bluuebunny/crossref_metadata_2025_split huggingface dataset:
Comparative transcriptomic analyses of thymocytes using 10x Genomics and Parse scRNA-seq technologies
Authors: Filippov Igor , Philip Chinna Susan , Schauser Leif , Peterson Pärt 
Published: November 2024

Abstract
Background
Single-cell RNA sequencing experiments commonly use 10x Genomics (10x) kits due to their high-throughput capacity and standardized protocols. Recently, Parse Biosciences (Parse) introduced an alternative technology that uses multiple in-situ barcoding rounds within standard 96-well plates. Parse enables the analysis of more cells from multiple samples in a single run without the need for additional reagents or specialized microfluidics equipment. To evaluate the performance of both platforms, we conducted a benchmark study using biological and technical replicates of mouse thymus as a complex immune tissue.

Results
We found that Parse detected nearly twice the number of genes compared to 10x, with each platform detecting a distinct set of genes. The comparison of multiplexed samples generated from 10x and Parse techniques showed 10x data to have lower technical variability and more precise annotation of biological states in the thymus compared to Parse.

Conclusion
Our results provide a comprehensive comparison of the suitability of both single-cell platforms for immunological studies.
Co-existence of antibiotic resistance and virulence factors in carbapenem resistant Klebsiella pneumoniae clinical isolates from Alexandria, Egypt
Authors: El-kholy Aya T. , El-Kholy Mohammed A. , Omar Hoda , Aboulmagd Elsayed 
Published: November 2024

Abstract
Background
The emergence and spread of carbapenem resistance among Enterobacteriaceae, particularly Klebsiella pneumoniae, constitute a serious threat to public health, since carbapenems are the last line of defense in the treatment of life-threatening infections caused by drug-resistant Enterobacteriaceae. The current study investigated the co-existence of different virulence factors and carbapenemases in carbapenem-resistant Klebsiella pneumoniae clinical isolates from Alexandria, Egypt.

Results
Phenotypic characterization of virulence factors indicated that 41.5% of the isolates were strong biofilm producers, while hypermucoviscosity was detected in 14.9% of the isolates. All isolates harbored five or more virulence factor encoding genes. entB, ycfM, mrkD and fimH were detected in all isolates, while only one isolate was negative for ybtS. uge, iutA, rmpA and kpn were detected in 61 (64.8%), 55 (58.5%), 41 (43.6%) and 27 (28.7%) isolates, respectively, while all isolates lacked magA and k2A. Phenotypic detection of carbapenemases was explored by performing CarbaNP and mCIM/eCIM. CarbaNP test showed positive results in 98.9% of the isolates and positive mCIM tests were observed in all isolates, while 68 (72.3%) isolates showed positive eCIM tests. blaNDM was the most prevalent carbapenemase encoding gene (92.5%) followed by the blaOXA−48 (51.1%), while blaKPC was detected in only one (1.06%) isolate. blaVIM, blaIMP and blaGES were not detected in any of the tested isolates.

Conclusions
The widespread of carbapenem-resistant Klebsiella pneumoniae represents a major problem in health care settings. A significant association between certain virulence factors and carbapenemase-encoding genes was observed. Antibiotic stewardship programs and infection control policies should be effectively implemented especially in hospitals to limit the spread of such highly virulent pathogens.
A systematic literature review on public health and healthcare resources for pandemic preparedness planning
Authors: Beishuizen Berend H. H. , Stein Mart L. , Buis Joeri S. , Tostmann Alma , Green Caroline , Duggan Jim , Connolly Máire A. , Rovers Chantal P. , Timen Aura 
Published: November 2024

Abstract
Background
Generating insights into resource demands during outbreaks is an important aspect of pandemic preparedness. The EU PANDEM-2 project used resource modelling to explore the demand profile for key resources during pandemic scenarios. This review aimed to identify public health and healthcare resources needed to respond to pandemic threats and the ranges of parameter values on the use of these resources for pandemic influenza (including the novel influenza A(H1N1)pdm09 pandemic) and the COVID-19 pandemic, to support modelling activities.

Methods
We conducted a systematic literature review and searched Embase and Medline databases (1995 – June 2023) for articles that included a model, scenario, or simulation of pandemic resources and/or describe resource parameters, for example personal protective equipment (PPE) usage, length of stay (LoS) in intensive care unit (ICU), or vaccine efficacy. Papers with data on resource parameters from all countries were included.

Results
We identified 2754 articles of which 147 were included in the final review. Forty-six different resource parameters with values related to non-ICU beds (n = 43 articles), ICU beds (n = 57), mechanical ventilation (n = 39), healthcare workers (n = 12), pharmaceuticals (n = 21), PPE (n = 8), vaccines (n = 26), and testing and tracing (n = 19). Differences between resource types related to pandemic influenza and COVID-19 were observed, for example on mechanical ventilation (mostly for COVID-19) and testing & tracing (all for COVID-19).

Conclusion
This review provides an overview of public health and healthcare resources with associated parameters in the context of pandemic influenza and the COVID-19 pandemic. Providing insight into the ranges of plausible parameter values on the use of public health and healthcare resources improves the accuracy of results of modelling different scenarios, and thus decision-making by policy makers and hospital planners. This review also highlights a scarcity of published data on important public health resources.
The ‘STRICT’ framework for promoting effective malaria control in Ghana
Authors: Ampomah Irene G. , Devine Susan , Ampomah Genevieve A. , Emeto Theophilus I. 
Published: November 2024

Abstract
Background
Malaria remains a significant public health burden, necessitating evidence-based strategies to reduce prevalence and associated morbidity. This study explores the potential of integrated healthcare, encompassing both modern and traditional herbal medicine (THM), for malaria control in Ghana.

Methods
Employing a qualitative approach, semi-structured interviews were conducted with medical doctors, pharmacists, and THM providers. Thematic analysis approach was utilized to inductively analyse interview data and integrate participants’ lived experiences and suggestions.

Results
Six themes emerged: Standardization of THM practice; Training on THM broadened; Research on THM expanded; Increasing awareness of THM integration hospitals and inclusion of THM in national health insurance scheme; Constant supply of certified herbal medications; and Tax relief provision. These recommendations form the ‘STRICT’ framework for developing functional health system for promoting an effective malaria control through integrated healthcare in Ghana.

Conclusion
It was evident that the ‘STRICT’ framework can potentially transform healthcare delivery and improve service quality for malaria patients. Policymakers, healthcare providers, and managers can utilize these insights to advocate for and implement integrated healthcare strategies, ultimately enhancing service delivery for all Ghanaians, particularly those suffering from malaria.
IAMSAM: image-based analysis of molecular signatures using the Segment Anything Model
Authors: Lee Dongjoo , Park Jeongbin , Cook Seungho , Yoo Seongjin , Lee Daeseung , Choi Hongyoon 
Published: November 2024

Abstract
Spatial transcriptomics is a cutting-edge technique that combines gene expression with spatial information, allowing researchers to study molecular patterns within tissue architecture. Here, we present IAMSAM, a user-friendly web-based tool for analyzing spatial transcriptomics data focusing on morphological features. IAMSAM accurately segments tissue images using the Segment Anything Model, allowing for the semi-automatic selection of regions of interest based on morphological signatures. Furthermore, IAMSAM provides downstream analysis, such as identifying differentially expressed genes, enrichment analysis, and cell type prediction within the selected regions. With its simple interface, IAMSAM empowers researchers to explore and interpret heterogeneous tissues in a streamlined manner.
Lifestyle intervention improves cardiometabolic profiles among children with metabolically healthy and metabolically unhealthy obesity
Authors: Wan Mohd Zin Ruziana Mona , Jalaludin Muhammad Yazid , Md Zain Fuziah , Hong Janet Yeow Hua , Ahmad Kamil Nur Zati Iwani , Mokhtar Abdul Halim , Wan Mohamud Wan Nazaimoon 
Published: November 2024

Abstract
Background
In recent years, there has been a surge of interest in the metabolic phenotype among children with obesity characterized by the absence of associated cardiometabolic risk factors (CRFs), known as metabolically healthy obesity (MHO), as opposed to those with metabolically unhealthy obesity (MUO). This study investigated the effect of lifestyle intervention on CRFs among children with MHO and MUO.

Methods
A total of 102 school-aged children with obesity (54 girls and 48 boys) aged 8–16 years completed a 16-week school-based lifestyle modification intervention program, MyBFF@school Phase I. The intervention consisted of physical activity, healthy eating promotion, and psychological empowerment. MHO and MUO statuses were defined based on the 2018 consensus-based criteria. Fasting venous blood collection, body composition measurement, clinical assessment and physical fitness testing were conducted at baseline and at the end of week 16.

Results
After the intervention, the CRFs of the children with MUO improved with significant decreases in systolic (p < 0.001) and diastolic (p = 0.01) blood pressure and a significant increase in high-density lipoprotein cholesterol (HDL-C) (p = 0.005), while the CRFs of the children with MHO had a significant decrease in uric acid (p = 0.04). Additionally, 51.6% of the children with MHO transitioned to the MUO, while 26.8% of the children with MUO crossed over to the MHO at the end of the intervention. Furthermore, the odds of having high systolic blood pressure among children with MUO were 59% lower at week-16 than at baseline (OR = 0.41 (95% CI = 0.18, 0.92), p = 0.03).

Conclusions
Our findings demonstrated that CRFs improved more prominently among children with MUO following the intervention. More importantly, our findings indicate that MHO in children is transient, hence, strategies to protect children against MUO are warranted.
Trial registration: ClinicalTrials.gov NCT02212873.
Soil microbial carbon use efficiency and the constraints
Authors: Dang Run , Liu Jian , Lichtfouse Eric , Zhou Lifeng , Zhou Meng , Xiao Leilei 
Published: November 2024

Abstract
Background
Microbial contributions to soil organic carbon formation have received increasing attention, and microbial carbon use efficiency is positively correlated with soil organic carbon storage.

Mainbody
This work reviews the impact on microbial carbon use efficiency from six constraints, including plant community composition and diversity, soil pH, substrate quality, nutrient availability and stoichiometric ratios, soil texture and aggregates, water and thermal constraints, and external nutrient inputs. In general, the response of microbial carbon use efficiency showed large uncertainty to above constraints, including positive-, negative-, or non-correlation. However, some factors are biased, more likely to promote or inhibit carbon use efficiency. For example, external nutrient input (N, P, K, Ca) tended to promote carbon use efficiency, while climate warming showed more negative influence.

Conclusion
Further, overwhelming works focused on single constraint, we suggest the importance to consider the synergistic influence of multiple environmental variables on microbial carbon use efficiency, special for the regulation mechanism of biological-environmental interactions.
Geochemical and zircon 18O–Hf–U/Pb isotopic study of volcanic rocks from Lutao Island in the northern Luzon magmatic arc
Authors: Chen Nancy Hui-Chun 
Published: November 2024

AbstractLutao is an islet off the eastern coast of the main island of Taiwan and is composed of pyroclastic agglomerates, volcanic breccias, lava flows, and dykes. There have been no reports of SIMS zircon oxygen isotopic data from Lutao Island so far, which has significantly hampered further understanding of its magmatic processes, such as crystallization, evolution, and generation of magma. In this study, we use zircon U–Pb dating, Lu–Hf and O isotopic analysis to constrain the age, origin, and magmatic processes of the volcanic rocks from Lutao Island. Integration of our new U–Pb and Hf–O isotope data with available published data allows us to better assess the timing and magmatic processes of Lutao Island in the context of the northern Luzon arc system. This work is the first report of SIMS zircon oxygen isotopic data of volcanic rocks from Lutao island. This study shows that the volcanic rocks from Lutao Island were generated by mantle-derived magma associated with high-T° hydrothermal alteration by seawater-derived fluids.
Fatigue performance of the Deeply Embedded Ring Anchor
Authors: Qin Song , Lee Junho , Aubeny Charles P. 
Published: November 2024

AbstractExisting anchor solutions are limited in their applicability to the floating offshore wind industry, which demands prolonged load endurance in extreme weather conditions and varied seabed soils. This limitation restricts project feasibility and increases costs. In order to address these challenges, the Deeply Embedded Ring Anchor (DERA) is proposed to achieve substantial reductions in anchor costs through efficiency enhancements. Ensuring the long-term safety and reliability of the DERA, especially considering a minimum operational period of 25 years, necessitates a comprehensive understanding of fatigue damage. Induced by repetitive loading below material yield strength, fatigue poses a significant threat to structures exposed to waves and currents. Anchors, vital for station keeping, are susceptible to fatigue damage, particularly in the padeye area. This paper conducts a fatigue analysis, focusing on factors such as the wall thickness of the ring anchor, inner stiffeners, and stiffener thickness, to evaluate the performance of DERA in this context. The results showed that the stiffener significantly affects the elongation of the total life of the anchor. In conclusion, this paper focuses on advancing innovations like DERA, enabling the efficient utilization of offshore wind resources, and addressing safety concerns through meticulous fatigue analysis.
Geothermo-mechanical energy conversion using shape memory alloy heat engine
Authors: A. Abubakar R. , I. Nuhu 
Published: November 2024

AbstractThe shift towards renewable energy sources like geothermal energy has become desirable due to the recurrent energy crisis and global warming challenges influenced by fossil fuels. Geothermo-mechanical energy conversion using shape memory alloy (SMA) heat engines presents a novel and sustainable approach for harnessing geothermal energy. Shape memory alloys, known for their ability to undergo reversible phase transformations driven by temperature changes, are ideal for thermal-to-mechanical energy conversion. This paper explores the design and performance of an SMA heat engine that utilizes geothermal heat sources to drive mechanical work. The engine operates by cycling between the high-temperature geothermal environment and a cooler sink, exploiting the shape memory effect to generate mechanical motion. By integrating geothermal energy and SMA technology, this system offers a potential solution for renewable energy generation, with applications in remote or off-grid locations. The paper also investigates output power and the thermodynamic efficiency. A model is formulated and the engine behavior is simulated. A series of experiments are conducted for engine output power and efficiency. The model is compared to the experimental data for validation. The engine developed a maximum power of 3.5, 8.5, and 11.5 watts at 60, 80, and 90 °C respectively. The proposed SMA-based geothermo-mechanical energy conversion system offers a promising solution for efficient, reliable, and scalable geothermal energy harvesting. This research contributes to the development of innovative, efficient geothermal energy conversion technologies, supporting global renewable energy goals and reducing greenhouse gas emissions. This innovative energy conversion mechanism could play a key role in the future of sustainable power generation.
The enhanced-view totally extraperitoneal repair of abdominal bulge after DIEP flap breast reconstruction for breast cancer: a case report
Authors: Yako Masami , Imai Yoshiro , Suzuki Yusuke , Kimura Kosei , Asakuma Mitsuhiro , Tomiyama Hideki , Iwamoto Mitsuhiko , Lee Sang-Woong 
Published: November 2024

Abstract
Background
The deep inferior epigastric perforator (DIEP) flap for autologous breast reconstruction is associated with higher patient satisfaction and fewer abdominal morbidities at the donor site than the transverse rectus abdominis myocutaneous flap. However, abdominal bulging occurs at a certain frequency, and there is no established treatment. Here, we present a case of laparoscopic hernia repair using the enhanced-view totally extraperitoneal (eTEP) method in a patient with a lower abdominal bulge after DIEP flap reconstruction.
Case presentation.
A 53-year-old woman underwent left nipple-sparing mastectomy, left axillary lymph node dissection, and breast reconstruction with a DIEP flap for left breast cancer 3 years previously. We performed an eTEP method for an abdominal bulge. The absence of a hernia sac facilitated dissection of the retrorectal space, and a left-sided transversus abdominis release was performed, followed by mesh placement. No postoperative abdominal bulging was observed.

Conclusions
Using the eTEP method for repairing an abdominal bulge after DIEP flap reconstruction is advantageous because it facilitates a relatively straightforward dissection of a wide area of the retrorectal space without a hernia sac.
Robot-assisted laparoscopic hepatectomy for liver metastasis from clitoral malignant melanoma: a case report
Authors: Iwasaki Hitoshi , Itoh Shinji , Iseda Norifumi , Tsutsui Yuriko , Izumi Takuma , Bekki Yuki , Yoshiya Shohei , Ito Takamichi , Toshima Takeo , Nakahara Takeshi , Yoshizumi Tomoharu 
Published: November 2024

Abstract
Introduction
Malignant melanomas occur most commonly in the skin, mucous membranes, or choroid. Clitoral malignant melanomas are extremely rare. Stage IV malignant melanomas have a poor prognosis, and molecularly targeted agents or immune checkpoint inhibitors are recommended. However, surgical resection is reportedly a valid option for improving the prognosis of patients with oligometastases, defined as a small number of metastases that can be completely resected. In this report, we describe hepatic resection for a recurrent liver metastasis in a patient who had undergone removal of a clitoral malignant melanoma 9 years previously.

Case presentation
An 82 year-old woman presented with a black nodule on her clitoris. Total resection of the nodule resulted in a diagnosis of clitoral malignant melanoma (pT4bN0M0, pStage IIC; UICC 8th edition). A follow-up computed tomography scan 4 years later revealed a single 5 mm mass in the lower lobe of the right lung, prompting partial resection of the right lung. Pathological examination of the operative specimen revealed a pulmonary metastasis of malignant melanoma. The patient was treated with pembrolizumab monotherapy as adjuvant chemotherapy for 1 year. A follow-up computed tomography scan 9 years after surgical removal of the primary lesion revealed an 18 mm mass in segment II of the liver, prompting robot-assisted laparoscopic left lateral sectionectomy. The provisional diagnosis of metastatic malignant melanoma in the liver was confirmed by histopathological examination of the operative specimen. The patient was treated with pembrolizumab monotherapy as postoperative adjuvant chemotherapy for 1 year. No further recurrence was detected at the 1.5 year follow-up.

Conclusion
We performed hepatectomy for oligometastasis of clitoral malignant melanoma, an extremely rare entity. Surgery has the potential to prolong the prognosis of patients with oligometastasis.
Motivations in transition: destination choices of inter-provincial migration among Chinese older adults
Authors: Li Sen , Pan Zehan 
Published: November 2024

AbstractDespite the growing interest in the migration of older adults in China, the intricacies linking migration motivations with destination choices remain insufficiently explored. Drawing from China’s unique context, we categorize inter-provincial older migrants into three types: employment-led, dependent, and lifestyle. Using microdata from the Sixth Population Census of 2010 and the 1% Population Sampling Survey of 2015, we examine their evolving motivations and corresponding shifts in destination preferences. The analysis shows an increase in lifestyle-oriented migration and a decrease in dependent migration, while employment-led migration has remained stable relative to the total. Older migrants seeking employment tend to favor destinations further south, prioritizing regional economic conditions. In contrast, those motivated by lifestyle factors exhibit a broader range of destination choices, largely due to their preference for amenities. Dependent older adult migrants consider both job-related and amenity-related factors and demonstrate a stronger tendency to relocate to the east. Amenity-related factors have increasingly influenced the destination choices across all three types of migration over time. Our findings provide deeper insights into the intricacies of migration in old adulthood and highlight the need for tailored policymaking.