bluuebunny/crossref_metadata_2025_split huggingface dataset:
Integrated multi-omics approach to reveal the molecular networks underlying the seed germination of Polygonatum cyrtonema
Authors: Xu Huilong , Wang Yongsheng , Chen Zhiming , Huang Rongyu , Yang Nan , Pan Mengting , Fan Shiming , Chen Lianghua , Hong Yuyan , Xu Wei , Chen Fangyu 
Published: October 2023

Abstract
Background
Polygonatum cyrtonema (P. cyrtonema), a famous traditional medicinal resource for over two thousand years in China, is in high demand with the vigorous development of the health industry. The rhizome propagation could easily lead to germplasm degradation, severe pests, diseases, etc., and thus, the seed propagation method is a superior alternative to artificially cultivating seedlings on a large scale. However, the seeds of P. cyrtonema need at least two years dormancy period under natural circumstances to undergo morphological and physiological maturation, and germination of seeds has not been fully understood. To reveal the mechanisms of hormone crosstalk and metabolic process regulating germination, transcriptomic, proteomic and plant hormonomics analyses of P. cyrtonema seeds in three different germinating stages (the fresh mature seed, named S1, the emergence of radicle, named S2 and the phase between primary rhizome and cotyledon emergence, named S3) were performed.
Results
Transcriptome analysis revealed that 11,565 differentially expressed genes (DEGs) between S1 and S2, 10,196 between S1 and S3, 7,696 between S2 and S3. Proteome analysis revealed 647 differentially expressed proteins (DEPs) between S1 and S2, 1720 between S1 and S3, and 1475 between S1 and S3. Comprehensive transcriptomic and proteomic analysis indicated that metabolism and plant hormone signal transduction might be the main pathways involved in seed germination of P. cyrtonema. In addition, several proteins, including abscisic acid receptor PYL4 (PYL4) and protein phosphatase 2C (PP2C) bind ABA to form PYL-ABA-PP2C complex, associated with ABA signaling, were down-regulated between S1 and S3. And the sucrose synthase (SUS), involving in the antagonism between ABA and GA, decreased between S1 and S3. While, these proteins such as beta-fructofuranosidase (INV), alpha-xylosidase (α-Xyl), beta-D-xylosidase (β-D-Xyl) and beta-glucosidase (bglX), related to starch and sucrose metabolism, were up-regulated between S1 and S3. Hormone content detection showed that ABA, GAs, IAA, JA and SA decreased significantly, while, the ratio of GAs/ABA increased distinctly from S1 to S3, suggesting that transduction in plant hormones, especially ABA-GA antagonism might regulate seed germination.
Conclusion
The current study showed a possible schematic and a novel insight to explain the dynamic seed germination mechanism of P. cyrtonema, and emphasized that phytohormone cross-talk, ABA signaling and shydrolysis of starch to glucose might play an important role in regulating seed germination.
Enhancing English Comprehension: A UbD Mind Walker Intervention for Remote Upper-Grade Elementary Students
Authors: Yen Ai Chun 
Published: October 2023

Abstract
This preliminary study examines the efficacy of the Mind Walker Reading Programme in improving word knowledge and reading comprehension skills in three upper-grade elementary students situated in a remote environment. The programme is based on the Understanding by Design (UbD) Model developed by Wiggins and McTighe (2011 & 2012). The research entails defining desired reading comprehension outcomes and establishing appropriate indicators for assessing reading comprehension abilities. To assess the program's impact and the retention of acquired skills, pre- and post-tests were administered, with a delayed post-test conducted over an 11-week period. Analysis of the test results, collected from the city government's test pool, reveals a significant enhancement in reading comprehension accuracy among participants who utilized the UbD Mind Walker reading tool. This study underscores the effectiveness of the UbD Mind Walker programme in improving English language proficiency and supporting sustainable learning for elementary school students, particularly in remote areas with limited educational resources.
Landscape analysis of available European data sources amenable for machine learning and recommendations on usability for rare diseases screening
Authors: Raycheva Ralitsa , Kostadinov Kostadin , Mitova Elena , Iskrov Georgi , Stefanov Georgi , Vakevainen Merja , Elomaa Kaisa , Man Yuen-Sum , Gross Edith , Zschüntzsch Jana , Röttger Richard , Stefanov Rumen 
Published: October 2023

Abstract

Background
Patient registries and databases are essential tools for advancing clinical research in the area of rare diseases, as well as for enhancing patient care and healthcare planning. They are the only means of data pooling that can result in an adequate sample size for epidemiological and/or clinical research. They are crucial to determine the feasibility of clinical trials, and to promote the enrollment of patients. The primary aim of this study is a landscape analysis of available European data sources amenable to ML and their usability for Rare Diseases screening, in terms of FAIR, legal, and business considerations. Second, recommendations will be proposed to provide a better understanding of the health data ecosystem.
Results
In total, 330 unique replies were processed and analyzed, reflecting the same number of distinct databases (no duplicates included). In terms of geographical scope, we observed 24.2% (n = 80) national, 10.0% (n = 33) regional, 8.8% (n = 29) European, and 5.5% (n = 18) international registries coordinated in Europe. Over 80.0% (n = 269) of the databases were still active, with approximately 60.0% (n = 191) established after the year 2000 and 71.0% last collected new data in 2022. Regarding their geographical scope, European registries were associated with the highest overall FAIR adherence, while registries with regional and “other” geographical scope were ranked at the bottom of the list with the lowest proportion. Responders’ willingness to share data as a contribution to the goals of the Screen4Care project was evaluated at the end of the survey. This question was completed by 108 respondents; however, only 18 of them (16.7%) expressed a direct willingness to contribute to the project by sharing their databases. Among them, an equal split between pro-bono and paid services was observed.
Conclusions
The most important results of our study demonstrate not enough sufficient FAIR principles adherence and low willingness of the EU health databases to share patient information, combined with some legislation incapacities, resulting in barriers to the secondary use of data. The new EU governing structures, some already in action, are expecting to build trust in data providers and stimulate data sharing to promote accessibility and support ethical and sustainable innovation in healthcare.
A plethora of laboratory protocols for vitamin D receptor (VDR) gene variants detection: a systematic review of associations with hypertensive disorders of pregnancy
Authors: Ibrahim Yakubu , Basri Nurul Iftida , Jamil Amilia Afzan Mohd , Nordin Norshariza 
Published: October 2023

Abstract

Introduction:
Hypertensive disorders of pregnancy constitute the major cause of maternal morbidity and mortality. Genetic variation involving VDR gene variants was thought to play a significant role in aetiopathogenesis of HDP. Vitamin D receptor (VDR) gene polymorphisms are thought to be implicated in the development of hypertensive disorders of pregnancy (HDP). However, the association of the variants with HDP is inconsistently reported. The study aims to review the laboratory protocols of VDR variant detection and association with HDP.
Methods
This study involved one or more of the major VDR gene variants (FokI, BsmI, ApaI, and TaqI) in HDP. The Web of Science, PubMed, Scopus, MEDLINE and CINAHL databases were searched for articles. Preferred Reporting Items for Systematic Review and Meta-analysis (PRISMA) was used. The study was registered in the PROSPERO database (registration number CRD42022362561).
Results
Our analysis of VDR variant detection protocols revealed that approximately 6 (67%) studies used polymerase chain reaction restriction fragment length polymorphism (PCR-RFLP), of which 3 (33%) reported a significant association with the FokI variant. Two (22%) of the studies used TaqMan PCR and found an association with the FokI variant. Only 1 (11%) study utilized allele-specific PCR (AS-PCR) to genotype the ApaI variant. Based on the analysis of the variants with populations, 4 studies (44%) reported an association with the FokI variant in Asians. Two studies (22%) reported that the BsmI variant is common among Caucasians.
Conclusions
The detection protocols evaluated were found to be sensitive in detecting some variants in certain populations but not in others, however, the variants were found to be population-specific. Our findings could potentially be useful in stimulating the discovery of distinct biomarkers specific to various populations and could as well prompt the personalised management of hypertension in pregnancy.
Kinetics of glucose-6-phosphate dehydrogenase (G6PD) activity during Plasmodium vivax infection in French Guiana
Authors: DAHURON Laureen , GOUNGOUNGA Juste , DRAME Moustapha , DOUINE Maylis , NACHER Mathieu , BLAISE Théo , MOSNIER Emilie , MUSSET Lise , FOUILLET Marie , DJOSSOU Félix , EPELBOIN Loïc 
Published: October 2023

Abstract

Background: Plasmodium vivax is responsible for relapses through hepatic hypnozoites. To avoid these issues, we use primaquine, which is contraindicated in cases of glucose-6-phosphate-dehydrogenase (G6PD) deficiency. In French Guiana, G6PD activity is measured on day-14 of antimalarial treatment, to avoid misclassifying deficient patients in this hemolytic context. The aim of this study was to evaluate the kinetics of G6PD during a malaria attack to assess its variations over time.
Methods: This was a retrospective monocentric study. We collected G6PD activity between day-1 and day-28 in patients treated with chloroquine or artemisinin-based combination therapy (ACT) at Cayenne Hospital between January 2018 and December 2020. Patients were divided into 3 arms based on the number of available assessments of G6PD. The global group included arms 1, 2 and 3.
Findings: G6PD activity varied significantly over time (p = 0.004) and stabilized from day 3 onwards. None of the G6PD-deficient patients had false normal assays in the acute phase of the malaria attack. Conversely, we observed that patients with G6PD activity below 80% at D3 normalized at D14.
Sex and reticulocyte count were statistically associated with G6PD variation. Thirty patients (26.5%) were lost to follow-up before primaquine treatment. Among the 223 patients included in the global group, none had severe G6PD deficiency and only 3 (1.35% ± 0.78) had a deficiency between 10 and 30%.
Interpretation: G6PD activity varies over time during P. vivax attack. The G6PD value of the third day is reliable and could be used as a reference for primaquine administration. This could decrease early recurrences and reduce loss to follow-up before primaquine treatment. This proposition requires confirmation in larger prospective studies.
Exploration of clinical pathway practice for optimization of DRG costing results based on resource consumption
Authors: Wu Shu Qian , Wang Xiao Cui , Boyd Andrew D. , Feng Dan 
Published: October 2023

Abstract
In China, the reform of DRG parent method is in full swing, and how cost management to ensure efficient operation has become a difficulty in the process of hospitals "value" payment. Mengchao Hepatobiliary Hospital of Fujian Medical University used the cost accounting results to optimize the clinical pathway of DRG I311B,saving 44.56% in average, making the DRG I311B cost lower than the national level in a short time: based on the department cost accounting, the cost of medical service items was calculated according to the actual resource consumption, and the actual DRG cost data was calculated through the superposition of items.The calculation results are compared with DRG, and the difference data is obtained.The quality department determines whether the difference can be used to optimize the clinical path of the DRG, forming a continuously optimized double helix cost management model, which becomes an important decision-making method to help hospitals achieve clinical path management.
Follicular fluid-derived exosomes rejuvenate ovarian aging through miR-320a-3p-mediated FOXQ1 inhibition.
Authors: liu yu , mu hongbei , chen yu , li kexin , mei qiaojuan , wang lingjuan , tang tianyu , shen qiuzi , li huaibiao , zhang ling , li jing , xiang wenpei 
Published: October 2023

Abstract

Ovarian aging is mainly characterized by a progressive decline in oocyte quantity and quality, which ultimately leads to female infertility. Various therapies have been established to cope with ovarian aging, among which exosome-based therapy is considered a promising strategy that can benefit ovarian functions via multiple pathways. Here, we isolated and characterized exosomes derived from ovarian follicular fluid and profiled the differential expression patterns of noncoding exosomal RNAs in young and aged women. Exosomes can transfer their cargo miRNAs to granulosa cells, thus facilitating the interaction between somatic cells within the follicles and regulating the behavior of granulosa cells, eventually modulating ovarian functions. Furthermore, treatment with young mouse-derived exosomes efficiently rescued ovarian function in aged mice, which was achieved via transfer of miR-320-3p to granulosa cells and subsequent Foxq1 inhibition. This work provides insights into the antiaging potential of follicular fluid-derived exosomes and the underlying molecular mechanisms, which may facilitate prevention of ovarian aging and an improvement in female fertility.
Greedy Centroid Initialization for Federated $K$-means
Authors: Yang Kun , Amiri Mohammad Mohammadi , Kulkarni Sanjeev R. 
Published: October 2023

Abstract
In this paper, our focus is on $K$-means within a federated setting, where clients retain their raw data on local devices, and the raw data never leaves the corresponding devices.Given the importance of initialization on the federated $K$-means algorithm, our objective is to find better initial centroids by utilizing the local data stored on each client.To this end, we start the centroid initialization at the clients, rather than at the server, since the server initially lacks any preliminary insight into the clients' data. The clients first select their local initial clusters, and subsequently share their clustering information (including cluster centroids and sizes) with the server. The server then employs a greedy algorithm to determine the global initial centroids based on the information received from the clients. Numerical results obtained from both synthetic and public datasets demonstrate that our proposed method can achieve better and more stable performance than three distinct federated $K$-means variants, and comparable performance to the centralized $K$-means algorithm.
The generalized core-EP inverses involving projections in Banach *- algebras
Authors: Chen Huanyin , Abdolyousefi Marjan Sheibani 
Published: October 2023

Abstract
We investigate necessary and sufficient conditions under which the differences and products of two projections are generalized core-EP in-vertible. Then we present the representation of generalized core-EP inverse in a Banach *-algebra element by using related projections. Moreover, ex-pressions involving projections for the generalized core-EP inverse are given in a symmetric Banach *-algebra.
Kinetics of Bio-Hydrogen Production from Crude Glycerol by Locally Isolated Klebsiella pneumonia via Dark Fermentation
Authors: Haron Roslindawati , Alewi Nur Aizura Mat , Rahman Roshanida A. , Mat Ramli , Abdullah Tuan Amran Tuan 
Published: October 2023

Abstract

Bioconversion of crude glycerol (CG) to bio-hydrogen (Bio-H2) is promising because the capital investment and operation is cheaper. It is an environmentally friendly approach for waste reduction and clean energy production. However, the selection of microbes that can efficiently metabolise CG under anaerobic conditions is limited. This results in the low production and yield of Bio-H2. Hence, this study sought to examine a new indigenous bacteria (Klebsiella pneumoniae strain HS11286) that can consume CG and convert it into Bio-H2 without the need for pre-treatment or acclimatization. Dark fermentation was employed as it offers advantages in terms of the substrates and producers used. The research focused on the kinetic study for growth and substrate utilisation by kinetic model. In the metabolism of CG by K. pneumoniae, it needed 6 hours for lag phase to adapt to start proliferating and releasing Bio-H2, as well as the metabolites. Based on the HPLC results, three metabolites were produced during the metabolism of CG (i.e.: 1,3-propanediol, propionic acid, and ethanol). The kinetic analysis, and Bio-H2 production were estimated using the kinetic Monod model and the modified Gompertz equation. The kinetic analysis revealed a growth rate (µ) of 0.106 h− 1, glycerol consumption rate (Qgly) of 1.572 g/L/h, and the yield coefficients Yp/x, Yp/s, and Yx/s of 30,758.51 mL/g cell, 479.26 mL/g substrate, and 0.016 g cell/g substrate, respectively. The modified Gompertz model predicted Bio-H2 production of 10,155 mL at 620 mL/h with a 6 h lag period. In conclusion, K. pneumoniae strain HS11286 has the potential to produce almost 10 litre of hydrogen in a short period of time (less than 48 h) without substrate pre-treatment and bacteria acclimatisation or genetic engineering. This study highlighted that the K. pneumoniae strain HS11286 is a promising hydrogen-producer.
An Analysis of Energy Consumption in OECD Countries using Heterogeneous Dynamic Panel Models
Authors: Sevinç Adnan , Tatoğlu Ferda Yerdelen 
Published: October 2023

Abstract
This study aimed to determine the relationship between energy consumption, country income, and energy price in 11 OECD countries and used dynamic panel data models. There are several studies on energy with dynamic panel data models in the literature, but the results are biased because they ignore the heterogeneity of countries and cross-sectional correlation. In this study, the dynamic panel data model was extended to allow heterogeneity and cross-sectional dependency, and it was estimated with an instrumental variable that is seemingly unrelated regression and dynamic common correlated effects mean group estimators. Based on the estimation results and the theory, it was concluded that one lag of energy consumption and per capita income positively affect energy consumption, whereas energy price affects energy consumption negatively. The results of the model, which is created by including the common responses of countries to shocks and at the same time heterogeneous features from each other, and considering the effect of past experiences, will ensure that environmental policies are determined more accurately.
Unveiling the Promising Prognostic and Immunological Role of MRTO4 in Hepatocellular Carcinoma with Correlation to Immune Infiltrates
Authors: Zheng Yongyuan , Huang Yansong , Li Weibing , Cheng Hongqiu 
Published: October 2023

Abstract
Background
MRT4 Homolog, Ribosome Maturation Factor (MRTO4), is known to play a role in ribosomal biogenesis, a process that is often upregulated in cancer cells. However, its impact in hepatocellular carcinoma (HCC) and its correlation with immune infiltration is less well understood. Here, we explored the prognostic and immunological role of MRTO4 in HCC.
Methods
The primary dataset was sourced from The Cancer Genome Atlas (TCGA), GSE121248 and GSE45267and subjected to analysis through R software. MRTO4 expression was explored using the TCGA database, and correlations between MRTO4 and cancer immune characteristics were analyzed via the TISIDB databases.
Results
Generally, MRTO4 is predominantly overexpressed and has diagnostic and prognostic value in HCC. Upregulated MRTO4 was associated with poorer overall survival, poorer disease-specific survival, and progression-free interval. Mechanistically, we identified a hub gene that included a total of 50 MRTO4-related genes, which were tightly associated with Spliceosome pathways in HCC patients. MRTO4 expression was positively correlated with Th2 cells, NK CD56 + cells negatively correlated with the Th17 cells, NK cells, Neutrophils, DC cells, CD8 T cells and cytotoxic cells. MRTO4 expression was negatively correlated with the expression of immuno-stimulators (KDR, CD274, IL6R and TMEM173) and chemokines /chemokine receptors (CCL21, CXCL12, CCR4, and CX3CR1) in HCC.
Conclusion
MRTO4 may be used as a promising biomarker for determining prognosis in HCC. Furthermore, it might modulate tumor immunity in HCC by altering the expression of specific chemokines, chemokine receptors, and immunoinhibitory and immunostimulatory molecules, which correlated to immune infiltration.
Effect of long-term cervical extensor exercise program on functional disability, pain intensity, range of motion, cervical muscle mass and cervical curvature in young population with chronic non-specific neck pain: a randomized controlled trial
Authors: Zhang Yao , Lin Wancheng , Yi Meng , Yao Siyuan , Yao Mingtao , Luo Zhengning , Zhang Genai , Song Jipeng , Ding Lixiang 
Published: October 2023

Abstract
Background: There is growing popularity of chronic non-specific neck pain (CNNP) in young population. This study aimed to compare the effects of long-term specific cervical extensors training and stretching exercise on improving this chronic disorder in young population.
Methods: This is a prospective, randomized, controlled study. We assigned 70 young young participants, 18 to 35 years of age, who suffered CNNP and had loss of cervical lordosis, to undergo either specific cervical extensor training (observation group) or stretching exercise (control group). The duration of exercise was designed to be 12 months. Outcome assessment involved the changes in neck disability index (NDI), visual analogue scale (VAS) from baseline, cervical range of motion (CROM), cross-sectional areas (CSAs) of cervical extensors, and cervical curvature from baseline. The outcome measures were compared between groups at 3-, 6- and 12-month after follow-up.
Results: 70 participants underwent randomization. No significant difference of demographics and baseline data between the two groups was found. The observation group had greater improvement in NDI and VAS scores at 12-month follow-up than did the control group. Moreover, greater increase of CROM and CSAs of cervical extensors were found in observation group at 6-month and 12-month follow-up (P<0.05). More participants in the observation group obtained cervical lordosis at 12-month follow-up, however the difference was marginal, non-significant (P=0.07).
Conclusions: Among young population with CNNP, long-term specific cervical extensor training was associated with greater clinically meaningful improvement in disability, pain, and CROM. Increased CSAs of cervical extensors may potentially contribute to recovery of cervical lordosis.
Trial registration: The study is registered at the Chinese domestic clinical trial (ChiCTR2000040009) at Chictr.org.The date of registration: November 18, 2020.