bluuebunny/crossref_metadata_2025_split huggingface dataset:
Correlation Between Monocyte to High-Density Lipoprotein Cholesterol Ratio, Blood Flow-Mediated Dilation, and Arteriosclerosis in Young and Middle-Aged Patients With Essential Hypertension
Authors: Honghong Lu , Lijuan Xie , Qinghang Wang , Bi-rong Zhou 
Published: October 2023

Abstract

OBJECTIVE
To investigate the relationship between monocyte to high-density lipoprotein cholesterol ratio (MHR), flow-mediated dilation (FMD), and arteriosclerosis in young and middle-aged patients with essential hypertension (EH).

METHODS
A total of 188 young and middle-aged patients with EH admitted to the Department of Cardiovascular Medicine of the First Affiliated Hospital of Anhui Medical University from August 2020 to August 2022 were enrolled. The clinical data, laboratory results, and brachial ankle pulse wave velocity (baPWV) and FMD of all patients were collected. According to baPWV, patients were divided into non-arteriosclerosis group (baPWV &lt;1,400 cm/s, n = 43), mild arteriosclerosis group (baPWV 1,400 to &lt;1,700 cm/s, n = 100), and moderate to severe atherosclerosis group (baPWV 1,700 to &lt;2,000 cm/s, baPWV ≥2,000 cm/s, n = 45). The differences of body mass index, fasting blood glucose, blood lipid, FMD, MHR, hypersensitive C-reactive protein (hsCRP), systolic blood pressure, diastolic blood pressure, monocyte, and other indicators were compared. Spearman correlation analysis was used to analyze the correlation between all variables and baPWV. Multivariate logistic regression analysis was used to analyze the influencing factors of arteriosclerosis in young and middle-aged patients with EH.

RESULTS
MHR of non-atherosclerosis, mild, and moderate to severe atherosclerosis groups were 0.29 (0.22–0.42), 0.36 (0.27–0.49), and 0.52 (0.43–0.62) 109/mmol, respectively. The difference was statistically significant (H = 33.803, P &lt; 0.05). The FMD of non-atherosclerosis, mild, and moderate to severe atherosclerosis groups were (6.0 ± 1.9)%, (4.9 ± 1.6)%, and (3.5 ± 1.8)%, respectively. The difference was statistically significant (F = 24.239, P &lt; 0.05). Spearman correlation analysis showed that MHR was positively correlated with baPWV (r = 0.39, P &lt; 0.001), and FMD was negatively correlated with baPWV (r = −0.47, P &lt; 0.001). Multivariate logistic regression analysis showed that MHR, FMD, systolic blood pressure, and age were independent influencing factors for arteriosclerosis in in young and middle-aged EH patients, odds ratio (95% CI) was 45.874 (2.140–983.243), 0.763 (0.587–0.991), 1.068 (1.016–1.123), and 1.075 (1.038–1.113), respectively; all P &lt; 0.05.

CONCLUSIONS
MHR is positively correlated with the occurrence of arteriosclerosis in young and middle-aged patients with EH, and FMD is negatively correlated with the occurrence of arteriosclerosis, and both are independent influencing factors for arteriosclerosis.
Improving efficiency of fitting Cox proportional hazards models for time-to-event outcomes in genome-wide association studies (GWAS)
Authors: Gebski Val , Silva S Sandun M , Byth Karen , Jenkins Alicia , Keech Anthony 
Published: October 2023

AbstractSummaryTechnologies identifying single nucleotide polymorphisms (SNPs) in DNA sequencing yield an avalanche of data requiring analysis and interpretation. Standard methods may require many weeks of processing time. The use of statistical methods requiring data sorting, matrix inversions of a high-dimension and replication in subsets of the data on multiple outcomes exacerbate these times.A method which reduces the computational time in problems with time-to-event outcomes and hundreds of thousands/millions of SNPs using Cox–Snell residuals after fitting the Cox proportional hazards model (PH) to a fixed set of concomitant variables is proposed. This yields coefficients for SNP effect from a Cox–Snell adjusted Poisson model and shows a high concordance to the adjusted PH model.The method is illustrated with a sample of 10 000 SNPs from a genome-wide association study in a diabetic population. The gain in processing efficiency using the proposed method based on Poisson modelling can be as high as 62%. This could result in saving of over three weeks processing time if 5 million SNPs require analysis. The method involves only a single predictor variable (SNP), offering a simpler, computationally more stable approach to examining and identifying SNP patterns associated with the outcome(s) allowing for a faster development of genetic signatures. Use of deviance residuals from the PH model to screen SNPs demonstrates a large discordance rate at a 0.2% threshold of concordance. This rate is 15 times larger than that based on the Cox–Snell residuals from the Cox–Snell adjusted Poisson model.Availability and implementationThe method is simple to implement as the procedures are available in most statistical packges. The approach involves obtaining Cox-Snell residuals from a PH model, to a binary time-to-event outcome, for factors which need to be common when assessing each SNP. Each SNP is then fitted as a predictor to the outcome of interest using a Poisson model with the Cox-Snell as the exposure variable.
Constructing maps between distinct cell fates and parametric conditions by systematic perturbations
Authors: Tang Ruoyu , He Xinyu , Wang Ruiqi 
Published: October 2023

Abstract

Motivation
Cell fate transitions are common in many developmental processes. Therefore, identifying the mechanisms behind them is crucial. Traditionally, due to complexity of networks and existence of plenty of kinetic parameters, dynamical analysis of biomolecular networks can only be performed by simultaneously perturbing a small number of parameters. Although many efforts have focused on how cell states change under specific perturbations, conversely, how to infer parametric conditions underlying distinct cell fates by systematic perturbations is less clear and needs to be further investigated.

Results
In this article, we present a general computational method by integrating systematic perturbations, unsupervised clustering, principal component analysis, and fitting analysis. The method can be used to to construct maps between distinct cell fates and parametric conditions by systematic perturbations. In particular, there are no needs of accurate parameter measurements and occurrence of bifurcations to establish the maps. To validate feasibility and inference performance of the method, we use toggle switch, inner cell mass, and epithelial mesenchymal transition as model systems to show how the maps are constructed and how system parameters encode essential information on cell fates. The maps tell us how systematic perturbations drive cell fate decisions and transitions, and allow us to purposefully predict, manipulate, and even control cell states. The approach is especially helpful in understanding crucial roles of certain parameter combinations during fate transitions. We hope that the approach can provide us valuable information on parametric or perturbation conditions so some specific targets, e.g. directional differentiation, can be realized.

Availability and implementation
No public data are used. The data we used are generated by randomly chosen values of model parameters in certain ranges, and the corresponding parameters are already attached in supplementary materials.
First-in-human robotic percutaneous coronary intervention by the ROSES robotic system: a case report
Authors: Indolfi Ciro , Polimeni Alberto , De Rosa Salvatore , Danieli Guido 
Published: October 2023

Abstract

Background
Robotic-assisted percutaneous coronary intervention (R-PCI) is increasingly gaining acceptance owing to several advantages.

Case summary
Here, we report the first-in-human R-PCI performed with RObotic System for Endovascular Surgery (ROSES), an innovative robotic system designed to perform transcatheter angioplasty. We have reported a case of severe proximal posterolateral (PL) branch disease of the right coronary artery managed with R-PCI.

Discussion
In this early clinical experience, the use of the ROSES robotic system seems to be safe and effective. However, this report still represents an early feasibility study, and the use of this technology in more challenging anatomies including the presence of severe tortuosity, severe calcification, or interventions requiring multiple wires and balloons needs to be further studied. A larger, prospective, multicentre pivotal clinical trial designed to test the ROSES robotic angioplasty system in a larger number of patients is currently ongoing.
Prevalence and anatomical characteristics of medial-basal segment in right lung
Authors: Zhang Min , Liu Xudong , Ge Mingjian 
Published: October 2023

Abstract

OBJECTIVES
The anatomic features and surgical techniques focusing on the right medial-basal segment (RS7) are few reported. This study aimed to accurately define the new nomenclature and classifications of B7 anatomy, elucidate its prevalence and anatomical characteristics and summarize the surgical outcomes.

METHODS
Between August 2019 and February 2022, 5023 patients were admitted for pulmonary nodules. Their chest computed tomography images were obtained. All of the images were reconstructed in 3 dimensions. The RS7 were screened according to their new definition and statistically analysed for their anatomical characteristics.

RESULTS
The bronchovascular anatomy of S7 can be newly classified into 6 types: B7a type, B7p type, B7o type, B7t type, BX7a type and BX7t type. The B7 anterior to the inferior pulmonary vein (IPV) was B7a (a, anterior) (3617/5023, 72%). The B7 posterior to IPV was B7p (p, posterior) (306/5023, 6.1%). The B7 over IPV was B7o (o, over) (904/5023, 18%). The B7 through IPV was B7t (t, through) (7/5023, 0.14%). An abnormal origin of B7 was named the BX7 type. The BX7 anterior to IPV sharing a common trunk with B8 was named BX7a (a, anterior) (176/5023, 3.5%). The BX7 through IPV originated from B10 and was named BX7t (t, through) (13/5023, 0.26%). 0.2% (12/5023) of patients had the nodules in RS7 and underwent RS7 surgery.

CONCLUSIONS
The variation pattern of B7 is far more complex than expected. The results of this study can help surgeons better understand S7 and perform segmentectomies more accurately.
Emerging tropane alkaloids: Global development and potential health threats
Authors: Wang Zile , Chen Shiqi , Zheng Pimiao , Ren Zhenhui , Zhang Huixia , Zhang Jing , Shao Bing , Wu Congming , Jiang Haiyang 
Published: October 2023

Abstract
Tropane alkaloids (TAs) are a kind of plant secondary metabolite that mainly originate from Solanaceae. They have potent anticholinergic activity, and are well-known anticholinergic drugs, but have also been reported as plant toxins. Many studies have been conducted on TAs, but no scientometric research has been performed. This study aimed to expound the knowledge network and development of the field of TAs and predict the emerging development topics based on bibliometrics. In particular, this research combined VOSviewer and CiteSpace for visualization and covered 1,298 related scientific publications (1953–2022). The research on TAs is rapidly developing, with the participation of 86 countries, 1,129 research institutions, and 4,087 researchers. China, the University of Geneva, and P. Christen are the most productive country, institution, and researcher, respectively. Currently, the main research topics on TAs include biosynthesis, in vitro synthesis, chemical synthesis, and determination methods. Since 2018, the monitoring of TAs in food related to human health has shown citation burst characteristics, which is considered an emerging development trend in the future. The findings of this study will enable researchers to quickly tap into the knowledge background/structure of TAs from massive data to provide a reference for further research.
Effects of thidiazuron on the quality and storage properties of mango fruit during postharvest
Authors: Jiang Tangxin , Luo Cong , Wan Wen , Liang Rongzhen , Lu Tingting , Li Yuze , Xie Fangfang , Chen Canbin , Li Xi , Xie Xiaona , He Xinhua 
Published: October 2023

Abstract
Thidiazuron (TDZ) is used for the expansion of fruits, but excessive levels of TDZ lead to a decline in fruit quality. The appropriate concentration of TDZ for mango expansion without a decline in quality is not clear. In the present study, four different concentrations (5, 10, 15, and 20 mg/L) of TDZ were applied via spraying on mango plants, and several physiological and biochemical indicators were measured. The results showed that TDZ treatment significantly increased mango fruit size and single-fruit weight. In mango fruit, TDZ treatment decreased the disease index, delayed the increase in the malondialdehyde and H2O2 content, and maintained firmness and antioxidant capacities at a relatively high level during postharvest storage. At the same time, TDZ treatment delayed the decrease in the giberellin, indoleacetic acid and jasmonic acid content in mango, and reduced the accumulation of abscisic acid and ethylene. These trends are consistent with TDZ treatment leading to extension of the shelf life of mango. Furthermore, ethylene biosynthesis, signal transduction, and cell wall dismantling-related genes were investigated. The results indicated that the expression of the MiACS, MiETR2, MiERF113, MiERF010, MiERF054, MiEXP, MiPG14, MiPG21, MiCEL, and MiPEL genes in mango was inhibited under TDZ treatment compared with the control. In summary, TDZ treatment can significantly increase the size and weight of mango fruit and can extend its shelf life. The most suitable concentration is 10–15 mg/L TDZ, which will not affect the quality of mango fruit.
Dynamic mRNA expression during chicken ovarian follicle development
Authors: Kui Hua , Li Penghao , Wang Tao , Luo Yingyu , Ning Chunyou , Li Mengmeng , Liu Siying , Zhu Qing , Li Jing , Li Diyan 
Published: October 2023

Abstract
Ovarian follicle development is a complex and well-orchestrated biological process of great economic significance for poultry production. Specifically, understanding the molecular mechanisms underlying follicular development is essential for high-efficiency follicular development can benefit the entire industry. In addition, domestic egg-laying hens often spontaneously develop ovarian cancer, providing an opportunity to study the genetic, biochemical, and environmental risk factors associated with the development of this cancer. Here, we provide high-quality RNA sequencing data for chicken follicular granulosa cells across 10 developmental stages, which resulted in a total of 204.57 Gb of clean sequencing data (6.82 Gb on average per sample). We also performed gene expression, time-series, and functional enrichment analyses across the 10 developmental stages. Our study revealed that SWF (small while follicle), F1 (F1 hierarchical follicles), and POFs (postovulatory follicles) best represent the transcriptional changes associated with the prehierarchical, preovulatory, and postovulatory stages, respectively. We found that the preovulatory stage F1 showed the greatest divergence in gene expression from the POF stage. Our research lays a foundation for further elucidation of egg-laying performance of chicken and human ovarian disease.
Comparison of clinical efficacy between LAPS and ALPPS in the treatment of hepatitis B virus-related hepatocellular carcinoma
Authors: Chen Zebin , Shen Shunli , Xie Wenxuan , Liao Junbin , Feng Shiting , Li Shaoqiang , Tan Jiehui , Kuang Ming 
Published: October 2023

Abstract

Background
Insufficient post-operative future liver remnant (FLR) limits the feasibility of hepatectomy for patients. Staged hepatectomy is an effective surgical approach that can improve the resection rate of hepatocellular carcinoma (HCC). This study aimed to compare the safety and efficacy of laparoscopic microwave ablation and portal vein ligation for staged hepatectomy (LAPS) and classical associating liver partition and portal vein ligation for staged hepatectomy (ALPPS) in the treatment of hepatitis B virus (HBV)-related HCC.

Methods
Clinical data of patients with HBV-related HCC who underwent LAPS or ALPPS in our institute between January 2017 and May 2022 were retrospectively analysed.

Results
A total of 18 patients with HBV-related HCC were retrospectively analysed and divided into the LAPS group (n = 9) and ALPPS group (n = 9). Eight patients in the LAPS group and eight patients in the ALPPS group proceeded to a similar resection rate (88.9% vs 88.9%, P = 1.000). The patients undergoing LAPS had a lower total comprehensive complication index than those undergoing ALPPS but there was not a significant different between the two groups (8.66 vs 35.87, P = 0.054). The hypertrophy rate of FLR induced by ALPPS tended to be more rapid than that induced by LAPS (24.29 vs 13.17 mL/d, P = 0.095). The 2-year recurrence-free survival (RFS) was 0% for ALPPS and 35.7% for LAPS (P = 0.009), whereas the 2-year overall survival for ALPPS and LAPS was 33.3% and 100.0% (P = 0.052), respectively.

Conclusions
LAPS tended to induce lower morbidity and FLR hypertrophy more slowly than ALPPS, with a comparable resection rate and better long-term RFS in HBV-related HCC patients.
Genome-wide association analysis identified molecular markers and candidate genes for flower traits in Chinese orchid (Cymbidium sinense)
Authors: Yang Fengxi , Guo Yudi , Li Jie , Lu Chuqiao , Wei Yonglu , Gao Jie , Xie Qi , Jin Jianpeng , Zhu Genfa 
Published: October 2023

Abstract
The orchid, the champagne of flowers, brings luxury, elegance, and novelty to nature. Cymbidium sinense is a symbol of gigantic floral variability on account of wavering shapes and sizes of floral organs, although marker–trait association (MTA) has not been studied for its floral traits. We evaluated markers associated with 14 floral traits of C. sinense through a genome-wide association study (GWAS) of 195 accessions. A total of 65 318 522 single-nucleotide polymorphisms (SNPs) and 3 906 176 insertion/deletion (InDel) events were identified through genotyping-by-sequencing. Among these, 4694 potential SNPs and 477 InDels were identified as MTAs at −log10 P &gt; 5. The genes related to these SNPs and InDels were largely associated with floral regulators, hormonal pathways, cell division, and metabolism, playing essential roles in tailoring floral morphology. Moreover, 20 candidate SNPs/InDels linked to 11 genes were verified, 8 of which were situated on exons, one was located in the 5′-UTR and two were positioned in introns. Here, the multitepal trait-related gene RABBIT EARS (RBE) was found to be the most crucial gene. We analyzed the role of CsRBE in the regulation of flower-related genes via efficient transient overexpression in C. sinense protoplasts, and found that the floral homeotic genes CsAP3 and CsPI, as well as organ boundary regulators, including CsCUC and CsTCP genes, were regulated by CsRBE. Thus, we obtained key gene loci for important ornamental traits of orchids using genome-wide association analysis of populations with natural variation. The findings of this study can do a great deal to expedite orchid breeding programs for shape variability.
Final report of the phase II NEXT/CNS-GCT-4 trial: GemPOx followed by marrow-ablative chemotherapy for recurrent intracranial germ cell tumors
Authors: Shatara Margaret , Blue Megan , Stanek Joseph , Liu Yin A , Prevedello Daniel M , Giglio Pierre , Puduvalli Vinay K , Gardner Sharon L , Allen Jeffrey C , Wong Kenneth K , Nelson Marvin D , Gilles Floyd H , Adams Roberta H , Pauly Jasmine , O’Halloran Katrina , Margol Ashley S , Dhall Girish , Finlay Jonathan L 
Published: October 2023

Abstract

Background
Patients with relapsed intracranial germinoma can achieve durable remission with standard chemotherapy regimens and/or reirradiation; however, innovative therapies are required for patients with relapsed and/or refractory intracranial nongerminomatous germ cell tumors (NGGCTs) due to their poor prognosis. Improved outcomes have been reported using reinduction chemotherapy to achieve minimal residual disease, followed by marrow-ablative chemotherapy (HDCx) with autologous hematopoietic progenitor cell rescue (AuHPCR). We conducted a phase II trial evaluating the response and toxicity of a 3-drug combination developed for recurrent intracranial germ cell tumors consisting of gemcitabine, paclitaxel, and oxaliplatin (GemPOx).

Methods
A total of 9 patients with confirmed relapsed or refractory intracranial GCT were enrolled after signing informed consent, and received at least 2 cycles of GemPOx, of which all but 1 had relapsed or refractory NGGCTs. One patient with progressive disease was found to have pathologically confirmed malignant transformation to pure embryonal rhabdomyosarcoma (without GCT elements), hence was ineligible and not included in the analysis. Patients who experienced sufficient responses proceeded to receive HDCx with AuHPCR. Treatment response was determined based on radiographic tumor assessments and tumor markers.

Results
A total of 7 patients achieved sufficient response and proceeded with HDCx and AuHPCR, and 5 subsequently received additional radiotherapy. A total of 2 patients developed progressive disease while receiving GemPOx. Myelosuppression and transaminitis were the most common treatment-related adverse events. With a mean follow-up of 44 months, 4 patients (3 NGGCTs, 1 germinoma) are alive without evidence of disease.

Conclusions
GemPOx demonstrates efficacy in facilitating stem cell mobilization, thus facilitating the feasibility of both HDCx and radiotherapy.
Citronellol biosynthesis in pelargonium is a multistep pathway involving progesterone 5β-reductase and/or iridoid synthase-like enzymes
Authors: Martinelli Laure , Bihanic Camille , Bony Aurélie , Gros Florence , Conart Corentin , Fiorucci Sébastien , Casabianca Hervé , Schiets Frédéric , Chietera Giorgiana , Boachon Benoît , Blerot Bernard , Baudino Sylvie , Jullien Frédéric , Saint-Marcoux Denis 
Published: October 2023

Abstract
Citronellol is a pleasant-smelling compound produced in rose (Rosa spp.) flowers and in the leaves of many aromatic plants, including pelargoniums (Pelargonium spp.). Although geraniol production has been well studied in several plants, citronellol biosynthesis has been documented only in crab-lipped spider orchid (Caladenia plicata) and its mechanism remains open to question in other species. We therefore profiled 10 pelargonium accessions using RNA sequencing and gas chromatography-MS analysis. Three enzymes from the progesterone 5β-reductase and/or iridoid synthase-like enzymes (PRISE) family were characterized in vitroand subsequently identified as citral reductases (named PhCIRs). Transgenic RNAi lines supported a role for PhCIRs in the biosynthesis of citronellol as well as in the production of mint-scented terpenes. Despite their high amino acid sequence identity, the 3 enzymes showed contrasting stereoselectivity, either producing mainly (S)-citronellal or a racemate of both (R)- and (S)-citronellal. Using site-directed mutagenesis, we identified a single amino acid substitution as being primarily responsible for the enzyme's enantioselectivity. Phylogenetic analysis of pelargonium PRISEs revealed 3 clades and 7 groups of orthologs. PRISEs from different groups exhibited differential affinities toward substrates (citral and progesterone) and cofactors (NADH/NADPH), but most were able to reduce both substrates, prompting hypotheses regarding the evolutionary history of PhCIRs. Our results demonstrate that pelargoniums evolved citronellol biosynthesis independently through a 3-step pathway involving PRISE homologs and both citral and citronellal as intermediates. In addition, these enzymes control the enantiomeric ratio of citronellol thanks to small alterations of the catalytic site.