BMC Research Notes最新文献

{"title":"SQSTM1/p62 as a prognostic indicator in pancancer and nasopharyngeal carcinoma.","authors":"Li-Li Chen, Zong-Yao Zhang, Bo Wu, Mei-Zhen Lu","doi":"10.1186/s13104-025-07464-0","DOIUrl":"https://doi.org/10.1186/s13104-025-07464-0","url":null,"abstract":"<p><strong>Objective: </strong>This study evaluated SQSTM1/p62 expression patterns and its prognostic value across multiple cancers, with a focus on nasopharyngeal carcinoma (NPC).</p><p><strong>Results description: </strong>SQSTM1/p62 showed significantly higher mRNA and protein levels in tumors versus normal tissues across cancer types. High SQSTM1/p62 expression correlated with poorer OS and DSS in multiple cancers. Among 86 NPC patients (median follow-up 46.8 months), high SQSTM1/p62 expression (69.8% vs CNP 45% in controls, P = 0.036) independently predicted reduced DSS (HR = 4.51, 95% CI: 1.40-14.52). The unadjusted and multivariable-adjusted models consistently revealed a stable relationship between SQSTM1/p62 expression and patient prognosis. No significant interaction was observed between SQSTM1/p62 expression and age, TNM stage, or treatment methods (induction chemotherapy, concurrent chemoradiotherapy, adjuvant chemotherapy). In summary, elevated SQSTM1/p62 expression correlates with poor clinical outcomes in pancancer analyses and serves as an independent prognostic factor for NPC.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"421"},"PeriodicalIF":1.7,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145237962","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Discovery of small molecules with anthelmintic potential in the Medicines for Malaria Venture's COVID and Global Health Priority Boxes using an infrared-based assay for Caenorhabditis elegans motility.","authors":"Yujie Uli Sun, Lawrence J Liu, Conor R Caffrey","doi":"10.1186/s13104-025-07485-9","DOIUrl":"https://doi.org/10.1186/s13104-025-07485-9","url":null,"abstract":"<p><strong>Background: </strong>Parasitic nematodes are a public health problem globally, and an economic burden on animal and plant agricultural industries. With their ability to generate drug resistance, new anthelmintic compounds must be constantly sourced.</p><p><strong>Methods: </strong>Using the free-living nematode, Caenorhabditis elegans, in an infrared-based motility assay, we screened 400 compounds from two open-source, small-molecule collections distributed by the Medicines for Malaria Venture, namely, the COVID Box and Global Health Priority Box. The screening assay was first validated for worm number, DMSO concentration and final volume.</p><p><strong>Results: </strong>Primary and secondary (time- and concentration-dependent) screens of both boxes, identified twelve compounds as hits; nine of which are known anthelmintics. Three additional bioactives, flufenerim, flucofuron and indomethacin were identified with EC₅₀ values ranging from 0.211 to 23.174 µM. Counter toxicity screens with HEK293 cells indicated varying degrees of toxicity with EC₅₀ values ranging from 0.453 to > 100 µM.</p><p><strong>Conclusions: </strong>A C. elegans motility assay was optimized and used to screen two recently-released, small molecule libraries. Flufenerim, flucofuron and/or indomethacin might serve as starting points for the development of new anthelmintics.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"422"},"PeriodicalIF":1.7,"publicationDate":"2025-10-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145237974","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"An accelerometer-based dataset for monitoring slag in steel manufacturing.","authors":"Mert Sehri, Lucas Mantuan Ayres, Francisco de Assis Boldt, Patrick Dumond, Marco Antonio de Souza Leite Cuadros","doi":"10.1186/s13104-025-07486-8","DOIUrl":"10.1186/s13104-025-07486-8","url":null,"abstract":"<p><strong>Objectives: </strong>Slag detection in steel manufacturing is essential for ensuring high product quality and process efficiency. The purpose of the accelerometer-based data is to allow for accurate monitoring and differentiation between slag and molten metal flow. This is vital to prevent equipment damage, maintain steel quality, and enhance operational effectiveness. The data is collected specifically to support the development of machine learning models for real-time monitoring in the steel production process, addressing the critical need for precise slag detection.</p><p><strong>Data description: </strong>The Steel Slag Flow Dataset (SSFD) offers a comprehensive set of data obtained from a triaxial accelerometer during various stages of steel production. By leveraging this dataset, researchers can effectively analyze and classify the flow of slag versus molten metal. The dataset allows for data-driven approaches so that machine learning researchers can optimize steel manufacturing processes, ensuring high-quality steel production and minimizing the risks associated with slag contamination. The SSFD provides a valuable resource for researchers seeking to enhance predictive maintenance and monitoring in industrial applications.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"420"},"PeriodicalIF":1.7,"publicationDate":"2025-10-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12495644/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145224912","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Toxin data quality: a critical examination of bacterial exotoxins and animal toxins.","authors":"Tanja Krüger, Ivan Koludarov, Maria Littmann, Burkhard Rost, Luisa F Jimenez-Soto","doi":"10.1186/s13104-025-07438-2","DOIUrl":"10.1186/s13104-025-07438-2","url":null,"abstract":"<p><strong>Objective: </strong>Existing toxins datasets include a mixture of proteins and toxin peptides. In this study we present two curated datasets of toxic proteins free of associated proteins: bacterial exotoxins and animal toxins. Our stringent selection criteria resulted in two data sets with only toxins that directly target or disrupt vital molecular mechanisms of their target organism. To gain insight in their properties and differences, we compared both sets of toxins to controls, and used simple biophysical features such as protein length, and amino acid composition distinguishing between evolutionary kingdoms (phyla). This approach should reveal if there is a need to consider differences present in toxin sets depending on their origin.</p><p><strong>Results: </strong>Our analysis revealed biophysical differences between animal and bacterial toxins that should not be ignored. Both toxin groups exhibited preferencial amino acid usage depending on their origin, together with higher cysteine content compared to their respective controls. The animal toxins set contains, on average, significantly shorter sequences than bacterial toxins, and had their isoelectric point shifted towards acidic pH values. We show that animal toxins and bacterial toxins possess intrinsic differences in general biophysical properties, which reinforce the necessity of segregating these datasets to ensure reliability of bioinformatics models aimed at understanding and predicting toxin characteristics.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"418"},"PeriodicalIF":1.7,"publicationDate":"2025-10-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12492933/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145211811","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Linking 23 physical activity intensity levels to health-related quality of life in 10-year-old children.","authors":"Mari Stai, Eivind Aadland, John Roger Andersen","doi":"10.1186/s13104-025-07478-8","DOIUrl":"10.1186/s13104-025-07478-8","url":null,"abstract":"<p><strong>Objectives: </strong>To examine the associations between 23 accelerometer-derived physical activity levels and health-related quality of life (HRQoL) in 10-year-old children.</p><p><strong>Results: </strong>This study analyzed cross-sectional baseline data from the ASK study, a randomized controlled trial. The Kidscreen-27 questionnaire assessed HRQoL, with the \"physical well-being\" domain as the primary outcome. Physical activity levels were measured using ActiGraph GT3X + accelerometers, capturing 23 intensity bands ranging from 0 to 99 to ≥ 10,000 counts per minute (cpm). Partial least squares regression analysis was used to explore the associations between physical activity and HRQoL. The study included 722 fifth-grade children (mean age 10.2 ± 0.3 years, mean waist circumference 61.8 ± 7.4 cm, 51% male). In the overall cohort, physical activity accounted for 5.23% of the variance in physical well-being, with 2.03% for girls and 9.06% for boys. Among boys with overweight/obesity, the explained variance increased to 20.03%, compared to 8.63% for those without. For girls, no association was observed for those without overweight/obesity, whereas 8.93% of the variance was explained for those with overweight/obesity. High-intensity physical activity (6000-7000 cpm) showed the strongest associations, though positive relationships were evident across all intensity levels.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"419"},"PeriodicalIF":1.7,"publicationDate":"2025-10-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12492756/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145211833","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"New insights into the sensitivity of Immulab reagent red blood cells compared to Bio-Rad, Grifols and QuidelOrtho.","authors":"Jessica Guglielmino, Fiona J Morris, Claire M Grattidge, Denise E Jackson","doi":"10.1186/s13104-025-07468-w","DOIUrl":"10.1186/s13104-025-07468-w","url":null,"abstract":"<p><strong>Objective: </strong>Antibody screening and identification facilitates the issue of antigen-negative blood for patients with alloantibodies to red blood cell (RBC) antigens, thereby maximizing blood safety and the survival of transfused donor cells. The sensitivity and specificity of reagent red blood cells (RRBCs) used in pre-transfusion testing varies between manufacturers. This Phase II study aimed to build on a previously published Phase I study comparing the analytical performance of four manufacturers' RRBCs in column agglutination technology (CAT). A total of 231 patient samples with a negative indirect antiglobulin test (IAT) results were tested using Immulab, Bio-Rad, Grifols, and QuidelOrtho RRBCs. Phase II results were pooled with Phase I results to provide more accurate calculations of the RRBC analytical performance.</p><p><strong>Results: </strong>The sensitivity of the RRBCs used in the combined studies was 94.52% (95%CI 86.56-98.49%) for Bio-Rad, 81.48% (95%CI 71.30-89.25%) for Grifols, and 95.71% (95%CI 87.98-99.11%) for QuidelOrtho RRBCs. The sensitivity of Immulab RRBCs were stratified based on performance in the three CAT platforms: 100%, 95%CI 95.07-100.00% in Bio-Rad CAT, 100%, 95%CI 95.55-100.00% in Grifols CAT and 100%, 95%CI 94.87-100.00% in QuidelOrtho CAT.</p><p><strong>Conclusions: </strong>Immulab 0.8% RRBCs showed greater sensitivities and NPVs than the equivalent Bio-Rad, Grifols, and QuidelOrtho RRBCs in Bio-Rad, Grifols, and QuidelOrtho CAT, respectively. These differences may have implications in clinical pre-transfusion settings.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"411"},"PeriodicalIF":1.7,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12486663/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145205381","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Improving the accuracy and precision of disease identification when utilizing EHR data for research: the case for hepatocellular carcinoma.","authors":"Carrie R Wong, Yvonne N Flores, Analissa Avila, Lina Tieu, Catherine M Crespi, Folasade P May, Douglas S Bell, Beth Glenn, Roshan Bastani","doi":"10.1186/s13104-025-07465-z","DOIUrl":"10.1186/s13104-025-07465-z","url":null,"abstract":"<p><strong>Objective: </strong>We assessed the performance of International Classification of Diseases (ICD) codes to identify patients with hepatocellular carcinoma (HCC) in a large academic health system and determined whether employing an algorithm using a combination of ICD codes could deliver higher accuracy and precision than single ICD codes in identifying HCC cases using electronic health record (EHR) data.</p><p><strong>Results: </strong>The use of a single ICD code entry for HCC (ICD-9-CM 155.0 or ICD-10-CM C22.0) in our cohort of 1,007 established ambulatory care patients with potential HCC yielded 58% false positives (not true HCC cases) based on chart reviews. We developed an ICD code-based algorithm that prioritized positive predictive value (PPV), F-score, and accuracy to minimize false positives and negatives. Using manual chart reviews as the gold standard, the highest performing algorithm required at least 10 ICD code entries for HCC and the sum of ICD code entries for HCC to exceed the sum of ICD code entries for non-HCC malignancies. The algorithm demonstrated high performance (PPV 97.4%, F-score 0.92, accuracy 94%), which was internally validated (PPV 92.3%, F-score 0.90, accuracy 91%) using a separate sample of 285 cancer registry cases. Our findings support the need to assess the accuracy and precision of ICD codes before using EHR data to study HCC more broadly.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"410"},"PeriodicalIF":1.7,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12487526/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145205334","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Composite index anthropometric failures and associated factors among school adolescent girls in Debre Berhan city, central Ethiopia.","authors":"Abera Lambebo, Daniel Birhane, Fitsum Zekarias","doi":"10.1186/s13104-025-07490-y","DOIUrl":"10.1186/s13104-025-07490-y","url":null,"abstract":"<p><strong>Background: </strong>Composite Index of Anthropometric Failures (CIAF) summarizes anthropometric failure, including both deficiency and excess weight, by combining multiple indicators. However, most studies in some parts of Ethiopia still rely on conventional single anthropometric indices, which underestimate the extent of the problem.</p><p><strong>Objectives: </strong>The primary objective of this study was to assess the prevalence and associated factors of composite index anthropometric failures (CIAF) among school adolescent girls in Debre Berhan City, central Ethiopia in 2023.</p><p><strong>Methods: </strong>A school-based cross-sectional study was conducted from April 29 to May 30, 2023. The sample included 623 adolescent girls selected using a multistage sampling technique. Data were collected through interviewer-administered questionnaires and anthropometric measurements. Data were analyzed using SPSS, and anthropometric status indices were generated using WHO Anthroplus software. Bivariate and multivariable logistic regression analyses were used to examine associations between independent and dependent variables, with statistical significance declared at p < 0.05.</p><p><strong>Results: </strong>The prevalence of composite index anthropometric failure was 30.2% (95% CI: 26.6-33.9%), comprising undernutrition (22.5%, 95% CI: 19.1-26.0%) and over nutrition (7.7%, 95% CI: 5.8-10.0%). Multivariable logistic regression analysis identified several factors associated with undernutrition, including family size ≥ 5, low wealth index tertile, inadequate meal frequency (< 3 per day), poor dietary diversity practice, and recent illness. Overweight/obesity was significantly associated with factors such as consuming fast foods, lacking nutrition information, and not engaging in moderate-intensity activities.</p><p><strong>Conclusion: </strong>The study revealed a higher prevalence of overall malnutrition (30.2%) when considering composite index anthropometric failure compared to single indices. Approximately one-third of the study participants experienced some form of anthropometric failure.</p><p><strong>Policy and practical implications: </strong>The findings underscore the need for integrated school based nutrition programs targeting dietary diversity, meal frequency, and physical activity, as well as community level strategies to address socioeconomic disparities.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"412"},"PeriodicalIF":1.7,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12487169/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145205289","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Methanobrevibacter smithii strain U29 whole genome sequence delineates M. smithii intermediate cell variants.","authors":"Ihab Malat, Vincent Bossi, Michel Drancourt, Ghiles Grine, Raymond Ruimy","doi":"10.1186/s13104-025-07444-4","DOIUrl":"10.1186/s13104-025-07444-4","url":null,"abstract":"<p><strong>Background: </strong>Methanobrevibacter smithii (M. smithii), the predominant methanogen in the human digestive tract, plays a key role in methane production. Despite its importance, the genomic diversity of M. smithii is poorly characterised, especially in extra-digestive sites such as the urinary and respiratory tracts, and the blood. Understanding this diversity would help unravel its potential role in human health and diseases.</p><p><strong>Results: </strong>We report the genome of M. smithii strain U29, isolated from urine, expanding the known diversity of the species. The M. smithii U29 genome (scaffold level; 1̵822‒124-bp, 1745 protein-coding sequences) lacks Candidatus Nanopusillus sequences, unlike digestive tract strains. Comparative analysis has revealed a high similarity (99.86% ANI) with the reference M. smithii strain ATCC 35,061, although U29 contains 71 unique coding sequences including 12/71 (13 200-bp; 69% of the total extra-material size) with demonstrated Siphoviridae viral ancestry. Accordingly, M. smithii U29 has been identified as an intermediate M. smithii cell variant, exhibiting genomic traits potentially conferring adaptability to the urinary tract.</p><p><strong>Conclusion: </strong>This study enhances our understanding of M. smithii genomic diversity and highlights the presence of viral sequences in the urinary tract M. smithii strain U29. These findings open up a hypothesis that viral integration may play a role in M. smithii mucosae colonisation and dynamics, underscoring the need for further investigations into the mechanisms underlying its tissue translocation and potential health implications.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"414"},"PeriodicalIF":1.7,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12487256/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145205361","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Experiences of family caregivers of patients with traumatic brain injury: a study in the Tamale metropolis.","authors":"Marese Kanyeti Bugri, Gilbert Ti-Enkawol Nachinab","doi":"10.1186/s13104-025-07472-0","DOIUrl":"10.1186/s13104-025-07472-0","url":null,"abstract":"<p><strong>Background: </strong>Traumatic brain injury is a major global health issue, impacting all aspects of life, including the psychosocial well-being of affected individuals and their families. This study aimed to explore the experiences of family caregivers of Patients with TBI in Tamale Metropolis.</p><p><strong>Methods: </strong>The study used a descriptive exploratory qualitative approach to understand the experiences of family caregivers of patients with TBI in Tamale Metropolis. Purposive sampling technique was used to select ten family caregivers, and face-to-face interviews were conducted using a semi-structured guide. Data was analyzed using inductive thematic analysis.</p><p><strong>Findings: </strong>The findings revealed that participants experienced psychological effects, including stress, anxiety, and satisfaction in caring for their TBI relatives, as well as social effects like socializing issues, poor relationships, and job-related challenges. They coped through strategies such as adjustments, divine intervention, support from family and friends.</p><p><strong>Conclusion: </strong>The study lays the foundation for future research on the experiences of family caregivers of TBI survivors in Tamale. It also highlights the need for health providers to focus on educating and supporting these caregivers.</p>","PeriodicalId":9234,"journal":{"name":"BMC Research Notes","volume":"18 1","pages":"417"},"PeriodicalIF":1.7,"publicationDate":"2025-10-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12486957/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145205260","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}