bluuebunny/crossref_metadata_2025_split huggingface dataset:
Identification of Novel Prognostic Risk Signature of Breast Cancer Based on Ferroptosis-Related Genes
Authors: Wang Nan , Gu Yuanting , Li Lin , Chi Jiangrui , Liu Xinwei , Xiong Youyi , Jiang Shan , Zhang Wudi , Zhong Chaochao 
Published: January 2022

Abstract
Ferroptosis is a non-small molecule-induced form of tumor cell apoptosis, which has been shown to regulate the biological behavior of tumors. Therefore, genes controlling ferroptosis may be promising candidate biomarkers for tumor therapy. In this study, we investigate the function of genes associated with ferroptosis in breast cancer (BC) and systematically evaluate the relationship between ferroptosis-related gene expression profiles and prognosis in BC patients based on the Cancer Genome Atlas RNA-sequencing dataset (TCGA). By using the non-negative matrix factorization clustering method, 1,203 breast cancer samples were clustered into two clearly divided subgroups based on the expression of 237 ferroptosis-related genes. The least absolute shrinkage and selection operator (LASSO) was used to develop risk profiles for five genes, and then these five genes were verified by the polymerase chain reaction (PCR). The relationship between genetic risk characteristics and clinical characteristics of BC is described. The results show that the genetic risk signature associated with clinical characteristics can be used as independent prognostic indicators for BC patients.
Management of Nitrogen Flow in Livestock Waste System Towards an Efficient Circular Economy in Agriculture.
Authors: Doyeni Modupe Olufemi , Barčauskaitė Karolina , Bunevičienė Kristina , Venslauskas Kęstutis , Navickas Kestutis , Rubežius Mantas , Bakšinskaitė Aušra , Supronienė Skaidrė , Tilvikienė Vita 
Published: January 2022

Abstract
The race is on to achieve high level of efficiency in the attainment of circular economy in Agriculture especially with the aim of sustainable nitrogen management. This cycle in the agricultural sector cuts across livestock farming, agriculture induced waste generation, recycling and utilization, energy generation, crop production, ecosystem protection and environmental management through the mitigation of climate changes. In this work, we access the process and functionalities of livestock waste generated from the piggery farm and the combinations with other by-products such as biochar and ash in comparison with mineral fertilisation (MN) as sources of nitrogen (N) applied in agricultural soil. The experiment was performed in a controlled environment with wheat (Triticum aestivum L.) grown in a neutral and an acidic soil. Pig manure was used as the primary feedstock, fed, and processed to biogas and nutrient rich digestate by anaerobic digestion process. The digestate generated were amended with biochar and ash. In the course of the cultivation period, pig manure digestate with other co-amendments showed a positive influence on mobile potassium and phosphorus contents, biomass yield and nitrogen use efficiency. Greenhouse gas (GHG) emissions in the form of methane, carbon dioxide and nitrous oxide released in both soil types from the amendments were significantly lower when compared to mineral nitrogen treatment. The amendments did not have any significant influence on dehydrogenase activity, especially in the acid soil with the pH negatively influencing the enzymatic activities. The pig manure and pig manure digestate treatments showed positive response in the soil microbial biomass-C in the two soil types when compared to other co-amendments. Application of single use amendment application or in combination with biochar and ash as a means of waste management can enhance the N flow to meet up with crop needs, reduce GHG emissions and reduce potential agriculture’s negative environmental footprint.
Development of a Nomogram for Predicting the Occurrence of Symptomatic Intracranial Haemorrhage after Thrombectomy: A Single-Center Retrospective Observational Study
Authors: Li Zequn 
Published: January 2022

Abstract
Background
Symptomatic intracranial haemorrhage (SICH) is a severe and deadly complication in patients with large vessel occlusion (LVO) who receive endovascular treatment (EVT). Recent studies have indicated that many risk factors, including pretreatment scores and the operation process, may be associated with the occurrence of SICH after thrombectomy. This study aims to identify independent risk factors and establish a novel nomogram-based model for patients with anterior LVO to predict the occurrence of SICH after direct thrombectomy or bridge therapy (thrombectomy based on intravenous thrombolysis).
Methods
Patients with acute ischaemic stroke after EVT to recanalize the blocked artery in anterior circulation were consecutively recruited from November 2017 to March 2019. Baseline information was collected from each patient. These data were subsequently analysed by R Project for Statistical Computing.
Results
A total of 127 patients with complete data were classified into the training set, among whom 37 patients (29.1%) fulfilled the criteria for SICH. The results of the multivariate analyses showed that NIHSS (P=0.024), ASPECT (P<0.001) and ASITN (P=0.017) scores were independently associated with the occurrence of SICH after thrombectomy. Ultimately, three independent pretreatment predictors were included in the NIHSS/ASPECT/ASITN (NAA) prediction model, and the receiver operating characteristic analysis results showed an area under the curve (AUC) of 0.845 (95% CI=0.763–0.928). The calibration plots showed that the actual observations were consistent with the measured and predicted results of the nomogram.
Conclusions
In this study, a novel model based on NAA for predicting the occurrence of SICH after thrombectomy in patients with anterior LVO was established and validated internally. The results suggest that this model can help improve perioperative evaluations and individualized treatment strategies.
Inherent anharmonicity of harmonic solids
Authors: Agne Matthias , Anand Shashwat , Snyder Jeffrey 
Published: January 2022

Abstract
Atomic vibrations, in the form of phonons, are foundational in describing the thermal behavior of materials. The possible frequencies of phonons in materials are governed by the complex bonding between atoms, which is physically represented by a spring-mass model that can account for interactions (spring forces) between the atoms (masses). The lowest order, harmonic, approximation only considers linear forces between atoms and is thought incapable of explaining phenomena like thermal expansion and thermal conductivity, which are attributed to non-linear, anharmonic, interactions. Here we show that the kinetic energy of atoms in a solid produces a pressure much like the kinetic energy of atoms in a gas does. This vibrational or phonon pressure naturally increases with temperature, as it does in a gas, and therefore results in a thermal expansion. Because thermal expansion thermodynamically defines a Grüneisen parameter, which is a typical metric of anharmonicity, we show that even a harmonic solid will necessarily have some anharmonicity. A consequence of this phonon pressure model is a harmonic estimation of the Grüneisen parameter from the
ratio of the transverse and longitudinal speeds of sound. We demonstrate the immediate utility of this model by developing
a high-throughput harmonic estimate of lattice thermal conductivity that is comparable to other state-of-the-art estimations. By linking harmonic and anharmonic properties explicitly, this study provokes new ideas about the fundamental nature of anharmonicity, while also providing a basis for new materials engineering design metrics.
Pre-Operative Point-of-Care Assessment of Left Ventricular Diastolic Dysfunction, an Observational Study
Authors: Stenberg Ylva , Rhodin Ylva , Lindberg Anne , Aroch Roman , Hultin Magnus , Walldén Jakob , Myrberg Tomi 
Published: January 2022

Abstract
Background
Left ventricular (LV) diastolic dysfunction is an acknowledged peri-operative risk factor that should be identified before surgery. This study aimed to evaluate a simplified echocardiographic method using e’ and E/e’ for identification and grading of diastolic dysfunction pre-operatively.
Methods
96 ambulatory surgical patients were consecutively included to this prospective observational study. Pre-operative transthoracic echocardiography was conducted prior to surgery, and diagnosis of LV diastolic dysfunction was established by comprehensive and simplified assessment, and the results were compared. The accuracy of e’-velocities in order to discriminate patients with diastolic dysfunction was established by calculating accuracy, efficiency, positive (PPV) and negative predictive (NPV) values, and area under the receiver operating characteristic curve (AUROC).
Results
Comprehensive assessment established diastolic dysfunction in 77% (74/96) of patients. Of these, 22/74 was categorized as mild dysfunction, 43/74 as moderate dysfunction and 9/74 as severe dysfunction. Using the simplified method with e’ and E/e’, diastolic dysfunction was established in 70.8% (68/96) of patients. Of these, 8/68 was categorized as mild dysfunction, 36/68 as moderate dysfunction and 24/68 as severe dysfunction. To discriminate diastolic dysfunction of any grade, e’-velocities (mean<9 cm s−1) had an AUROC of 0.901 (95%CI 0.840-0.962), with a PPV of 55.2%, a NPV of 90.9% and a test efficiency of 0.78.
Conclusions
The results of this study indicate that a simplified approach with tissue Doppler e’-velocities may be used to rule out patients with diastolic dysfunction pre-operatively, but together with E/e’ ratio the severity of diastolic dysfunction may be overestimated.
Trial registration:
Clinicaltrials.gov, Identifier: NCT 03349593. Date of registration 2017-11-21. https://clinicaltrials.gov.
LRP6 modulates the phosphorylation of Cx43 via Gαs in ventricular tachycardia of myocardial infarction
Authors: Zhang Xuming , Liu Ya-ling , Cai Ying , Hao Ying , Kang Sheng 
Published: January 2022

Abstract
Background
Ventricular tachycardia (VT) and ventricular fibrillation are the most causes of early death in patients with myocardial infarction (MI). This study was aimed to explore whether LRP6 and its upstream genes circRNA1615 and miR-152-3p modulated the phosphorylation of Connexin-43 (Cx43) via Gαs in ventricular tachycardia of MI.
Method
we constructed the hypoxia cardiomyocyte model and AMI mice, and explored the modulation relationship of LRP6 and its upstream genes circRNA1615 and miR-152-3p. In addition, the immunoblot analysis with monoclonal and polyclonal antibodies were used to detect whether LRP6 and Cx43 were phosphorylated, further investigated that the LRP6 regulated the phosphorylation of its downstream target Cx43 via G-protein alpha subunit Gαs by using cell transfection, FISH assay, HE staining, RT-qPCR, and Western blot techniques.
Result
LRP6 mRNA expression was significantly reduced in AMI group compared with the control group. Hypoxia could inhibit the protein and phosphorylation levels of LRP6 and Cx43. The expression of circRNA1615 in AMI mice was significantly decreased, but overexpression of circRNA1615 significantly reversed it. Also overexpression of circRNA1615 could weaken the effect of miR-152-3p mimic, and the miR-152-3p mimic increased the hypoxia injury of LRP6 and Cx43, further LRP6 interference fragments could aggravate hypoxia injury of Cx43. The overexpression of LRP6 could significantly increase the protein level and phosphorylation level of Cx43, but the interference with LRP6 showed the opposite trend. Noticeably, the interference with Gαs weakened the protein and phosphorylation levels of Cx43, however, the interference with LRP6 further inhibited the protein and phosphorylation levels of Cx43. Finally, the transcriptions of circRNA1615 and LRP6 were inhibited in AMI, but the transcription of miR-152-3p was promoted, and the overexpression of circRNA1615 could weaken the damage effect and VT of AMI.
Conclusion
LRP6 and its upstream genes circRNA1615 and miR-152-3p modulated the phosphorylation of Cx43 via Gαs in ventricular tachycardia of myocardial infarction.
Patient Handoff Among General Surgery Residents in Saudi Arabia: A Cross-Sectional Study
Authors: Saleem Abdulaziz M. , Kadi Mai 
Published: January 2022

Abstract
Background

Communication failure is a common cause of adverse events. An essential element of communication among healthcare providers is patient handoffs. To explore this practice, we assessed patient handoffs among general surgery residents in Saudi Arabia.
Methods

A cross-sectional survey was conducted with individuals in accredited general surgery residency programs in Saudi Arabia between 2020 to 2021.
Results

Participants comprised 118 general surgery residents—66 (57.3%) were females; 67 (72.8%) did not receive any formal training on patient handoff; 35 (38.8%) reported that they were sometimes interrupted during the patient handoff process. The most common reason for such interruptions was medical personnel paging. Further, 60 (68.1%) general surgery residents stated that such interruptions led to a decreased quality of effective communication, 39 (44.3%) believed it led to decreased quality of patient care, 63(71.5%) believed it led to the loss of some information related to patient handoff, and 16 (18.1%) believed it led to patient harm. Finally, 31 (34.4%) general surgery residents believed that the existing handoff system at their institutions neither adequately protected the patient’s safety nor allowed for continuity of care; and 51 (68%) reported that they did not have a standardized protocol for patients’ verbal handoff process at their institution. There were higher proportion of patients with minor harm in residents who did not, rare or some time received verbal or written hand off (67% vs 33%).
Conclusion

The patient handoff process among general surgery residents in Saudi Arabia is subjective, not standardized, and can contribute to patient harm. Standardizing it is paramount to improve patient safety.
Differential Uptake of Murine and Human Exosomes by Normal and Inflamed Peripheral Tissues and Brain
Authors: Banks William A , Sharma Priyanka , Hansen K. M. , Ludwig Nils , Whiteside T. L. 
Published: January 2022

Abstract
Background: Exosomes function as an intercellular communication system conveying messages from donor to target cells in nearby or distant tissues. Many aspects of exosome trafficking remain unresolved, however. Here, we investigated uptake of ten radiolabeled murine or human exosomes of various cellular origins by the liver, kidney, spleen, and lung of male CD-1 mice. Methods: We radioactively labeled 10 exosomes from mouse or human cancerous or non-cancerous lines, injected them intravenously into male CD-1 mice, and studied their tissue uptake. We examined the ability of wheatgerm agglutinin (WGA), mannose-6 phosphate (M6P), and inflammation induced by lipopolysaccharide (LPS) to modulate uptake. We measured uptake rate using multiple-time regression analysis and used heat mapping and path analysis to correlate tissue and exosomal influences on uptake. Results: Except for the uptake of SCCVII exosomes by kidney, all exosomes were taken up by all tissues, although the uptake levels varied broadly among exosomes and tissues. The liver/serum uptake ratio for exosomes from primary human T-cells was the highest at 4,500 mL/g. Species of origin (mouse vs human) or source (cancerous vs noncancerous cells) did not influence tissue uptake. The uptake of some exosomes was altered by WGA and LPS but not by M6P, except for uptake inhibition of J774A.1 exosomes by liver, suggesting use of the M6P receptor. WGA or LPS treatments enhanced uptake of exosomes by brain and lung but inhibited uptake by liver and spleen. Response to LPS was not, however, predictive of response to WGA. No evidence for a universal binding site controlling exosome uptake was obtained. Applying path analysis and heat map analysis to the data, including our published results for brain, we found that exosome uptake patterns for lung and brain responded similarly to WGA or to LPS, whereas those for liver and spleen clustered together. In path analysis, the 10 exosomes clustered into distinct groups, suggesting that their bindings sites are similarly clustered. Conclusions: Uptake of exosomes by peripheral tissues is differentially regulated by both exosomes and target tissues and is dependent on the number and types of mutually interactive binding sites.
The BOOST Paediatric Advance Care Planning Intervention for Adolescents with Cancer and Their Parents: Development, Acceptability and Feasibility
Authors: Driessche Anne van , Gilissen Joni , De Vleminck Aline , Kars Marijke , Fahner Jurrianne , Bosch Jutte van der Werff ten , Deliens Luc , Cohen Joachim , Beernaert Kim 
Published: January 2022

Abstract
Background
Although advance care planning (ACP) has been widely recommended to support patient and family engagement in understanding the patient’s values, preferences and goals of care, there are only a few models in paediatric oncology that capture ACP as a process of behaviour change. We aimed to develop and test the acceptability and feasibility of BOOST pACP (Benefits of Obtaining Ownership Systematically Together in paediatric Advance Care Planning) – an intervention to improve ACP in adolescents with cancer, their parents and paediatric oncologists.
Methods
Several methods informed the intervention development process: 1) Problem identification: interviews with 11 healthcare professionals working in paediatric oncology; 2) Identification of evidence: literature review of existing pACP tools and barriers and facilitators in performing pACP; 3) Logic model and 4) Intervention design: collaborative expert meetings with researchers and professionals in pACP; 5a) Acceptability test of the materials: interviews with 9 healthcare professionals, 4 adolescents and young adults with cancer and 6 parents; 5b) Feasibility test of core intervention components with 3 families, including interviews about their experiences.
Results
The BOOST pACP intervention was iteratively developed and adapted, based on feedback from families, healthcare professionals, and pACP experts (e.g., components were changed, deleted, and added; formulation of themes and associated questions were amended to enhance acceptability). The core components of the BOOST pACP intervention include: 4 ACP conversation sessions with the adolescent and/or parent(s) provided by a trained facilitator, structured by interactive conversation cards covering different ACP themes, followed by a transfer of information from the intervention facilitator to the paediatric oncologist. Core intervention components were deemed feasible by all participating families.
Conclusion
The BOOST pACP intervention was developed by close involvement of both adolescent patients and their parents, healthcare professionals and pACP experts. The final intervention and supporting materials are considered appropriate and feasible. Its effectiveness in improving parent-adolescent communication on ACP themes is currently being tested in a multi-centre randomised controlled trial. Researchers aiming to develop a complex psychosocial intervention for a vulnerable target group could use the step-by-step approach described in this paper.
Variant Type X91+ Chronic Granulomatous Disease: Clinical and Molecular Characterization in a Chinese Cohort
Authors: Sun Bijun , Zhu Zeyu , Hui Xiaoying , Sun Jinqiao , Wang Wenjie , Ying Wenjing , Zhou Qinhua , Yao Haili , Hou Jia , Wang Xiaochuan 
Published: January 2022

Abstract
Purpose: We aimed to report the clinical and immunological characteristics of variant type X91+ CGD in a Chinese cohort.Methods: The clinical manifestations and immunological phenotypes of X91+ CGD patients were collected. Dihydrorhodamine (DHR) analysis was performed to evaluate neutrophil function. Gp91phox protein expression was determined by flow cytometry-based extracellular staining with the monoclonal antibody (mAb) 7D5. Results: X91+CGD patients accounted for 8% (7/85) of all patients with GCD. The median onset age in the 7 X91+ CGD patients was 4 months. Six patients received the same BCG vaccine strain, and three had probable BCG infections. Moreover, 4 patients were highly suspected of having Mycobacterium tuberculosis infection. Recurrent infections of the lungs and soft tissues (3/7) were the most common symptoms. Two patients had noninfectious recurrent oral ulcers and received interferon gamma (IFN-γ) treatment afterward. In our cohort, the stimulation index (SI) of the 7 X91+ CGD patients ranged widely from 1.9 to 67.5, while the SI ranged from 1.2 to 35.7 in patents with X910 CGD. The level of SI between these two groups was statistically significant (P<0.05). CYBB mutations associated with X91+CGD were usually located in or near the FAD and NADPH binding domains. Three new X91+ CGD related mutations (c.1462-2 A>T, c.1243C>T and c.925G>A) were identified. Conclusions: Variant type X91+ CGD may have varied severities of clinical manifestations. Moreover, the laboratory findings of X91+ CGD could present with a moderate neutrophil stimulation index. We should deepen our understanding of the X91+ variant CGD to prevent missed diagnosis.
Public Transit Development Predicts Spatial Distribution of Dengue Virus Incidence in Medellín, Colombia
Authors: Shragai Talya , Perez-Perez Juliana , Quimbayo-Forero Marcela , Rojo Raul , Harrington Laura , Rua-Uribe Guillermo 
Published: January 2022

Abstract
Dengue is a growing global threat in some of the world’s most rapidly growing landscapes. Urbanization and human movement affect the spatial dynamics and magnitude of dengue outbreaks; however, precise effects of urban growth on dengue is not well understood because of a lack of sufficiently fine-scaled data. We analyzed nine years of address-level dengue case data in Medellin, Colombia during a period of public transit expansion. We correlate changes in the spread and magnitude of localized outbreaks to changes in accessibility and usage of public transit. Locations closer to and with a greater utilization of public transit had greater dengue incidence. This relationship was modulated by socioeconomic status; lower socioeconomic status locations experienced stronger effects of public transit accessibility and usage on dengue incidence. Public transit is a vital urban resource, particularly among low socioeconomic populations; these results highlight the importance of public health services concurrent with urban growth.
Identification And Evaluation of Reference Genes For Cynanchum Auriculatum Under Various Stress Conditions
Authors: Zhu Zhi-Peng , Yu Jian-Xiang , Wu Ke-Xin , Xu Qin-Yi , Kang Yi-Jun , Sun Miao , Shen Min 
Published: January 2022

Abstract
Baishouwu (Cynanchum auriculatum) is a kind of critical Chinese herbal medicine. However, compared with the studies of other Chinese herbal medicines, the screening study on the reference genes of C. auriculatum is still the blank. Deterioration of the natural environment severely affects the growth and development of C. auriculatum. This study screened and identified suitable reference genes of C. auriculatum under various stress conditions. Based on qRT-PCR, geNorm, NormFinder, BestKeeper, and RefFinder were used for the expression stability evaluation of 12 potential reference genes from C. auriculatum. The ranking table showed that optimal reference genes included EF2 and SAMDC (heat stress), CYP and TUB-β (cold stress), TUB-α and GAPDH (drought stress), SAMDC and TUB-α (waterlogging stress), along with EF2 and ACT7 (salt stress). These results also demonstrated that under different abiotic stresses, suitable reference genes of plants should be selected for qRT-PCR analysis.