bluuebunny/crossref_metadata_2025_split huggingface dataset:
Insulin Inertia Among Type 2 Diabetes Patients In Qatar- The INERT-Q study
Authors: Bashir Mohammed , Thani Noora Al , Abdalrubb Abeer , Salameh Obada , Al-Amer Zaina , Hamad Mohammad Khair , Karuppasamy Gowri , Abufaeid Mohamad , Elbidairi Mutwakil , Al-Mohannadi Dabia , Elhadd Tarik , Zirie Mahmoud 
Published: April 2023

Abstract
Background: - Diabetes-related complications result from cumulative exposure to hyperglycemia. Hence, achieving and maintaining adequate glycaemic control is critical. Insulin is a necessary treatment in DM-2 patients who did not achieve glycaemic targets on oral agents. Inertia in starting insulin has been reported in many populations.
Aim:- To assess the degree of inertia related to insulin initiation and intensification in patients with DM-2.
Methods:- We performed a retrospective longitudinal cohort study and followed DM-2 two years before and two years after the start of insulin. The primary outcome was the proportion of patients who achieved glycaemic targets ( HbA1c ≤ 7.5%) at 6 months, 1 year and 2 years.
Results:- We included 374 patients who were predominantly males (62%). The mean age was 55.3 ± 11.3 years, the mean duration of DM-2 was 12.0 ± 7.3 years, the mean age of DM-2 onset was 41.2 ± 9.6 years, 64.4 % were obese,47.6% had a microvascular disease, and 24.3% had a macrovascular disease. The mean HbA1c at (-2 years) and (-1 year) were 9.2±2.1% and 9.3±2.0%, respectively. The mean HbA1c at the time of insulin initiation was 10.4 ±2.1%. The mean HbA1c at 6,12 months and 2 years was 8.5±1.8% %, 8.4±1.8% % and 8.5±1.7%, respectively. The proportion of patients who achieved HbA1c targets at 6, 12 months and 2 years were 32.9%, 31.0%, and 32.9%. According to the multivariate regression analysis ; for every unit increase in BMI, HbA1c at (-1 year), and HbA1c at the start of inulin , the HbA1c levels at 6 months increase by 0.05% (p 0.023), 0.17% (p0.017), and 0.19% (p=0.011), respectively; while it is reduced by 0.03% (p=0.013).for every 1-year increase in the age of DM-2 onset. Multivariate logistic regression analysis showed that the achieving HbA1c targets at 6 months and 1 year increases the odds of achieving HbA1c targets at 2 years ; (OR 4.87(2.4-9.6) p<0.001) and ( OR 6.2 (3.2-12.0), p<0.001) respectively.
Conclusion: - In patients with DM-2, there was an alarming delay in starting and titrating insulin. The reduction in HbA1c plateaued at 6 months. Earlier initiation and intensification of insulin therapy are critical to achieving glycaemic targets. More studies are needed to examine the causes of therapeutic inertia from physicians, patients, and systems point of view.
Parkinson’s disease-related lncRNA PINK1-AS advances glioma oncogenesis by regulating the YAP1-Hippo signaling pathway
Authors: Sun Jin-Xing , Li Zhen-Ke , Wang Xu , Zhang Chao , Li Wei-Guo 
Published: April 2023

Abstract
Background Epidemiological studies have demonstrated a higher incidence of gliomas in patients with Parkinson’s disease (PD). However, the underlying molecular mechanisms remain unclear, and insights into why and how patients with PD are susceptible to glioma are essential for advancing novel therapeutic approaches for both diseases. Therefore, we investigate the function of PD-related lncRNA PINK1-AS in glioma progression.Methods The expression of the long non-coding PTEN-induced kinase 1 antisense RNA gene (PINK1-AS) in PD and glioma tissues and cells was characterized by quantitative reverse transcription polymerase chain reaction. The efficacy of PINK1-AS knockdown in glioma cell lines was evaluated by assessing cell proliferation, migration, and cell cycles. In addition, experimental xenografts were administered to nude mice to evaluate the effect of PINK1-AS on gliomas. To establish the relationship between the PINK1-AS, miR-200a, and yes-associated protein 1 (YAP1) genes, RNA immunoprecipitation, RNA probe pull-down, luciferase reporter, and fluorescence in situ hybridization assays were performed.Results PINK1-AS expression was anomalously elevated in PD, glioma tissues, and cell lines compared to normal brain tissue, and the overall survival time was reduced in patients with glioma with high PINK1-AS expression. PINK1-AS knockdown remarkably suppressed glioma metaplasia, including cell promotion, metastasis, and aggression in vitro and xenograft tumor generation in vivo. Furthermore, PINK1-AS targeted miR-200a, and miR-200a inhibition inverted the virulent features of PINK1-AS knockdown on glioma cells. Specifically, PINK1-AS may serve as a competing endogenous RNA that effectively functions as a pool for miR-200a, thereby de-repressing YAP1.Conclusions PINK1-AS is a key inhibitor of the Hippo signaling pathway by inhibiting miR-200a, and targeting PINK1-AS may be a novel therapeutic strategy for patients with glioma, especially those with PD.
Identification of patients with nonischemic dilated cardiomyopathy at risk of malignant ventricular arrhythmias: insights from cardiac magnetic resonance feature tracking
Authors: Ma Hai-Yan , Xie Guang-You , Tao Jian , Li Zong-Zhuang , Liu Pan , Zheng Xing-Ju , Wang Rong-Pin 
Published: April 2023

Abstract
Background: Patients with nonischemic dilated cardiomyopathy (NIDCM) are prone to arrhythmias, and the cause of mortality in these patients is either end-organ dysfunction due to pump failure or malignant arrhythmia-related death. However, identification of patients with NIDCM at risk of malignant ventricular arrhythmias (VAs) is challenging in clinical practice. The aim of this study was to evaluate whether Cardiovascular magnetic resonance feature tracking (CMR-FT) may help in identification of patients with NIDCM at risk of malignant VAs.
Methods: 263 NIDCM patients who underwent both CMR, 24-hour Holter electrocardiography (ECG) and inpatient ECG were retrospectively evaluated. The patients with NIDCM were divided into two subgroups: NIDCM with VAs and NIDCM without VAs. From CMR-FT, the global peak radial strain (GPRS), global longitudinal strain (GPLS), and global peak circumferential strain (GPCS) were calculated respectively from left ventricle (LV) model. We investigated the possible predictors of NIDCM combined with VAs by univariate and multivariate logistic regression analyses.
Results: The percent LGE (15.51±3.30 vs. 9.62±2.18, P<0.001) was higher in NIDCM patients with VAs than in NIDCM patients without VAs. Furthermore, the NIDCM patients complicated with VAs had significantly lower GPCS compared with the NIDCM patients without VAs (P< 0.05). Subgroup analysis based on LGE negative, the NIDCM patients complicated with VAs had significantly lower GPRS,GPCS,GPLS compared with the NIDCM patients without VAs (P<0.05 for all). Multivariate analysis showed that both GPCS and % LGE were independent predictors of NIDCM combined with VAs.
Conclusions: CMR global strain can early differentiate of NIDCM patients complicated with VAs specifically when LGE was not present. GPCS < −13.19% and % LGE > 10.37% are independent predictors of NIDCM combined with VAs.
Cuproptosis-associated lncRNA signature for colon cancer prognosis and immune microenvironment analysis
Authors: Ma Shanbo , Zhang Rui , Wang Jin , Li Long , Miao Shan , Quan Wei , Chen Fangyao , Yang Zhao , Shi Xiaopeng 
Published: April 2023

Abstract
Background Cuproptosis is a novel method of modulating cell death that regulates tumorigenesis and progression processes. Cuproptosis-associated lncRNAs (CALs) are not clearly understood in colon cancer (CC). Furthermore, it is currently unknown how CALs affect prognosis and how they relate to the immune microenvironment of CC. Our study investigated the potential prognostic value of CALs and their association with immune microenvironments in CC patients.Methods The RNA of CC patients was sequenced, and medical data were retrieved from The Cancer Genome Atlas (TCGA) portal. A total of 446 participants were randomly assigned to the training and testing cohorts. The Pearson correlation analysis was used to recognize CALs. To choose significant markers in the training cohort, we used univariate regression with the LASSO method, followed by multivariate Cox regression analysis to develop the final prediction model. Therefore, we developed a predictive model based on the cuproptosis signature. The performance of the proposed model was assessed using the receiving operating characteristic (ROC) analysis. We also investigated the relationship between this signature and medication susceptibility, somatic mutations, and immunological infiltration.Results CC patients were divided into two risk cohorts using a 5-CAL signature; the patients in the elevated-risk cohort exhibited a poorer prognosis. The ROC analysis revealed the predictive accuracy of the developed risk model. We also detected variations in immune cell infiltration between the two cohorts, such as CD8 + T cells, regulatory T cells, and M0 and M1 macrophages. The high-risk cohort also exhibited lower IC50 values for several chemotherapy drugs.Conclusion We recognized a novel CAL signature that accurately predicts the prognosis of CC patients. CALs may be therapeutic targets for CC and may have a function in the antitumor immune system.
Assessing the causality of IFN-γ and IFN-γ receptor 1/2 with systemic lupus erythematosus risk using genetic data
Authors: Li Xiao-Dong , Yao Kai-Xin , Hao Jia-Wei , Long Yin-Qi , Qiao Lu-Lin , Zhang Ya-Ru , Ma Ke-Xin , Zhang Sheng-Xiao , Li Xiao-Feng 
Published: April 2023

Abstract

Background The interferon-gamma (IFN-γ) signaling pathway is activated in Systemic lupus erythematosus (SLE). This study aims to assess the causal association between IFN-γ, IFN-γR1, and IFN-γR2 and SLE within a bidirectional Mendelian-randomization design.Methods Genetic instruments of exposure to IFN-γ, IFN-γR1, and IFN-γR2 were derived from the large genome-wide association study (GWAS), including 3,301 sample size. Instrumental variables for SLE were selected from another independent GWAS analysis comprising 7,219 cases and 15,991 controls with European ancestry. Bi-directional two-sample MR was performed using inverse variance weighting (IVW), MR-Egger regression, and weighted median methods. A series of sensitivity analyses were conducted to assess the robustness of the results.Results The IVW showed IFN-γ had a positive causal association with the risk of SLE [OR 1.24 (95% CI 0.85, 2.26), P = 0.018]. IFN-γR2 was found to have a negative correlation with the onset of SLE [OR 0.85 (95% CI 0.73, 0.99), P = 0.034]. However, no genetic association was detected between IFN-γR1 and SLE [OR 0.97 (95% CI 0.79, 1.19), P = 0.768]. Evidence from bidirectional MR did not support reverse causality. Weighted median regression also showed directionally similar estimates.Conclusion Higher levels of IFN-γ or lower levels of IFN-γR2 are significantly associated with an increased risk of SLE, providing insights into the pathogenesis of SLE.
A Self-adaptive Algorithm with Multi-step Inertia for Solving Convex Bilevel Optimization Problems
Authors: Duan Peichao , Li Huan 
Published: April 2023

Abstract
In this paper, we propose an adaptive algorithm with multi-step inertia for solving a convex bilevel optimization problem. Under suitable parameter conditions, we prove that our algorithm converges strongly to some solution of the problem, which is the unique solution of some variational inequality problem. The effectiveness of the proposed algorithm is verified by numerical experiments and compared with other algorithms.
2010 Mathematics Subject Classification 47H09, 47H10, 65K10, 90C25.
Unconventional Wear Characteristics Due to Perfect Plasticity in Laser Powder Bed Fusion Processed 316L Stainless Steel
Authors: Ara Ismat , Tangpong Xiangqing Annie , Azarmi Fardad 
Published: April 2023

Abstract
Laser powder bed fusion (LPBF) is a metal additive manufacturing technology that is capable of printing metals and alloys with high quality. This study investigates wear characteristics of LPBF processed 316L stainless steel and its correlation to the hardness and microstructure of the materials. The wear properties of LPBF specimen and hot rolled 316L stainless steel were compared. From the analysis of wear characteristics of the samples, it was observed that the results were not consistent with the prediction of Archard’s empirical equation. The LBPF processed samples with higher hardness exhibited lower wear resistance compared to the conventionally processed (hot rolled) samples. This study aimed at addressing such phenomenon by understanding the plasticity in those samples. Unconventional plastic deformation in LPBF 316L samples with negligible work-hardening was observed which was believed to be the main reason for their lower wear resistance compared to conventionally processed samples.
Cbp1-Cren7 chromatinization of CRISPR arrays favours transcription from leader- over cryptic promoters
Authors: Werner Finn , Blombach Fabian , Sýkora Michal , Case Jo , Feng Xu , Baquero Diana , Fouqueau Thomas , Phung Duy Khanh , Barker Declan , Krupovic Mart , She Qunxin 
Published: April 2023

Abstract
CRISPR arrays form the physical memory of CRISPR adaptive immune systems by incorporating foreign DNA as spacers that are often AT-rich and derived from viruses. As promoter elements such as the TATA-box are AT-rich, CRISPR arrays are prone to harbouring cryptic promoters. Sulfolobales harbor extremely long CRISPR arrays spanning several kilobases, a feature that is accompanied by the CRISPR-specific transcription factor Cbp1. Aberrant Cbp1 expression modulates CRISPR array transcription, but the molecular mechanisms underlying this regulation are unknown. Here, we characterise the genome-wide Cbp1 binding at nucleotide resolution and characterise the binding motifs on distinct CRISPR arrays, as well as on unexpected non-canonical binding sites associated with transposasons. Cbp1 recruits Cren7 forming together ‘chimeric’ chromatin-like structures at CRISPR arrays. We dissect Cbp1 function in vitro and in vivo and show that the third HTH domain is responsible for Cren7 recruitment, and that Cbp1-Cren7 chromatinization plays a dual role in the transcription of CRISPR arrays. It suppresses spurious transcription from cryptic promoters within CRISPR arrays but enhances CRISPR RNA transcription directed from their cognate promoters in their leader region. Our results show that Cbp1-Cren7 chromatinization drives the productive expression of long CRISPR arrays.
UBA3 is a potential diagnostic marker and regulates the proliferation and migration in intrahepatic cholangiocarcinama
Authors: Zhang Huhu , Yang Jiahua , Yang Lina 
Published: April 2023

Abstract
Background: Intrahepatic cholangiocarcinoma (ICC) accounts for about 15% of primary liver cancer, and the incidence rate has been rising in recent years. Surgical resection is the best treatment for ICC, but the 5-year survival rate is less than 30%. ICC signature genes are crucial for the early diagnosis of ICC, so it is especially important to find its signature genes. The aim of this study is to investigate the relationship between ICC signature genes and its proliferation, invasion and migration.
Methods: We screened the ICC dataset from GEO and analyzed the differentially expressed genes (DEGs). Functional enrichment analysis was performed on these DEGs. Weighted gene expression network analysis (WCGNA) was used to screen for key modules. Then, LASSO, SVM-RFE and Random forest analysis were applied to identify the signature genes. Gene set enrichment analysis (GSEA) was then used to explore the signaling pathways associated with the central genes. Finally, cell viability, invasion and migration were assessed using CCK8, wound healing, transwell and western blotting.
Results: A total of 781 DEGs were screened from GSE33327 by WGCNA clustering into 9 modules, with the Magenta module (cor= -0.38, p<0.0001) and Midnightbluem module (cor=0.35, p<0.0001) effects significantly correlated with ICC. LASSO, SVM-RFE and Random forest were used to algorithmically select the trait genes, including TOM1 and UBA3. The receiver operating characteristics curve (ROC) for these trait genes was 0.725 and 0.755, respectively, and TOM1 (p>0.05) was therefore discarded in the rank sum test. GSEA analysis showed a positive correlation between UBA3 and MAPK signaling pathway, which was validated by correlation experiments.
Conclusions: UBA3 has been screened by bioinformatics methods for the early diagnosis of ICC. In addition, we also explored the effect of UBA3 knockdown on the proliferation and migration of ICC through MAPK signaling pathways. UBA3 provides a new perspective for the study of ICC.
Identification of a Microbial-Related Gene Signature Indicative of Disease Prognosis in Cervical Cancer
Authors: Qi Yue , Li Xuanyan , Zhang Wenwen , Li Xinyu , Qu Pengpeng 
Published: April 2023

Abstract
Cervical cancer(CC) is the fourth most common female malignancy and the fourth leading cause of cancer death worldwide. There is an urgent need to study the underlying mechanisms of the malignant biological behavior of CC, identify new prognostic markers, and develop individualized treatment strategies to improve the survival rate of patients with CC. Much research in recent years suggested that cervical cancer was directly linked to the makeup of the vaginal microbiota and HPV infection. Firstly, we examined the relationship between microbes and the transcriptome in the development of CC. Secondly, we compared and contrasted the microbiota of cancer patients with cervical squamous cell carcinoma and adenocarcinoma (CESC) to determine their similarities and differences. Thirdly, we used correlation analysis to verify the correlation between key genes and microbes and construct a prognostic model. Finally, GO and KEGG enrichment analyses were conducted to reveal potential mechanisms and verified the accuracy by GSE4001.We found that Achromobacter, Natronomonas, and Nafulsella were identified in early and late CC patients. In addition, 16 microbial-related genes were obtained by correlation analysis. The results showed that SALL3 and GABRP had a significant correlation between the three microbes and affect overall survival in CC. The prognostic model constructed by key genes was verified accurately.Achromobacter, Natronomonas, and Nafulsella may play an important role in CC progression. Besides, SALL3 and GABRP may influence oxygen transport and metabolic pathways, which affect tumor outcome and prognosis. We hope our study could provide a theoretical reference for further research on the mechanism of the microbial influence on transcriptome genes in the progression of CC.
A New Water Management Evaluation Model – A Part of Water Stewardship for Oil and Gas Operators
Authors: Li Huishu , Carlson Finlay , Hanif Asma , Zier Josh , Carlson Kenneth 
Published: April 2023

Abstract
The rise of the unconventional oil and gas (UOG) industry over the last two decades has transformed the domestic energy outlook but raised concerns over environmental impacts. With the evolution of Environmental Social Governance (ESG) reporting allowing for a transparent view of oilfield operations, the evaluation of corporate sustainability has become increasingly feasible. Even with increased reporting, there have been very few quantifiable metrics for sustainable water management practices in the UOG industry due to the focus being primarily on methane emissions in recent years. This study aims to provide a practical, quantitative, and concise method (Quadrant Plot) to visualize the different categories of water management strategies and understand how the different operators across diverse basins meet these challenges. Case studies using these metrics with operator-derived data are discussed based on both public and private data for over 20 UOG operators.
Identification and prediction of G-quadruplex RNA-binding proteins with roles in transcription and phase separation
Authors: Tartaglia Gian Gaetano , Armaos Alexandros , Luige Johanna , Ørom Ulf 
Published: April 2023

Abstract
RNA-binding proteins are central for many biological processes and their large-scale identification has demonstrated a broad range of functions. RNA G-quadruplexes are important regulatory elements occurring in both coding and non-coding transcripts, yet our knowledge of their structure-based interactions is at present limited. Here, starting from theoretical predictions, we show experimentally that many chromatin-binding proteins bind to RNA G-quadruplexes, and we classify them based on their RNA G-quadruplex-binding potential. Combining experimental identification of nuclear RNA G-quadruplex-binding proteins with computational approaches, we build a prediction tool that assigns probability score for a protein to bind RNA G-quadruplexes. We show that predicted G-quadruplex RNA-binding proteins exhibit high degree of protein disorder and hydrophilicity and suggest involvement in both transcription and phase-separation into membrane-less organelles, particularly the nucleolus. Finally, we present this tool as a web application for estimating RNA G4-binding propensity for proteins of interest at http://service.tartaglialab.com/new_submission/clever_G4_classifier.
Human granulosa cells of poor ovarian responder patients display telomeres shortening
Authors: Yung Yuval , Maydan Sharon Avhar , Bart Yossi , Orvieto Raoul , Aizer Adva 
Published: April 2023

Abstract
Background Ovarian follicles consist of oocytes and granulosa cells that control oocyte growth and maintain follicular development, which is essential for ovarian functioning. In the present study we aimed to compare the telomere length in granulosa cells of the young normal and poor ovarian responder patients and elderly patients undergoing ovarian stimulation for IVFMethods The main outcome measures granulosa cells telomere Length in the 3 study groups of patients undergoing IVF treatment in our center. 1) young normal responder patients (20–34 years); 2) young (20–34 years) poor ovarian responder patients; and 3) Elderly patients (40–45 years). Granulosa cells were obtained at the time of oocyte retrieval. Granulosa cells telomere length was assessed by absolute human telomere length quantification qPCR AssayResults The telomere length of the young normal responder was significantly longer as compared to young poor ovarian responder (15.5 vs 9.6 KB, p < 0.001) and the elderly patients (15.5 vs 10.66 KB, p < 0.002). No significant difference was observed in the telomere length between the young poor ovarian responder and the elderly patients.Conclusions Granulosa cells telomere length of the young normal responder was found to be significantly longer than young poor ovarian responder or elderly patients, highlighting the role of telomere length as a predictor, or contributor to poor oocyte yield following IVF treatment. Future research should therefore focus on strategies aiming to lengthen telomeres with the possible improvement of IVF outcomes in poor ovarian responder patients.