male patients with chronic heart failure were selected. The patients were divided into 2 groups based on their serum albumin (ALB) levels: 53 cases in the normal group (ALB ≥ 35 g/L) and 47 cases in the hypoproteinemia group (ALB < 35 g/L). Using the method of prospective study, under the condition of routine treatment of heart failure, follow-up observation for 5 years, we collected relevant data and analyzed the level of serum ALB, cardiac function and prognosis of patients in these 2 groups. The mortality of patients in the hyporoteinemia group were significantly higher than those in the normal group. Left ventricular end-diastolic dimension (LVDD) and brain natriuretic peptide (BNP) in the normal group after 5 years were markedly lower compared with that in the hypoproteinemia group. The mortality of patients with chronic heart failure with hypoproteinemia were higher, and the present study indicated that the ALB level may be associated with the mortality of patients with chronic heart failure.
Evaluation of the correlation of neutrophil/lymphocyte ratio with prognostic classification systems in papillary thyroid carcinoma patients

We aimed to evaluate the use of cost-effective NLR (Neutrophil Lymphocyte Ratio) in determining the prognosis and recurrence risk of thyroid papillary carcinoma patients. This retrospective, cross-sectional and single-center study was carried out in the Department of General Surgery, Istanbul Gaziosmanpaşa Training and Research Hospital. Between 2018 and 2021, who were diagnosed with papillary thyroid cancer and underwent total thyroidectomy, and patients who underwent total thyroidectomy due to multinodular goiter were analyzed. For patients in the malignancy group, the NLR cutoff value was determined as 1.73, the sensitivity was calculated as 51.77% and the specificity as 86.15%. NLR in the malignant group was found to be 9.5 times higher than the NLR in the control group (Odds Ratio: 9.5). A statistically significant difference was found between NLR and papillary thyroid carcinoma prognostic classification systems (AJCC/TNM, AMES, and MACIS). NLR medians differ according to ATA recurrence risk classification (P = .020). According to the results we obtained in our study, we believe that cost-effective NLR can be a useful indicator in terms of predicting malignancy in a patient with thyroid nodule and in determining the prognosis and risk of recurrence in patients with thyroid papillary carcinoma.
Simulating the Evolution of Qiangtang No. 1 Glacier in the Central Tibetan Plateau to 2050

ABSTRACT Few simulations of typical Tibetan Plateau glacier response to climate warming have been made, despite the glaciers' importance as water supplies in an arid region. Here we apply a three-dimensional thermomechanically coupled full-Stokes ice dynamics model to simulate the evolution of Qingtang No. 1 Glacier, a representative glacier in the central Tibetan Plateau. A degree-day model along with snow temperature and precipitation estimates based on nearby observations are used to estimate surface mass balance (SMB) over the past three decades. The resulting SMB gradients and equilibrium-line altitude (ELA) sensitivity to air temperature are used to parameterize the SMB in the future. We use the ice-flow model to simulate glacier evolution from 2013 to 2050. Simulated within-glacier temperatures and present-day glacier terminus retreat rates are in reasonable agreement with previous observations. Forcing the glacier model with the historical warming trend of 0.035 °C a-1 and a warming projection from the high-resolution regional climate model (RegCM3) under the A1B scenario for the period 2013–2050 leads to substantial retreat and ice loss, and large increases (110%–155%) in annual water runoff. Losses of 11%–18% in area and 19%–30% in volume are predicted over the next four decades, with the warmer RegCM3 scenario giving larger rates of loss. Sensitivity of glacier change to the parameters in SMB profiles are also assessed.
Comparison of radiological and functional results in osteoporotic distal femur fractures operated with single plating, lateral incision, and double plating, anterior paramedial incision: A retrospective study

Treatment of osteoporotic distal femur fractures is often complicated by a high rate of nonunion and varus collapse. For such fractures, lateral plating with lateral incision and double plating with anterior paramedial incision have shown promising results in the recent literature. The hypothesis of this study was that bilateral plating of comminuted distal femur fractures in osteoporotic patients would result in higher union rates and lower revision rates compared to an isolated lateral locking plate. The study included 56 patients (23 males, 33 females) with supracondylar femur fracture. According to the OA/OTA classification, 9 were type A3, 8 were A2, 13 were C1, 16 were C2, and 10 were C3. The mean follow-up period was 12 months, with 29 patients treated using lateral mini-incision, lateral locking plate, and 27 patients treated with anterior paramedial incision, dual plating. The clinical and radiological results were evaluated. The mean duration of radiological union in the studied population was 15 ± 2.1 months (range, 11–21 months) in the single plate group (Group A), and 13.5 ± 2.6 months (range, 9–19 months) in the double plate group (Group B). Mean ROM was 112.3° and flexion contracture 4° in Group A, and ROM 108.3° and flexion contracture 6.7° in Group B. (P = .15). The average Western Ontario and McMaster Universities Arthritis Index (WOMAC) score was 85.6 points in Group A and 83.5 points in Group B (P = .2278). The postoperative anteversion measurement in the operated extremity ranged from −15 to 19 in Group A, and from 5 to 18 in Group B. When the anteversion degrees were compared between the injured and uninjured extremities in the postoperative period, a significant difference was observed within Group A (P = .0018), but no significant difference was observed in Group B (P = .2492). Dual plate fixation using the anterior paramedial approach is an effective operative method for osteoporotic distal femur fractures. This has many advantages such as precise exposure, easy manipulation, anatomic reduction, and stable fixation. However, for surgical indications and medial bone defects > 1 cm, grafting should be performed.
BRCA1, BRCA2, and TP53 germline and somatic variants and clinicopathological characteristics of Brazilian patients with epithelial ovarian cancer

Abstract Background Approximately 3/4 of ovarian cancers are diagnosed in advanced stages, with the high‐grade epithelial ovarian carcinoma (EOC) accounting for 90% of the cases. EOC present high genomic instability and somatic loss‐of‐function variants in genes associated with homologous recombination mutational repair pathway (HR), such as BRCA1 and BRCA2, and in TP53. The identification of germline variants in HR genes in EOC is relevant for treatment of platinum resistant tumors and relapsed tumors with therapies based in synthetic lethality such as PARP inhibitors. Patients with somatic variants in HR genes may also benefit from these therapies. In this work was analyzed the frequency of somatic variants in BRCA1, BRCA2, and TP53 in an EOC cohort of Brazilian patients, estimating the proportion of variants in tumoral tissue and their association with progression‐free survival and overall survival. Methods The study was conducted with paired blood/tumor samples from 56 patients. Germline and tumoral sequences of BRCA1, BRCA2, and TP53 were obtained by massive parallel sequencing. The HaplotypeCaller method was used for calling germline variants, and somatic variants were called with Mutect2. Results A total of 26 germline variants were found, and seven patients presented germline pathogenic or likely pathogenic variants in BRCA1 or BRCA2. The analysis of tumoral tissue identified 52 somatic variants in 41 patients, being 43 somatic variants affecting or likely affecting protein functionality. Survival analyses showed that tumor staging was associated with overall survival (OS), while the presence of somatic mutation in TP53 was not associated with OS or progression‐free survival. Conclusion Frequency of pathogenic or likely pathogenic germline variants in BRCA1 and BRCA2 (12.5%) was lower in comparison with other studies. TP53 was the most altered gene in tumors, with 62.5% presenting likely non‐functional or non‐functional somatic variants, while eight 14.2% presented likely non‐functional or non‐functional somatic variants in BRCA1 or BRCA2.
Family Helps Transform the STEM Pathways of Community College Women of Color STEM Majors

A “critical access point in the STEM pipeline for Latinx students and other students of color” (Herrera et al., 2018), community colleges provide a seminal breeding ground for academic pursuits (Bahr et al., 2017). However, how personal networks influence STEM pathways of two-year college students remains largely unexplored. This mixed methods case study explores influence of personal networks on pursuing STEM fields via social network analysis and qualitative narratives. 36 women of color STEM majors at a two-year urban Hispanic-Serving Institution were interviewed via social network questionnaire. Participants nominated anyone who has influenced their STEM trajectory, which signifies influence to their reason for pursuing a STEM path; they also had an option to qualitatively elaborate on any nomination but this was not required. Nominations were counted towards degree centrality and categorized into social relationships. Participants nominated diverse relationship influences, with family as the most influential relationship group, followed by college faculty/staff. Qualitative narratives revealed that family influenced participants, regardless of relatives’ educational attainment level at the high school or lower level. In alignment with community cultural wealth, family members provided the impetus for pursuing STEM pathways through influence on participants’ (1) aspirational capital, (2) familial capital, and (3) resistant capital.
Management of venous thromboembolism in patients with active cancer.

Venous thromboembolism (VTE) is a major health burden in patients with cancer, causing morbidity, emergency room visits, hospitalizations, and death. Treatment is challenging, as it is necessary to balance the risk of recurrent thrombosis and bleeding associated with anticoagulants. Treatment paradigms are shifting from low-molecular-weight heparin monotherapy. Multiple recent randomized controlled trials have demonstrated the safety and efficacy of direct oral anticoagulants in this setting. Current studies are evaluating factor XI inhibitors as potential treatments for cancer-associated VTE.
Neoceratodus forsteri from the Lower Cretaceous of New South Wales, Australia

Ceratodont lungfish toothplates from the Cretaceous of Lightning Ridge, New South Wales, Australia are described. The specimens bear no resemblance to other fossil lungfish teeth from Australia or from other parts of the world. They cannot however be distinguished from the toothplates of the Recent Neoceratodus forsteri in length/breadth ratios, angles between the ridges, type of punctations, presence of pulp cavity in the ridges, form of the occlusal surface and position of the pterygoid bar.
The Primula edelbergii S-locus is an example of a jumping supergene

Research on supergenes, non-recombining genomic regions housing tightly linked genes that control complex phenotypes, has gained prominence in genomics, with supergenes having been described in most eukaryotic lineages. Heterostyly, a floral heteromorphism promoting outcrossing in several angiosperm families, is controlled by the S-locus supergene. Historically, the S-locus has been studied primarily in closely related Primula species and, more recently, in other groups that independently evolved heterostyly. However, it remains unknown whether genetic architecture and composition of the S-locus are maintained among species that share a common origin of heterostyly and subsequently diverged across larger time scales. To address this research gap, we present a chromosome-scale genome assembly of Primula edelbergii, a species that shares the same origin of heterostyly with Primula veris (whose S-locus has been characterized) but diverged from it ca. 18 million years ago. Comparative genomic analyses between P. edelbergii and P. veris allowed us to show, for the first time, that the S-locus can ‘jump’ (i.e. translocate) between chromosomes. Additionally, we found that four S-locus genes were maintained across time but were reshuffled within the supergene, seemingly without affecting their expression. Furthermore, we confirmed that S-locus hemizygosity counteracts genetic degeneration, otherwise expected in supergenes. Finally, we investigated P. edelbergii evolutionary history within Ericales in terms of whole genome duplications and transposable element accumulation. In summary, our work provides a valuable resource for comparative analyses aimed at investigating the genetics of heterostyly and the pivotal role of supergenes in shaping the evolution of complex phenotypes.
BOLDsωimsuite: A new software suite for forward modeling of the BOLD fMRI signal

In trying to elucidate the mechanisms of the blood-oxygenation level-dependent (BOLD) functional MRI (fMRI) techniques and to expand on the potential of the transverse relaxation time (T2*) in quantitative MRI, many methods for the forward modelling of the BOLD effect have been created and analyzed. Simulations of this nature can be difficult to implement without prior experience, and differences made by methodological choices can be unclear, which provides a significant barrier of entry into the field. In this paper, we present BOLDswimsuite, a toolbox for forward modeling of the BOLD effect, which collects many of the principal methods used in the literature into a single coherent package. Implemented as a Python package, simulations are built-in scripts by combining various simulation components, while providing flexibility in methodological choices. The goal of this toolbox is to provide an open-source, reproducible software suite that is adaptable for simulations in different MRI applications, and to which additional features can be added by the user with relative ease. This paper first provides an overview of the methods available in the package and how these methods can be constructed from the toolbox’s modular code components. Then, a brief theoretical explanation of each simulation component is given, supported by the relevant contributors. Next, sample simulations and analyses that can be created using the package are presented to display its features. Finally, recommendations regarding computational requirements are included to help users choose the best simulation methods to fit their needs. This package has many use cases and significantly reduces methodological barriers to forward modeling. It can also be a good learning tool for MR physics as well as a powerful tool to promote reproducible science.
scCensus: Off-target scRNA-seq reads reveal meaningful biology

Single-cell RNA-sequencing (scRNA-seq) provides unprecedented insights into cellular heterogeneity. Although scRNA-seq reads from most prevalent and popular tagged-end protocols are expected to arise from the 3′ end of polyadenylated RNAs, recent studies have shown that “off-target” reads can constitute a substantial portion of the read population. in this work, we introduced scCensus, a comprehensive analysis workflow for systematically evaluating and categorizing off-target reads in scRNA-seq. We applied scCensus to seven scRNA-seq datasets. Our analysis of intergenic reads shows that these off-target reads contain information about chromatin structure and can be used to identify similar cells across modalities. Our analysis of antisense reads suggests that these reads can be used to improve gene detection and capture interesting transcriptional activities like antisense transcription. Furthermore, using splice-aware quantification, we find that spliced and unspliced reads provide distinct information about cell clusters and biomarkers, suggesting the utility of integrating signals from reads with different splicing statuses. Overall, our results suggest that off-target scRNA-seq reads contain underappreciated information about various transcriptional activities. These observations about yet-unexploited information in existing scRNA-seq data will help guide and motivate the community to improve current algorithms and analysis methods, and to develop novel approaches that utilize off-target reads to extend the reach and accuracy of single-cell data analysis pipelines. Data Availability The scripts for reproducing the results are available at https://github.com/COMBINE-lab/sc-census. Supplementary files can be found at https://doi.org/10.5281/zenodo.10520670.