bluuebunny/crossref_metadata_2025_split huggingface dataset:
Capturing the Asymmetrical Effect of Macroeconomic Factors on Public-Sector Innovation in Chinese Local Government: A Dynamic Technology Forecasting Approach
Authors: You Chengde , Khattak Shoukat Iqbal , Ahmad Manzoor 
Published: November 2024

Despite the considerable investments in Chinese public sector innovation in China and its social impact, there is insufficient information on how asymmetries in macroeconomic factors and business cycles affect public sector innovation. Based on provincial data from thirty regions (2000–2016), the study proposes a dynamic model to capture the asymmetrical impact of macroeconomic factors on local government innovation. The innovation-based predictive model indicated that a positive shock to macro-economic factors (i.e., gross domestic product, government administration expenditures, provincial degree of openness in economies, provincial degree of openness in society, higher education research and development expenditures, local revenue, and local expenditure) upsurge government innovation. In contrast, a negative shock to these factors disrupts local government innovation. Third, the model indicated a pro-cyclical relationship between positive and negative shocks to government administration expenditures and provincial government innovation during the boom and recession periods. The study offers an essential policy tool and some important implications for local government officials, future researchers, and policymakers to understand how cyclic and asymmetric behavior in local government innovation shapes the innovation efficiency of the public sector in China. Subject Classification Codes: O30, O31, O32, 01, O38, O36, O35, O38, P25, Q01, H72.
Cerebellar Diameter as A Predictor of Gestational Age of Fetus: Comparison With Other Biometry Parameters
Authors: Uzair Muhammad , Farooq Syed Muhammad Yousaf , Faisal Nazir Muhammad , Fatima Mehreen , Gilani Syed Amir , Hameed Sajid , Bibi Khalida , Fatima Tehreem , Shafiq Zohaib , Shoaib Rafia , Saeed Tayyaba , Bibi Kainat 
Published: November 2024

Objective: The aim of this study was to determine if the fetal cerebellum can be used as a predictor of gestational age (GA), in comparison with other biometric parameters, such as fetal head circumference (HC), biparietal diameter (BPD), abdominal circumference (AC), and femur length (FL). Materials and Methods: A grayscale sonographic examination was completed on a cohort of 200 pregnant participants, during their second and third trimester. A descriptive analysis was used to determine the fetal GA, utilizing the transcerebellar diameter (TCD), while comparing it with other biometry metrics. The mean and standard deviation were provided for quantitative variables, while frequencies were determined for categorical variables. A multivariate regression was used to construct models for determining the fetal GA by using the fetal TCD. Results: Paired sample statistics of this fetal data showed that the mean GA (i.e., fetal GA based on BPD, FL, HC, and AC) and TCD-GA have approximately the same mean values of 27.59. Moreover, the strength of correlation was 0.941 and a significance of P < .001, respectively. Based on the paired sampling, the analysis indicated that there was a very strong significant positive linear relationship between mean fetal GA and TCD-GA and strong reliability. Conclusion: This cohort study demonstrated a very strong significant positive linear relationship between mean fetal GA and TCD-GA, with strong reliability. This may suggest that it is possible to determine fetal GA by measuring TCD.
RETRACTED ARTICLE: CKS2 induces autophagy-mediated glutathione metabolic reprogramming to facilitate ferroptosis resistance in colon cancer
Authors: Yang Leilei , Fang Chengfeng , Han Jiaju , Ren Yufeng , Yang Zaiping , Shen Lingyan , Luo Dinghai , Zhang Ruili , Chen Yan , Zhou Shenkang 
Published: November 2024

Abstract
Background
Ferroptosis, a form of cell death characterized by lipid peroxidation, plays a crucial role in tumor suppression, offering novel avenues for cancer therapy. Previous studies have indicated that high levels of cyclin-dependent kinase subunit 2 (CKS2) promote the progression of various cancers. However, the potential interplay between CKS2 and ferroptosis in colon cancer (CC) remains unclear.

Methods
Bioinformatics and RNA-seq analyses were employed to study genes associated with the ferroptosis signaling pathway. CKS2 expression was evaluated using quantitative reverse transcription polymerase chain reaction (qRT-PCR) and Western blot (WB). The in vitro and in vivo effects of CKS2 on CC cells were assessed through the CCK-8 assay, colony formation assay, propidium iodide (PI) staining, BODIPY staining, DCFH-DA staining, and animal experiments. Additionally, the impact of CKS2 on autophagy and glutathione (GSH) metabolism was investigated using a transmission electron microscope (TEM), immunofluorescence (IF) assays, WB experiments, and relevant assay kits.

Results
CKS2 expression was elevated in CC, indicating a poor clinical outcome. Knockdown of CKS2 significantly enhanced Erastin-induced ferroptosis in CC cells, leading to reduced GSH metabolism. Conversely, CKS2 overexpression produced opposite effects. Mechanistically, CKS2-induced autophagy reinforced GSH metabolism, thereby increasing resistance to ferroptosis in CC cells. Furthermore, inhibiting CKS2 promoted tumor ferroptosis by downregulating GPX4 expression. Additionally, CKS2 knockdown effectively increased sorafenib-induced ferroptosis both in vitro and in vivo.

Conclusion
CKS2 suppresses ferroptosis in CC by modulating GSH metabolism in both in vitro and in vivo settings. These findings offer new insights into targeting CKS2 for CC treatment and shed light on the mechanism of ferroptosis in CC.
Empirical versus estimated accuracy of imputation: optimising filtering thresholds for sequence imputation
Authors: Nguyen Tuan V. , Bolormaa Sunduimijid , Reich Coralie M. , Chamberlain Amanda J. , Vander Jagt Christy J. , Daetwyler Hans D. , MacLeod Iona M. 
Published: November 2024

Abstract
Background
Genotype imputation is a cost-effective method for obtaining sequence genotypes for downstream analyses such as genome-wide association studies (GWAS). However, low imputation accuracy can increase the risk of false positives, so it is important to pre-filter data or at least assess the potential limitations due to imputation accuracy. In this study, we benchmarked three different imputation programs (Beagle 5.2, Minimac4 and IMPUTE5) and compared the empirical accuracy of imputation with the software estimated accuracy of imputation (Rsqsoft). We also tested the accuracy of imputation in cattle for autosomal and X chromosomes, SNP and INDEL, when imputing from either low-density or high-density genotypes.

Results
The accuracy of imputing sequence variants from real high-density genotypes was higher than from low-density genotypes. In our software benchmark, all programs performed well with only minor differences in accuracy. While there was a close relationship between empirical imputation accuracy and the imputation Rsqsoft, this differed considerably for Minimac4 compared to Beagle 5.2 and IMPUTE5. We found that the Rsqsoft threshold for removing poorly imputed variants must be customised according to the software and this should be accounted for when merging data from multiple studies, such as in meta-GWAS studies. We also found that imposing an Rsqsoft filter has a positive impact on genomic regions with poor imputation accuracy due to large segmental duplications that are susceptible to error-prone alignment. Overall, our results showed that on average the imputation accuracy for INDEL was approximately 6% lower than SNP for all software programs. Importantly, the imputation accuracy for the non-PAR (non-Pseudo-Autosomal Region) of the X chromosome was comparable to autosomal imputation accuracy, while for the PAR it was substantially lower, particularly when starting from low-density genotypes.

Conclusions
This study provides an empirically derived approach to apply customised software-specific Rsqsoft thresholds for downstream analyses of imputed variants, such as needed for a meta-GWAS. The very poor empirical imputation accuracy for variants on the PAR when starting from low density genotypes demonstrates that this region should be imputed starting from a higher density of real genotypes.
Rare copy number variant analysis in case–control studies using snp array data: a scalable and automated data analysis pipeline
Authors: Artaza Haydee , Lavrichenko Ksenia , Wolff Anette S. B. , Røyrvik Ellen C. , Vaudel Marc , Johansson Stefan 
Published: November 2024

Abstract
Background
Rare copy number variants (CNVs) significantly influence the human genome and may contribute to disease susceptibility. High-throughput SNP genotyping platforms provide data that can be used for CNV detection, but it requires the complex pipelining of bioinformatic tools. Here, we propose a flexible bioinformatic pipeline for rare CNV analysis from human SNP array data.

Results
The pipeline consists of two major sub-pipelines: (1) Calling and quality control (QC) analysis, and (2) Rare CNV analysis. It is implemented in Snakemake following a rule-based structure that enables automation and scalability while maintaining flexibility.

Conclusions
Our pipeline automates the detection and analysis of rare CNVs. It implements a rigorous CNV quality control, assesses the frequencies of these rare CNVs in patients versus controls, and evaluates the impact of CNVs on specific genes or pathways. We hence aim to provide an efficient yet flexible bioinformatic framework to investigate rare CNVs in biomedical research.
Transcriptional profiling of the M. complexus in naked neck chickens suggest a direct pleiotropic effect of GDF7 on feathering and reduced hatchability
Authors: Mott Alexander Charles , Blaschka Carina , Mott Andrea , Falker-Gieske Clemens 
Published: November 2024

Abstract
Background
The locus for naked neck (Na) in chickens reduces feather coverage and leads to increased heat dissipation from the body surface resulting in better adaptability to hot conditions. However, the Na gene is linked to significantly lower hatchability due to an increased late embryonic mortality. It has been argued that the causative gene GDF7 may have a direct pleiotropic effect on hatchability via its effect on muscle development. Thus, the study presented here analyses the transcriptome of the hatching muscle (M. complexus) and shows how GDF7 impacts development leading to reduced hatching rates in Na chickens.

Results
Using 12 chicken embryos (6 x wildtype (Wt) and 6 x Na) RNA was extracted from the M. complexus of each embryo and sequenced. The resulting differential expression analyses led to the discovery of 461 differentially expressed (DE) genes in the M. complexus of the experimental group. Among those, 77 genes were of uncertain function (LOC symbols), with 31 were classified as uncharacterised. The regulation of a number of pathways involved in normal embryonic development, were found to be negatively influenced by the Na genotype. Further pathways involved in cell-cell adhesion, cell signalling pathways, and amino acid (AA) metabolism/transport were also observed. GDF7 (alias BMP12), whose localised overexpression in the neck skin causes the Na/Na phenotype, was significantly overexpressed in the M. complexus of Na/Na embryos, and shows a significant increase in the number of binding sites for the transcription factor PITX2 was also observed.

Conclusion
In Na chickens, GDF7 is under the control of a mutated cis-regulatory element, whose actions are known to suppress the development and distribution of feathers through the sensitizing action of retinoic acid. In this study, a number of DE genes with over 10 retinoic acid response elements (RAREs) in close proximity were observed, indicating changes to the retinol metabolism. With the understanding that the Na/Na mutation leads to increased retinoic acid activity, this indicates a high likelihood of GDF7 excerpting a direct pleiotropic effect, not just in the observed reduction in feather patterning, but also impacting the development of the M.complexus, and consequently leading to the reduced hatchability observed in birds with the Na/Na genotype.
Furthermore, the enrichment of PITX2 binding sites in proximity to DE genes in the M. complexus, also indicates that muscle development is still ongoing in Na embryos. This suggests that the M. complexus is not yet fully developed, further increasing the potential for late embryonic mortality in Na chicks at hatching.
Association of frailty with functional difficulty in older Ghanaians: stability between women and men in two samples with different income levels
Authors: Asiamah Nestor , Danquah Emelia , Vieira Edgar Ramos , Hjorth Peter , Jnr Reginald Arthur-Mensah , Agyemang Simon Mawulorm , Khan Hafiz T. A. , Yarfi Cosmos , Muhonja Faith 
Published: November 2024

Abstract
Background
Research to date suggests that frailty is higher in women and is associated with functional difficulty. This study builds on the evidence by examining the association between frailty and functional difficulty between low- and higher-income groups and between older men and women in these income groups.

Methods
This study adopted a cross-sectional design that complied with the STROBE checklist and included steps against confounding and common methods bias. The population was community-dwelling older adults aged 50 years or older in two urban neighbourhoods in Accra, Ghana. Participants were either in the low-income group in a low socioeconomic neighbourhood (n = 704) or the higher-income group in a high socioeconomic neighbourhood (n = 510). The minimum sample necessary was calculated, and the hierarchical linear regression analysis was utilised to analyse the data.

Results
Frailty was positively associated with functional difficulty in the low- and higher-income samples, but this association was stronger in the higher-income sample. Frailty was positively associated with frailty in men and women within the low- and higher-income samples.

Conclusion
The association of frailty with functional difficulty was consistent between low- and higher-income samples, although the strength of the relationship differed between these samples. In both income samples, the foregoing relationship was consistent between men and women, although the strength of the relationship differed between men and women.
Reliability of ultrasound assessment of the rectus femoris muscle thickness: intra-rater, inter-rater, and inter-day analysis accounting for age and sex
Authors: Stausholm Martin Bjørn , da Silva Katielle Rodrigues , Inácio Pedro Augusto , de Sá Filho Alberto Souza , Lopes-Martins Pedro Sardinha Leonardo , Bjordal Jan Magnus , Leonardo Patrícia Sardinha , Lopes-Martins Rodrigo Alvaro B. 
Published: November 2024

Abstract
Background
The rectus femoris muscle plays an important role in maintaining lower limb stability and biomechanical control during basic physical activities. Both reduced quadriceps strength and decreased muscle thickness of the rectus femoris, as measured by ultrasound, are associated with an increased risk of falls in older adults. We estimated the relative and absolute intra-rater, inter-rater, and inter-day reliability of the procedure.

Methods
A female biologist and a male physical educator, both holding a master’s degree in human movement and rehabilitation, captured ultrasound images of the right rectus femoris muscle in 106 healthy participants (58 females and 48 males), aged 18 to 73 years. Each rater captured three images per participant during each visit, with two visits 7 to 10 days apart. A third person subsequently measured the muscle thickness. We calculated the Intraclass Correlation Coefficients (ICC) using a two-way random model and determined the 95% minimal detectable difference (MDD).

Results
The mean muscle thickness was 2.12 cm. The reliability based on single measurements was as follows: the intra-rater ICC for raters A and B was 0.998 at both visits (MDDs: 0.074–0.082 cm). The inter-rater ICC was 0.976 at visit 1 and 0.977 at visit 2 (MDDs: 0.269–0.270 cm). The inter-day ICC was 0.973 for rater A and 0.972 for rater B (MDDs: 0.286–0.291 cm). Sensitivity analyses accounting for age, sex, and the use of mean measurements produced similar results. The results were homoscedastic.

Conclusions
The rectus femoris muscle thickness was measured with good reliability using ultrasonography across all the settings.
Mucinous adenocarcinoma in kidneys with developmental anomalies - a report of two cases
Authors: Gali Kasi Viswanath , Chawla Arun , Surag K. R. , Bhaskara Sunil Pillai , Hegde Padmaraj 
Published: November 2024

Abstract
Background
Primary mucinous adenocarcinomas of the kidney are rare and pose a challenge for preoperative diagnosis. The histogenesis of these tumours remains largely unknown, with three proposed theories: chronic irritation, differentiation of celomic epithelium, and kidney maldevelopment. Here, we present two cases of renal mucinous adenocarcinoma in patients with developmental renal anomalies, specifically a duplex collecting system and a horseshoe kidney.

Case Presentation
First, A 50-year-old male presented with loin pain and jelly-like discharge in urine with a duplex collecting system and gross hydronephrosis of the upper moiety on imaging. The patient underwent upper polar nephrectomy with controlled drainage of 1.5 L of mucinous fluid. Histopathology was suggestive of mucinous borderline cystic neoplasm with invasive microcarcinoma. The patient presented one year later, with a hydronephrotic lower moiety of the left kidney and a rectus abdominis mass. Fine needle aspiration biopsy of the mass revealed papillary adenocarcinoma with histological resemblance to the renal pelvis lesion, establishing it as a metastasis from the primary renal malignancy. Second, A 53-year-old male who had undergone right laparoscopic cyst deroofing for a symptomatic renal cyst, whose postoperative histology revealed findings consistent with mucinous adenocarcinoma, presented with flank pain and palpable retroperitoneal mass. Imaging revealed a horseshoe kidney morphology with a large multilobulated hypodense non-enhancing cystic lesion arising from the right kidney. Cyst excision with right open radical nephrectomy was performed. Gross examination revealed multiple cystic spaces replacing renal parenchyma, filled with gelatinous material. Microscopy was suggestive of recurrent mucinous adenocarcinoma.

Conclusions
Renal mucinous cystadenocarcinomas can be associated with anomalous kidneys. Definitive diagnosis relies on histopathology, and these tumours are recognized for their aggressive nature. Complete resection is the preferred treatment, but further studies are needed to assess the efficacy of adjuvant treatment, given the poor prognosis and high likelihood of recurrence.

Clinical trial number
Not applicable.
Effect of oxyresveratrol under in vitro lipopolysaccharide-induced periodontitis environment
Authors: Ye Ju Ri , Park Seung Hwan , Kang Sang Wook , Kwack Kyu Hwan , Chae Yong Kwon , Lee Hyo-Seol , Choi Sung Chul , Nam Ok Hyung 
Published: November 2024

Abstract
Background
Oxyresveratrol is the main constituent of mulberries and has many bioactive properties beneficial to human health. The purpose of this study was to assess the anti-inflammatory effects of oxyresveratrol on in vitro periodontitis model.

Methods
Human periodontal ligament cells were treated with oxyresveratrol (0, 10, and 20 µg/mL) for 72 h. Cell viability and flow cytometry assays were performed. To investigate anti-inflammatory effect of oxyresveratrol on periodontal inflammation, nitric oxide production under lipopolysaccharide stimulation was assessed. Next, expression of biomarkers associated periodontal inflammation was evaluated. Scratch wound assay was performed to evaluate cell migration/proliferation potential of oxyresveratrol under lipopolysaccharide stimulation.

Results
Periodontal ligament cell toxicity was not observed in oxyresveratrol treatment. Oxyresveratrol treatment significantly inhibited nitric oxide production and reduced MMP-2, MMP-9, TNF-α, IL-6, and IL-8 expressions after lipopolysaccharide stimulation. Regarding cell migration/proliferation, open wound area in oxyresveratrol (33.28 ± 6.80%) was the lowest (p < 0.05).

Conclusions
Within the limits of this study, oxyresveratrol inhibited lipopolysaccharide-induced inflammation in periodontal ligament cells and promoted periodontal ligament cell migration/proliferation. These findings suggest that oxyresveratrol could be valuable for the management of periodontal diseases.
Microstomia is associated with functional impairment and is a poor prognostic factor in systemic sclerosis – a single center observational study with survival analysis
Authors: Filipánits Kristóf , Nagy Gabriella , Varjú Cecília , Czirják László , Minier Tünde 
Published: November 2024

Abstract
Background
Objectives were to assess the mouth opening ability (MOA) among patients with systemic sclerosis (SSc) in comparison to a healthy control population. The impact of microstomia (decrease in any of the MOA parameters) on physical performance and long-term survival was also investigated.

Methods
Interincisal (ID), interlabial (LD), the intercommissural distances at both opened mouth and closed mouth (OW, CW) and the oral area (OA) and circumference (OC) all were assessed in 131 SSc patients. Microstomia was defined based on the oral aperture values of a healthy control group (n = 63) with similar median age and sex distribution. Tests evaluating functional performance were performed. Survival analysis by univariate and multivariate Cox regression analysis was performed.

Results
Microstomia was present in 56.5% of the entire SSc cohort. Patients with microstomia had higher number of contractures compared to those with preserved oral aperture parameters (median 10 vs. 7, p < 0.01). LD, OA and OC correlated negatively with the number of joint contractures, both in the entire SSc cohort and separately in the diffuse (dcSSc) and limited cutaneous subsets (lcSSc), (rho: between − 0.267 and − 0.516, p < 0.05). Reduced ID was associated with worse Health Assessment Questionnaire Disability Index (HAQ-DI) only in dcSSc while reduced LD was linked to increased HAQ-DI scores in both SSc subsets. Decreased OA upon enrollment was associated with an increased risk in mortality by multivariate Cox regression analysis (HR: 2.74; 95% CI, 1.15–6.53).

Conclusions
Microstomia was associated with joint damage, and higher overall disability based on HAQ-DI. Interlabial distance was a beneficial, convenient measurable parameter to characterize oral aperture. Oral area was an independent poor prognostic factor regarding long-term survival.