bluuebunny/crossref_metadata_2025_split huggingface dataset:
Establishment of FUT8 gene knockout CHO cell line with stable expression of monoclonal antibody
Authors: Gao Li , Zhang Mengxin , Li Bin , Zhang Cuiqiao , Miao Xiuxiu , Li Xiaohong , Yu Chao , Li Hongwen 
Published: December 2023

Abstract
Background: Afucosylated antibodies have been become increasingly popular in clinical trials for therapeutic purposes owing to the improved efficacy compared to the fucosylated counterparts. The elimination of fucose on the heavy chain of an antibody can enhance the activity of antibody-dependent cellular cytotoxicity (ADCC). However, antibodies produced by Chinese hamster ovary (CHO) cells are heavily fucosylated, and the modification reduces the activity of ADCC. FUT8,GMD and FX encoding major fucose modification enzymes, which were knockout respectively in CHO cells using clustered regularly interspaced short palindromic repeats/CRISPR-associated protein 9 (CRISPR/Cas9). These gene knockout cell lines were evaluated for cell growth, antibody yield, N-glycan profiles and ADCC activities.
Results: The results showed that the gene knockout cell lines exhibited morphology and growth kinetics similar to those of the wild CHO cells, and produced completely afucosylated recombinant antibodies. Among them, the ADCC activity of cell pool and monoclonal cell line with FUT8 gene knocked out (FUT8KO) were increased 2-2.5-fold comparing to conventional fucosylated antibodies.
Conclusions: Our results indicated that FUT8KO monoclonal clone cell lines (#08E9, 05E9, 20D8, 12C4, 01E9, and 01F4) were ideal hosts for stable production of completely afucosylated high-ADCC activity antibodies, with considerable therapeutic quality and efficacy.
Extensive misidentification of European ivy species (Hedera L.): How taxonomically reliable are online biodiversity databases?
Authors: Coca-de-la-Iglesia Marina , Gallego-Narbón Angélica , Alonso Alejandro , Valcárcel Virginia 
Published: December 2023

Abstract
The global digitization effort and the popularization of citizen science is providing unprecedented amount of biodiversity online data. However, these databases can be severely affected by species misidentifications, whose validation may require access to specimens. This is often difficult, as most online records lack a physical voucher, and time-consuming in all cases. For this reason, the use of online databases to address biological questions has long been questioned by taxonomists. Ivies (Hedera L.) are an excellent case to evaluate this issue as they have tons of online records, whose use at the species level is questioned due to a high expected taxonomic uncertainty. Here we analyze the sources and extent of taxonomic errors in ivy species in Europe, the area of the world with the highest number of species. We estimate a high misidentification rate (18% on average), varying between species (maximized in H. iberica: 38%; H. azorica: 48%, H. hibernica: 55%) and regions (maximized in Spain: 27%, UK: 38%). We identify a systematic misidentification of all European ivies with H. helix and analyze the associated cascade error effects. We compile a spatial database to overcome the large discrepancies we observed in species distributions between online and morphologically reviewed records.
Using applicable approach to solving circle geometry problems; a quantitative study of senior high school students’ academic performance in circle geometry in Sefwi-Wiawso municipality
Authors: Enoch Suglo Kabinaa 
Published: December 2023

Abstract
The main aim of this study was to investigate the approach students’ use in solving circle geometry questions and the influence of it on their academic performance in circle geometry. The study was guided by the null hypothesis that students’ approach to solving circle geometry questions has no significant influence on their academic performance in circle geometry. The study employed a quantitative descriptive research design with a sample size of 210 students selected from a population of 460 using probability systematic sampling technique. The data collection was done using a questionnaire and an achievement test instrument. Data analysis methods included descriptive statistics and simple linear regression analysis. The major finding of the study was that students’ approach to solving circle geometry related problems has a statistically significant influence on their academic performance in circle geometry. The study recommended that teachers must effectively orientate students on how to correctly use applicable circle theorems in solving circle geometry related questions during examinations so as to improve the academic performance.
CircSP3 promotes ccRCC progression and sunitinib resistance via encoding SP3- 461aa to stabilize MYH9 and activate the PI3K-AKT pathway
Authors: Wu Xiaoliang , Zhang Yangjun , Sun Guoliang , Liu Kai , Duan Chen , Mao Xiongmin , Wu Huahui , Yao Xiangyang , Li Bo , Fan Ruixin , Chen Ke , Gong Yan , Chen Zhong , Xu Hua 
Published: December 2023

Abstract
Background: In recent years, the potential of circular RNAs to encode proteins has garnered significant attention, rendering them a prominent subject of interest. The expression patterns and functional significance of protein-coding circRNAs in clear cell renal cell carcinoma (ccRCC) have yet to be fully elucidated. Thus, the primary objective of this study was to investigate the role of circSP3 in the advancement of ccRCC.
Methods: The clinical significance of circSP3 was assessed through various analytical techniques, including heatmap analysis, RT-qPCR, and RNA-seq in both ccRCC tissues and cells. To further understand the role of circSP3 in ccRCC, several experimental assays were conducted, including colony formation, EdU incorporation, CCK-8 assay, migration, and invasion assays. Additionally, immunoprecipitation, LC-MS/MS, Ubiquitination assay, and site-mutagenesis were employed to investigate the interaction and translation of circSP3.
Results: CircSP3 was overexpressed and acted as an oncogene in ccRCC. High circSP3 expression is correlated with a high TNM stage. (P = 0.024). circSP3 was mainly located in the cytoplasm. which include an IRES sequence that could bind with the ribosome to initiate the translation process. CircSP3 encodes a novel 461-amino acid peptide referred to as SP3-461aa, which promotes the proliferation, migration, and invasion of ccRCC. SP3-461aa protects the MYH9 protein from proteasomal degradation. Moreover, SMYD2 regulates circSP3 expression by methylating TP53 to suppress DHX9 expression. SP3-461aa played a pivotal role in mediating the oncogenic effects of circSP3 by interacting with the MYH9 protein and activating the VEGFA/PI3K-AKT pathway. Furthermore, SP3-461aa was found to enhance sunitinib resistance in vitro and in vivo.
Conclusions: These findings suggested that circSP3 plays an important role in ccRCC development and could be a potential biomarker for the treatment and prognosis of ccRCC.
Distinct roles of SOX9 in self-renewal of progenitors and mesenchymal transition of the endothelium
Authors: Zhao Jilai , Sormani Laura , Jacquelin Sebastien , Styke Cassandra , Zhou Chenhao , Beesley Jonathan , Oon Linus , Kaur Simranpreet , Sim Seen-Ling , Wong Ho Yi , Dight James , Hashemi Ghazaleh , Shafiee Abbas , Roy Edwige , Patel Jatin , Khosrotehrani Kiarash 
Published: December 2023

Abstract

Regenerative capabilities of the endothelium rely on vessel-resident progenitors termed endothelial colony forming cells (ECFCs). This study aimed to investigate if these progenitors are impacted by conditions (i.e., obesity or atherosclerosis) characterized by increased serum levels of oxidized low-density lipoprotein (oxLDL), a known inducer of Endothelial-to-Mesenchymal Transition (EndMT). Our investigation focused on understanding the effects of EndMT on the self-renewal capabilities of progenitors and the associated molecular alterations. In the presence of oxLDL, ECFCs displayed classical features of EndMT, through reduced endothelial gene and protein expression, function as well as increased mesenchymal genes, contractility, and motility. Additionally, ECFCs displayed a dramatic loss in self-renewal capacity in the presence of oxLDL. RNA-sequencing analysis of ECFCs exposed to oxLDL validated gene expression changes suggesting EndMT and identified SOX9 as one of the highly differentially expressed genes. ATAC sequencing analysis identified SOX9 binding sites associated with regions of dynamic chromosome accessibility resulting from oxLDL exposure, further pointing to its importance. EndMT phenotype and gene expression changes induced by oxLDL in vitro or high fat diet (HFD) in vivo were reversed by the silencing of SOX9 in ECFCs or the endothelial-specific conditional knockout of Sox9 in murine models. Overall, our findings support that EndMT affects vessel-resident endothelial progenitor’s self-renewal. SOX9 activation is an early transcriptional event that drives the mesenchymal transition of endothelial progenitor cells. The identification of the molecular network driving EndMT in vessel-resident endothelial progenitors presents a new avenue in understanding and preventing a range of condition where this process is involved.
Time course of plasma urea and urinary urea excretion in patients with a prolonged ICU stay
Authors: Zijlstra Hendrik W. , Westland Gjalt J. , Volbeda Meint , Meurs Matijs van , Pillay Janesh , Franssen Casper F.M. , Stegeman Coen A. , Nijsten Maarten W. 
Published: December 2023

Abstract
Background
Whereas urinary creatinine excretion (UCE) is an established marker of muscle mass, both in critically ill and non-critically ill patients, analysis of urinary urea excretion (UUE) may allow estimation of proteolysis that is associated with critical illness. We evaluated the time courses of plasma urea and creatinine as well UUE and UCE in critically ill patients with a prolonged ICU stay. Our goal was to evaluate changes in plasma urea and creatinine in conjunction with their urinary excretion, to get a better understanding of urea handling in ICU patients.
Methods
From 2002 to 2021, plasma urea and creatinine, UUE and UCE were determined in routinely obtained 24h urine samples between ICU admission and day 30, in adult patients with an ICU-stay ≥28d. Urea-to-creatinine ratios in plasma and urine were calculated. Patients with stage 3 acute kidney injury (AKI) were excluded. Analyses were performed separately for females and males to account for differences in muscle mass. A subanalysis was done in patients with and without AKI during ICU stay.
Results
Of 47,120 patients, who were admitted to the ICU between 2002 to 2021, 638 patients met the inclusion criteria. During the first 10 days mean±SD plasma urea increased from 9.7±6.0 mmol/L at ICU admission to 12.4±7.9 mmol/L (P <0.001) on day 11 and decreased afterwards with a rate of 0.1 mmol/l/d. UUE peaked at 590±317 mmol/day on day 13 whereas UCE peaked already on day 4. Males had higher plasma urea, plasma creatinine, UUE and UCE than females. Plasma and urinary urea-to-creatinine ratio (UCR) stabilized after day 7, with a gradual increase in plasma UCR and urinary UCR between day 7 and day 30. Similar courses, although less pronounced, were seen in patients without AKI.
Conclusion
The course of urea in critically ill patients is characterized by an initial rise of both plasma urea and urinary urea excretion, presumably due to increased catabolism of endogenous or exogenous protein in the first week of ICU admission. Subsequently, UUE and UCE declined steadily in a rate that was comparable to the known loss of muscle mass during ICU admission of approximately 1%/day.
Assessing Microplastic Distribution in Indoor Environments: A Case Study of a University Facility in Kuala Lumpur
Authors: M Dewika , Markandan Kalaimani , Irfan N Ahmad , Abdah Muhammad Amirul Aizat Mohd , Ruwaida J Nor , Sara Y Y , Khalid Mohammad , Ibrahim Y S 
Published: December 2023

Abstract
Detection of microplastics in indoor air environments has raised concerns related to the potential public health risks associated with exposure. The present investigation examines the prevalence of microplastics in a university facility situated in Kuala Lumpur, Malaysia. Specifically, this study analyzed 24 samples of indoor dust for microplastics in both the classrooms and the offices of the faculty members, which were located on the same floor of the building. Findings indicate that microplastics were found in active samples in the office and classroom with a mean concentration of (156 ± 48 MPs/m3; n = 6) and (104 ± 13 MPs/m3; n = 6) MPs/m3, respectively, while deposition rates were 1898 ± 908 MPs/m2/day and 3434 ± 624 MPs/m2/day for classroom and office respectively. Besides, the estimated daily intake of an adult in the office and classroom was 227 MPs/kg /BW/day and 163 MPs/kg/BW/day, respectively. Findings from the present study indicate that indoor environments are prone to microplastic pollution, although microplastic concentration varies significantly based on the different characteristics of indoor settings.
Establishing associations of thrombospondin linked to tumor growth, with thrombosis
Authors: M Vidhya 
Published: December 2023

Abstract
An intriguing fresh insights was obtained from the examination of non-lymphocytic immune cells from a human stage IA lung adenocarcinoma using parallel single-cell RNA-seq (MARS-Seq). HISAT2 was used to align the data to the reference human genome hg38 and perform analysis after the data quality was checked.
Thrombospondin was shown to be significantly elevated among the genes particularly expressed in tumour samples by statistical analysis of RNA-seq data. Additional correlation analysis revealed favourable associations with genes such as 5-hydroxytryptamine receptor 6 and G protein-coupled receptor 153.
Further, functional protein network analysis of thrombospondin, identified relationships that were predicted, including CD47, CD36 and fibronectin. These partners were divided into three clusters by KMeans clustering, which offered an understanding of Thrombospondin's interactome. It is known that CD36, the thrombospondin receptor, connects to the small GTPase RAP1 and functions in multiple ways in lipid uptake, platelet hyperactivity, and thrombosis. Cell adhesion, migration, and integrin activation were all impacted by the downstream route from CD36 to RAP1 activation, which included ligand binding, intracellular signalling, and RAP1-mediated effects. The analysis identified the significance of functional interaction between Thrombospondin and Rap1 activation which correlates tumor to thrombotic events.
Transparency in Music-Generative AI: A Systematic Literature Review
Authors: Batlle-Roca Roser , Gómez Emila , Liao WeiHsiang , Serra Xavier , Mitsufuji Yuki 
Published: December 2023

Abstract

Music-generative AI raises multiple challenges particularly related to the work of artists, the existing music industry model, the role of AI in creative processes, and the discussion of intellectual property rights. Our study addresses these challenges by examining transparency in music generation. We conduct a systematic literature review, following the PRISMA methodology, to gain a comprehensive understanding of the associations between algorithmic transparency, music generation, the evaluation in terms of creativity and originality, and the connections to intellectual property rights.We identify 1,111 publications by formulating four research questions. Following a rigorous review process, we narrow down the selection to 66 relevant investigations published by 2022, covering multiple AI domains. Acknowledging the rapid growth of the music generation field, we then incorporate 18 publications from 2023, focusing our search on the music-specific domain and novel applications. Thus, the present review overviews 84 publications. Our findings highlight a growing interest in AI transparency and the ethical consequences of generative models. However, transparent strategies in music-generative AI remain an under-explored topic. Our main contribution is the identification of research gaps and challenges in transparency for music-generative AI.
Optimal scheduling model for master-slave game considering demand-side incentives
Authors: Yingjun Sang , Zhenglong Wu , Quanyu Chen , Jinglei Tao , Yuanyuan Fan 
Published: December 2023

Abstract

Global energy saving and emission reduction measures are deeply promoted, and the importance of demand-side resource participation in smart grid response is highlighted. A novel master-slave game model is proposed to address the uncertainty of demand-side response load-shedding capability and the fluctuation of renewable energy output during peak hours; the follower-side incentive mechanism (CBIM) considers the credit index, contribution, and electricity comfort to constrain the amount of declared load shedding, and is modeled with the objective function of maximizing the revenue from electricity consumption; and the real-time dispatch model in the leader's multi-timescale optimal scheduling model considers the wind and light Penalty coefficients and DR incentive mechanism using improved particle swarm algorithm to solve the mathematical model. Encouraging users to feedback load shedding according to their actual capacity can integrate demand-side revenue, as well as flatten the load curve to improve grid stability, enhance new energy consumption, and reduce the cost of grid energy consumption.
The LINC02701/miR-193a-3p Axis Regulates ERBB4 Expression and Inhibits the Cell Cycle in Chronic Rhinosinusitis with Nasal Polyps
Authors: Li Hangjin , Wang Yiqin , Qu Hui , Zhang Wei , Yin Junting , Yu Shen , Guo Yan , Wang Jizhe 
Published: December 2023

Abstract
Background
Chronic sinusitis with nasal polyps (CRSwNP) is highly prevalent in the general population. Though CRSwNP substantially affects the quality of life of patients, there is a lack of effective treatments for this disease. Several studies have shown that long non-coding RNAs (lncRNA) and miRNAs can regulate the development of CRSwNP through ceRNA. ERBB4 is a key factor in regulating the occurrence and development of CRSwNP, but the mechanism of its expression and regulation is not clear.
Objective
In this study, we aimed to determine whether the LINC02701/miR-193a-3p axis could promote the development of CRSwNP by regulating the expression of ERBB4.
Methods
We identified differentially expressed lncRNAs, miRNAs, and mRNAs in controls and individuals with chronic sinusitis via gene set enrichment analysis. We analyzed the relationship between them by constructing a ceRNA network. We performed RNA sequencing and investigated whether the LINC02701/miR-193a-3p axis could promote the development of CRSwNP by regulating ERBB4 expression levels.
Results
Our findings showed that changes in LINC02701 and miR-193a-3p expression levels resulted in a change in ERBB4 expression levels. Further study found that LINC02701 regulates the expression of ERBB4 through miR-193a-3p, which in turn affects the occurrence and development of CRSwNP.
Conclusion
This project will provide new ideas for clinical diagnosis and treatment of CRSwNP.
Large-scale three‑dimensional experimental investigation on potential high landslide‑induced waves in Gushui Reservoir, China
Authors: Chen Shi-zhuang , Xu Weiya , Feng Yelin , Yan Long , Zhang Yangyang , Cao Fengyuan , Wang Huanling , Xie Wei-Chau 
Published: December 2023

Abstract

The occurrence of landslides in reservoir areas and the potential secondary disasters near dams are characterized by their sudden and catastrophic nature, often limiting the availability of actual measurement data. To address this challenge, prototype physical model test always proves to be valuable method to replicate or reproduce such geological hazards. In this study, we focused on the Meilishi landslide in the Gushui reservoir area as a case study to analyze the potential threat of high landslide-induced waves under gravity. Based on field investigations and relevant statistical geological data, a large-scale three-dimensional physical model was carried out that integrated the interactions of the landslide, the river, and the dam. With a scale of 1:150, the model had the dimensions of 57, 27, and 8m. Water level and the maximum sliding velocity into the water were selected as independent variables, leading to a total of 18 experiments. An adaptive landslide motion simulation system based on velocity equivalence and a comprehensive measurement system with tracking technology based on hydrodynamics were independently developed. Those approaches allowed us to reveal the propagation characteristics and attenuation laws of high landslide-induced waves in a curved channel under various complex conditions. The data showed that the maximum wave run-up height on damwas 17.97 m under the most dangerous working condition (H3C09). Importantly, this value did not exceed the maximum height of dam, indicating a certain level of safety margin for the dam. Combined with the data of different working conditions, the optimal window for landslide risk prevention and control warnings was within 550 s after the onset of landslide instability. The key parameters predicted by the tests, including head wave height, wave run-up height on the opposite bank, wave run-up height on dam, and the propagation times, provided a technical basis and valuable reference for dam engineering design and safety. These results make significant contributions to the prevention and control of similar surges hazard induced by high landslides around the world.
Successfully Managed Alcoholic Ketoacidosis With Sepsis Leading to Mods: a Case Report
Authors: Roy Ishita , Roy Nilanjan 
Published: December 2023

Abstract
We present the case of a 28-year-old male with a history of alcohol dependency and smoking, who presented with chest pain, shortness of breath, and altered sensorium. He exhibited severe metabolic acidosis, low platelet count, and acute kidney injury. Alcoholic ketoacidosis (AKA) was suspected due to ketonuria, metabolic acidosis, and ketonemia, compounded by electrolyte abnormalities and radiographic findings of pneumonia.
Prompt intervention included electrolyte correction, thiamine supplementation, broad-spectrum antibiotics, and diuretics. Thiamine played a pivotal role in the patient's recovery, with significant improvement in consciousness observed within a day. After six days, the patient was discharged in stable condition, showing normal renal and hepatic function during follow-up.
This case emphasizes the need for early recognition and comprehensive management in AKA, highlighting thiamine's crucial role in treatment success.