bluuebunny/crossref_metadata_2025_split huggingface dataset:
Chromosome-scale genome of the human blood fluke Schistosoma mekongi and its implications for public health
Authors: Zhou Minyu , Xu Lian , Xu Dahua , Chen Wen , Khan Jehangir , Hu Yue , Huang Hui , Wei Hang , Zhang Yiqing , Chusongsang Phiraphol , Tanasarnprasert Kanthi , Hu Xiang , Limpanont Yanin , Lv Zhiyue 
Published: November 2023

Abstract
Background
Schistosoma mekongi is a human blood fluke causing schistosomiasis that threatens approximately 1.5 million humans in the world. Nonetheless, the limited available S. mekongi genomic resources have hindered understanding of its biology and parasite-host interactions for disease management and pathogen control. The aim of our study was to integrate multiple technologies to construct a high-quality chromosome-level assembly of the S. mekongi genome.

Methods
The reference genome for S. mekongi was generated through integrating Illumina, PacBio sequencing, 10 × Genomics linked-read sequencing, and high-throughput chromosome conformation capture (Hi-C) methods. In this study, we conducted de novo assembly, alignment, and gene prediction to assemble and annotate the genome. Comparative genomics allowed us to compare genomes across different species, shedding light on conserved regions and evolutionary relationships. Additionally, our transcriptomic analysis focused on genes associated with parasite-snail interactions in S. mekongi infection. We employed gene ontology (GO) enrichment analysis for functional annotation of these genes.

Results
In the present study, the S. mekongi genome was both assembled into 8 pseudochromosomes with a length of 404 Mb, with contig N50 and scaffold N50 lengths of 1168 kb and 46,759 kb, respectively. We detected that 43% of the genome consists of repeat sequences and predicted 9103 protein-coding genes. We also focused on proteases, particularly leishmanolysin-like metalloproteases (M8), which are crucial in the invasion of hosts by 12 flatworm species. Through phylogenetic analysis, it was discovered that the M8 gene exhibits lineage-specific amplification among the genus Schistosoma. Lineage-specific expansion of M8 was observed in blood flukes. Additionally, the results of the RNA-seq revealed that a mass of genes related to metabolic and biosynthetic processes were up-regulated, which might be beneficial for cercaria production.

Conclusions
This study delivers a high-quality, chromosome-scale reference genome of S. mekongi, enhancing our understanding of the divergence and evolution of Schistosoma. The molecular research conducted here also plays a pivotal role in drug discovery and vaccine development. Furthermore, our work greatly advances the understanding of host-parasite interactions, providing crucial insights for schistosomiasis intervention strategies.

Graphical Abstract
Customized‐individually‐made origin® implants in total knee arthroplasty allow a reliable solution for accurate reproduction of planned implant positioning
Authors: Sajan Martin , Moussa Mohamad K. , Lefèvre Nicolas , Payan Charles , Valentin Eugénie , Meyer Alain , Bohu Yoann , Khalaf Zeinab , Grimaud Olivier , Gerometta Antoinne , Hardy Alexandre , Khiami Frédéric 
Published: November 2023

AbstractPurposeTo evaluate the accuracy and reproducibility of a patient‐specific, customized individually made (CIM) total knee replacement (TKR) using the ORIGIN® prosthesis.MethodsThis was a prospective study conducted at a University Hospital from January 15, 2019, to April 30, 2021. The study included patients planned for an ORIGIN® CIM TKR procedure. Exclusion criteria included revision surgery, severe deformity, stiffness, or laxity. Evaluations were carried out using computed tomography scans performed 8 weeks preoperatively and 6 weeks postoperatively. The primary outcome measurements were the preoperative, planned, and postoperative CT scan alignment measurements including the Hip‐Knee‐Ankle (HKA) angle, mechanical Medial Distal Femoral articular surface Angle (mMDFA, distal alpha angle), Posterior Distal femoral articular surface angle (PDFA, posterior alpha angle), mechanical Medial Proximal Tibial articular surface Angle (mMPTA, beta angle) and posterior proximal tibial angle (PPTA). Secondary outcomes included the accuracy of implant positioning with percentage of outliers at 2° and 3°ResultsThe study encompassed 51 knees from 50 patients with mean age of 68.1 (SD = 8.89). The overall HKA angle deviated by ‐0.93° [95% CI: ‐1.45; ‐0.43], and the PDFA angle by ‐0.61° [95% CI: ‐1.07; ‐0.15], while the mMPTA exceeded planned values by 1.00° [95% CI: 0.57; 1.43]. The 3° outliers rate ranged from 3.9% for the mMPTA to 7.8% for the HKA alignment, with no outliers in mMDFA and PPTA. Similarly, the 2° outliers rate ranged from 15.7% for both the PDFA angle and mMPTA to 19.6% for the HKA alignment. The Bland–Altman plots further emphasized the precision of planned and post‐operative angles across all measurements.ConclusionThe CIM TKR showed high accuracy and reproducibility, closely matching preoperative planning. The weakest accuracy at 3°‐outliers is in the reproduction of the HKA alignment at 92.2% (range for all angle: 92.2–100%). Similarly, the weakest accuracy at 2°‐outliers is in the reproduction of the HKA alignment at 80.4% (range for all angles: 80.4–92.2%).
Exploring patient and caregiver perceptions of the meaning of the patient partner role: a qualitative study
Authors: Chudyk Anna Maria , Stoddard Roger , McCleary Nicola , Duhamel Todd A. , Shimmin Carolyn , Hickes Serena ,   Pan-Canadian group of patient and public advisors, Dalziel Sandra , Linkiewich Delane , Norris Lesley , Schreiner Kurt , Smith Kathy , Sumpton Janice , Schultz Annette S. H. 
Published: November 2023

Abstract
Background
The re-conceptualization of patients’ and caregivers’ roles in research from study participants to co-researchers (“patient partners”) has led to growing pains within and outside the research community, such as how to effectively engage patients in research and as part of interdisciplinary teams. To support the growth of more successful research partnerships by developing a shared understanding of how patient partners conceptualize and contribute to their role, this study aimed to explore patient partners’ motivations for engagement and understanding of their role.

Methods
We conducted semi-structured interviews with participants (n = 13) of an online survey of activities and impacts of patient engagement in Strategy for Patient-Oriented Research projects. Eligibility criteria included being a patient partner that indicated interest in interview participation upon survey completion, the ability to read/write in English and provide informed consent. Data were analyzed thematically using an inductive, codebook thematic analysis.

Results
Illuminating the lived/living patient and caregiver experience was central to how most patient partners conceptualized the role in terms of its definition, purpose, value, and responsibilities. Participants also identified four additional categories of motivations for becoming a patient partner and contributions that patient partners make to research that build upon and are in addition to sharing their lived/living experiences. Lastly, participants highlighted important connotations of the term patient partner, including temporal and context-specific considerations for the term “patient” and what “partner” may imply about the nature of the research relationship.

Conclusions
At the onset of partnership, academic researchers and patient partners must create the space necessary to discuss and understand each other’s underlying motivations for partnering and their perspectives on the purpose, value, and responsibilities of the patient partner role. These early conversations should help unearth what research partners hope to get out of and feel that they are able to contribute to engaging, and in such contribute to the development of reciprocal relationships that work towards shared and valued goals.
Trial registration Not applicable.
Bibliometric analysis of residual cardiovascular risk: trends and frontiers
Authors: Wang Lin , Wang Sutong , Song Chaoyuan , Yu Yiding , Jiang Yuehua , Wang Yongcheng , Li Xiao 
Published: November 2023

Abstract
Background
The presence of residual cardiovascular risk is an important cause of cardiovascular events. Despite the significant advances in our understanding of residual cardiovascular risk, a comprehensive analysis through bibliometrics has not been performed to date. Our objective is to conduct bibliometric studies to analyze and visualize the current research hotspots and trends related to residual cardiovascular risk. This will aid in understanding the future directions of both basic and clinical research in this area.

Methods
The literature was obtained from the Web of Science Core Collection database. The literature search date was September 28, 2022. Bibliometric indicators were analyzed using CiteSpace, VOSviewer, Bibliometrix (an R package), and Microsoft Excel.

Result
A total of 1167 papers were included, and the number of publications is increasing rapidly in recent years. The United States and Harvard Medical School are the leading country and institution, respectively, in the study of residual cardiovascular risk. Ridker PM and Boden WE are outstanding investigators in this field. According to our research results, the New England Journal of Medicine is the most influential journal in the field of residual cardiovascular risk, whereas Atherosclerosis boasts the highest number of publications on this topic. Analysis of keywords and landmark literature identified current research hotspots including complications of residual cardiovascular risk, risk factors, and pharmacological prevention strategies.

Conclusion
In recent times, global attention toward residual cardiovascular risk has significantly increased. Current research is focused on comprehensive lipid-lowering, residual inflammation risk, and dual-pathway inhibition strategies. Future efforts should emphasize strengthening international communication and cooperation to promote the comprehensive evaluation and management of residual cardiovascular risk.
Spatiotemporal distribution of foot-and-mouth disease in Nepal between 2019 and 2021
Authors: Dhakal Sujeeta Pokharel , Pandey Krishnaraj , Upadhyaya Mukul , Karki Surendra , Ramdam Nira , VanDyk Sarah , Premashthira Sith 
Published: November 2023

AbstractFoot-and-mouth disease (FMD) is a highly contagious viral disease affecting cloven-hoofed livestock. It is caused by the FMD virus (FMDV), which has seven distinct serotypes (O, A, C, SAT I, SAT II, SAT III, and Asia 1). In Nepal, FMD is a prevalent and economically important livestock disease, with hundreds of outbreaks yearly across different regions. However, there is limited understanding of the recent epidemiological trends of FMD in the past few years in Nepal. This study aims to analyze the spatial and temporal distribution of FMD in Nepal from 2019 to 2021. The FMD and TADs Investigation Laboratory, under the Government of Nepal, conducts annual risk-based surveillance of FMD in the country. The nonstructural protein (NSP) serosurveillance and serotyping (for outbreak confirmation) data from this laboratory were used for the study. The samples were collected either by the laboratory staff or were sent to the laboratory. Data analysis and mapping were performed using Epi info version 7.2.5.0 and QGIS version 3.22.5, respectively. Our findings revealed that 37.65% of samples (n = 417) tested positive for serotyping. The highest number of positive cases occurred in March–April, followed by December. Geographically, the Terai region had the most positive cases, followed by hills and mountains. The positivity rate for serotyping did not significantly vary by animal species (p > 0.05). Serotype O was the dominant serotype in all years, accounting for 98% of cases, while serotype A was found in only 2% of serotype-positive samples. In NSP serosurveillance, out of 3216 samples tested, 15.07% (474/3146; 95% CI, 13.86–16.36) tested positive. NSP seropositivity varied significantly by year (p < 0.001) but not by eco-zone (p > 0.05). In conclusion, FMD remains endemic in Nepal, with a consistent epidemiological pattern except that the Asia 1 serotype was not detected in the past years. We recommend expanding FMD surveillance activities to high-risk areas and collecting data on potential risk factors driving FMD infection in the country. This will enable the implementation of suitable control measures.
Safety of spinal anesthesia and analysis of cerebrospinal fluid in SARS-CoV-2 pregnant women undergoing cesarean section: an observational prospective study
Authors: Fierro Giulia , Milan Barbara , Bettinelli Silvia , Bottari Elisa , Bugada Dario , Roncagliolo Ilaria , Arosio Marco , Farina Claudio , Lorini Ferdinando Luca 
Published: November 2023

Abstract
Background
Systemic infection has always been considered a relative contraindication to neuraxial anesthesia, despite the fact that infectious complications are relatively uncommon. Pregnancy-related physiological changes and coronavirus disease (COVID-19) neurotropic features may facilitate the virus’ entry into the central nervous system. The principal aim of this study was to test the safety of spinal anesthesia in “severe acute respiratory syndrome coronavirus 2” (SARS-CoV-2)-positive pregnant women and to examine cerebrospinal fluid (CSF) characteristics.

Methods
We conducted a prospective observational single-center study in asymptomatic or paucisymptomatic consecutive pregnant SARS-CoV-2 patients who underwent spinal anesthesia for cesarean section. Women with severe infection were excluded because they underwent general anesthesia. At the time of spinal anesthesia, we collected CSF samples, and then we performed a chemical-physical analysis to look for signs of inflammation and for SARS-CoV-2 genome.

Results
We included 26 women. No spinal anesthesia complications were reported in the perioperative period and after 2 months. All CSF samples were crystal clear, and all physical-chemical values were within physiological ranges: the median concentration of CSF/plasma glucose ratio was 0.66, IQR 0.5500 (0.6000–0.7100), and the average CSF protein concentration value was 23.2 mg/dl (SD 4.87). In all samples, genomes of SARS-CoV-2 and other neurotropic viruses were not detected.

Conclusions
Spinal anesthesia was safe in SARS-CoV-2 pregnant women with mild disease; no clinical maternal complications were detected, and no CSF changes indicative of inflammatory or infectious diseases that would compromise the safety of the procedure were found.
Approaching Classical Chinese Poetry in Early Modern Japan: Intralingual and Interlingual Translation Strategies in Rikunyo's Remarks on Poetry
Authors: Fraleigh Matthew 
Published: November 2023

Abstract
This article examines Remarks on Poetry from Makuzugahara (Katsugen shiwa 葛原詩話, 1787, 1804), a Japanese reference work for Sinitic poets that comments on unusual vocabulary and subject matter mainly gathered from Tang and Song sources. Written by the Tendai Buddhist priest and celebrated Sinitic poet Rikunyo 六如 (1734–1801), Katsugen shiwa draws on both intralingual and interlingual translational techniques to engage with Sinitic texts and clarify their meaning to a Japanese readership. With intralingual techniques such as substitution, paraphrase, or expansion into more readily intelligible Sinitic, Rikunyo engaged in approaches identical to the Ming and Qing commentators whose annotations he referenced; his interlingual translation approaches included not only standard kundoku but explicit appeals to Japanese vernacular. The article shows in concrete terms how Rikunyo (as well as two other scholars who wrote fierce, point-by-point critiques of Katsugen shiwa) made use of these dual translation strategies.
Lead-free perovskite Cs2AgBiBr6 photodetector detecting NIR light driven by titanium nitride plasmonic hot holes
Authors: Liu Zijian , Xi Yuying , Zeng Wenbo , Ji Ting , Wang Wenyan , Guo Sitong , Shi Linlin , Wen Rong , Cui Yanxia , Li Guohui 
Published: November 2023

Lead-free perovskite Cs2AgBiBr6 manifests great potential in developing high-performance, environmentally friendly, solution-processable photodetectors (PDs). However, due to the relatively large energy bandgap, the spectrum responses of Cs2AgBiBr6 PDs are limited to the ultraviolet and visible region with wavelengths shorter than 560 nm. In this work, a broadband Cs2AgBiBr6 PD covering the ultraviolet, visible, and near infrared (NIR) range is demonstrated by incorporating titanium nitride (TiN) nanoparticles that are prepared with the assistance of self-assembled polystyrene sphere array. In addition, an atomically thick Al2O3 layer is introduced at the interface between the Cs2AgBiBr6 film and TiN nanoparticles to alleviate the dark current deterioration caused by nanoparticle incorporation. As a result, beyond the spectrum range where Cs2AgBiBr6 absorbs light, the external quantum efficiency (EQE) of the TiN nanoparticle incorporated Cs2AgBiBr6 PD is enhanced significantly compared with that of the control, displaying enhancement factors as high as 2000 over a broadband NIR wavelength range. The demonstrated enhancement in EQE arises from the photocurrent contribution of plasmonic hot holes injected from TiN nanoparticles into Cs2AgBiBr6. This work promotes the development of broadband solution-processable perovskite PDs, providing a promising strategy for realizing photodetection in the NIR region.
Short report: Plasma based biomarkers detect radiation induced brain injury in cancer patients treated for brain metastasis: A pilot study
Authors: Makranz Chen , Lubotzky Asael , Zemmour Hai , Shemer Ruth , Glaser Benjamin , Cohen Jonathan , Maoz Myriam , Sapir Eli , Wygoda Marc , Peretz Tamar , Weizman Noam , Feldman Jon , Abrams Ross A. , Lossos Alexander , Dor Yuval , Zick Aviad 
Published: November 2023

Background
Radiotherapy has an important role in the treatment of brain metastases but carries risk of short and/or long-term toxicity, termed radiation-induced brain injury (RBI). As the diagnosis of RBI is crucial for correct patient management, there is an unmet need for reliable biomarkers for RBI. The aim of this proof-of concept study is to determine the utility of brain-derived circulating free DNA (BncfDNA), identified by specific methylation patterns for neurons, astrocytes, and oligodendrocytes, as biomarkers brain injury induced by radiotherapy.

Methods
Twenty-four patients with brain metastases were monitored clinically and radiologically before, during and after brain radiotherapy, and blood for BncfDNA analysis (98 samples) was concurrently collected. Sixteen patients were treated with whole brain radiotherapy and eight patients with stereotactic radiosurgery.

Results
During follow-up nine RBI events were detected, and all correlated with significant increase in BncfDNA levels compared to baseline. Additionally, resolution of RBI correlated with a decrease in BncfDNA. Changes in BncfDNA were independent of tumor response.

Conclusions
Elevated BncfDNA levels reflects brain cell injury incurred by radiotherapy. further research is needed to establish BncfDNA as a novel plasma-based biomarker for brain injury induced by radiotherapy.
Impact of Clinical Decision Support System Assisted prevention and management for Delirium on guideline adherence and cognitive load among Intensive Care Unit nurses (CDSSD-ICU): Protocol of a multicentre, cluster randomized trial
Authors: Zhang Shan , Ding Shu , Cui Wei , Li Xiangyu , Wei Jun , Wu Ying 
Published: November 2023

Background
Adherence to the delirium bundle intervention is sub-optimal in routine practice, and inappropriate use of the instructional design of interventions may result in higher cognitive load among nurses. It remains unclear whether the Clinical Decision Support System (CDSS) Assisted Prevention and Management for Delirium (CDSS-AntiDelirium) results in the improvement of adherence to delirium intervention and the reduction of extraneous cognitive load, as well as improving adherence to delirium intervention, among nurses in the intensive care unit (ICU).

Methods
This study (named the CDSSD-ICU) is a multicentre, prospective, cluster randomized controlled clinical trial. A total of six ICUs in two hospitals will be randomized in a 1:1 ratio to receive either the CDSS-AntiDelirium group or the delirium guidelines group. The CDSS-AntiDelirium consists of four modules: delirium assessment tools, risk factor assessment, a nursing care plan, and a nursing checklist module. Each day, nurses will assess ICU patients with the assistance of the CDSS-AntiDelirium. A total of 78 ICU nurses are needed to ensure statistical power. Outcome assessments will be conducted by investigators who are blinded to group assignments. The primary endpoint will be adherence to delirium intervention, the secondary endpoint will be nurses’ cognitive load measured using an instrument to assess different types of cognitive load. Repeated measures analysis of variance will be used to detect group differences. A structural equation model will be used to clarify the mechanism of improvement in adherence.

Discussion
Although the CDSS has been widely used in hospitals for disease assessment, management, and recording, the applications thereof in the area of delirium are still in infancy. This study could provide scientific evidence regarding the impact of a CDSS on nurses’ adherence and cognitive load and promote its further development in future studies.

Clinical trial registration
ChiCTR1900023711 (Chinese Clinical Trial Registry).
Clinical outcomes of corneal neurotization using sural nerve graft in neurotrophic keratopathy
Authors: Saini Manu , Kalia Aman , Jain Arun K. , Gaba Sunil , Malhotra Chintan , Gupta Amit , Soni Tanvi , Saini Kulbhushan , Gupta Parul Chawla , Singh Manpreet 
Published: November 2023

Objective
To evaluate the efficacy of corneal neurotisation using sural nerve graft coaptation of the contralateral supratrochlear nerve in unilateral neurotrophic keratopathy and corneal anesthesia. Corneal neuralization has emerged as a potential option in the treatment of neurotropic keratopathy, however not free from the predicament. We evaluated the long-term outcome of corneal neurotisation in the treatment of unresponsive unilateral neurotropic keratopathy using surgical variations to mimic and expedient the surgical procedure.

Methods
A Prospective interventional study involving patients with unilateral neurotrophic keratopathy (NK) who did not respond to medical measures was conducted. The study parameters evaluated were best-corrected visual acuity improvement, ocular surface evaluation parameters [tear break-up time (TBUT), Schirmer’s 1, and ocular surface staining scores (corneal and conjunctival staining)], central corneal sensation (Cochet Bonnet esthesiometer), sub-basal nerve fiber length (SBNFL), and sub-basal nerve fiber density (SBNFD) determined by central confocal microscopy at recruitment and during follow-up at 1-month, 3-month, 6-month, 9-month and 12-month respectively, following corneal neurotization.

Results
Eleven eyes of 11 patients with unilateral neurotrophic keratopathy (NK) who underwent corneal neurotisation were studied. The mean follow-up was 10.09±2.31months (range, 6–12). Mean best corrected visual acuity in log MAR at baseline, 1.35±0.52 improved significantly to 1.06±0.76 (P = 0.012) at 3 months and continued to 0.55±0.60 (P = 0.027) at 12 months. There was a significant reduction in NK grade severity and improvement in the ocular surface as early as 1 month, and central corneal sensations (P = 0.024) as soon as 3 months. Mean corneal SBNF improved from 3.12±1.84 mm/mm2 to 4.49±1.88 at 1 month (P = 0.008), 13.31±3.61 mm/mm2 (P = 0.028) at 12 months. Mean central corneal SBNFD evident at 6 months was 1.83±2.54no/mm2 (P = 0.018) and 4.90±3.12no/mm2 (P = 0.028) at 12 months.

Conclusion
This study substantiates the routine practice of corneal neurotisation by simplifying the intricacies observed during the procedure.