bluuebunny/crossref_metadata_2025_split huggingface dataset:
Association of the correlation between age-related renal failure and osteoporosis based on trabecular bone score in Bushehr Elderly Health (BEH) program
Authors: Mahmudpour Mehdi , Homayoun Narges , Nabipour Iraj , Hormozi Mohammad Reza Kalantar , boushehri Saeid Najafpour , Larijani Bagher , Ostovar Afshin , Amini Azam , Marzban Maryam 
Published: December 2022

Abstract
Purpose
Osteoporosis is a systemic disease characterized by decreased strength of bone and increased risk of fracture in old age. Age and pathologic renal failure are independent risk factors for osteoporosis. However, it is not determined whether age related decreased renal function in the context of senescence can be considered as an independent risk factor for osteoporosis. Therefore, this study conducted to evaluate the effect of senescence induced renal failure on bone quality and trabecular bone score.
Methods
Using a cross-sectional design, this study was carried out based on data collected during BEH program on phase II. 2125 elderly participants aged more than 60 years old entered the study after fulfilling inclusion criteria and obtaining informed consent. They were examined for weight, height, abdominal and hip circumference and blood pressure measurement. All participants underwent DXA to assess bone mass density (BMD). Trabecular bone score (TBS) calculated using DXA apparatus software output. Univariate and adjusted multivariate linear regression were used to evaluate the associations.
Results
In univariate linear regression analysis there was a direct correlation between age-related renal failure and TBS (β = 0.038 and P = < 0.0001), neck of femur BMD (β = 0.047, P < 0.0001), lumbar BMD (β = 0.055, P < 0.0001) but after adjusting to BMI, age, sex, smoking and physical activity, there was not shown significant association for these variables.
Conclusion
It is hypothesized that in elderly aged more than 60 years old, age-related renal failure cannot be considered as an independent risk factor for osteoporosis.
Application of endobronchial ultrasound-guided needle aspiration biopsy combined with T cell spot test for granulomas lesion in mediastinal-hilar lymph nodes
Authors: Wang Wangguo , Chen Shuyun , sheng Jianhui , Zheng Zhengmao 
Published: December 2022

Abstract

Background:To investigate the results and analyze the diagnostic value of the combined application of EBUS-TBNA and T-SPOT in patients with granuloma in mediastinal-hilar lymph nodes.Methods:Patients who underwent EBUS-TBNA and pathologically confirmed as lymph node granulomatous lesions from January 2020 to May 2021 were retrospectively recruited. The baseline clinical characteristics, tuberculosis T cell spot test, pathological and imaging results of these subjects were collected. The common disease accompanied by granulomas lesion in mediastinal-hilar lymph nodes were analyzed and compared.Results:Our results represented that among 60 patients with lymph node granulomatosis, caseous necrosis was only detected in 2 cases, 13 cases with positive acid-resistant staining were diagnosed as lymphoid tuberculosis, however, none of them manifested the typical symptoms of tuberculosis poisoning. 5 cases were diagnosed as sarcoidosis, and oral prednisone acetate tablets were effective. T-SPOT test results showed a positive result in 26 cases, we noticed that the positive acid-resistant staining cases (T-SPOT detection in 9 cases) had higher antigen values of T-SPOT than the other 17 cases with positive T-SPOT (P＜0.01)Conclusion:EBUS-TBNA combined T-SPOT test has great significance to differentiate lymphoid tuberculosis and sarcoidosis, helping promote the diagnostic rate of granulomas lesion in mediastinal-hilar lymph nodes.
Factors affecting the immunogenicity of influenza vaccines in human
Authors: Xu Qiuyi , Wei Hejiang , Wen Simin , Chen Jiamin , Lei Yuxuan , Cheng Yanhui , Huang Weijuan , Wang Dayan , Shu Yuelong 
Published: December 2022

Abstract
Background: The influenza viruses pose a threat to human health and medical services, and vaccination is an important way to prevent infection. However, the effectiveness of influenza vaccines is affected by various aspects. This study aimed to explore factors related to the immune response to influenza vaccines.
Methods: The study was conducted from 2019 to 2021, and a total of 593 volunteers were recruited from the Center for Disease Control and Prevention in 3 provinces in China. The hemagglutination inhibition assay was used to measure antibody levels. The Chi-square test, multivariable logistic regression analysis, and sum-rank test were used to analyze the factors associated with influenza vaccine immune response.
Results: The Chi-square test showed that seroconversion rates and response rate were associated with age group, vaccination history, chronic conditions, the frequency of colds, and region (P< 0.05). The multivariable logistic regression analysis showed that age was an important factor that affected participants’ seroconversion rates forA/H1N1, A/H3N2, B/Victoria, and response status (18-64 vs. ≤5: OR=2.77, P <0.001; ≥65 vs. ≤5: OR=0.38, P =0.01; 18-64 vs. ≤5: OR=2.64, P=0.03). Vaccination history was also an affecting factor for A/H1N1, B/Victoria, and response status (yes vs. no: OR=0.4 / 0.44 / 0.25, P<0.001). The frequency of colds and chronic conditions were also affecting factors for participants’ seroconversion rates and response levels to different degrees. The sum-rank test showed that the fold changes for A/H1N1, B/Victoria, and B/Yamagata were associated with age group and vaccination history (P<0.01). The fold changes for A/H3N2 were associated with the frequency of colds (P<0.05), and those for B/Victoria were associated with gender and chronic conditions (P<0.05).
Conclusions: Vaccination history, age, health condition, and frequency of colds were important factors affecting the seroconversionrate of the influenza vaccine in human. There is a need for developing optimized vaccination strategies for vulnerable groups to improve the efficacy of influenza vaccines in human.
Origin of mysterious geothermal gas emissions in the middle of the Western Desert, stable shelf area, Dakhla Oasis, Egypt
Authors: Zaher Mohamed Abdel , El-Hadidy Mahmoud , El-Qady Gad , Rabeh Taha , Atya Magdy , El-hady Sherif , Tantawy Abdel Aziz , El-Hemaly Ibrahim , Deep Mohamed Al , Awad Ahmed , Salama Hamada , Khalifa Mohamed Mostafa , Leila Mahmoud 
Published: December 2022

Abstract
This work responds to what was reported in various audio-visual media channels and to queries and explanations gained from individuals and local residents on the causes of gaseous and thermal emissions from the earth near the vicinity of the village of Al-Hindaw in Dakhla city, the New Valley Governorate, Egypt. At the location of the fume exit area, magnetic, seismic, and electromagnetic geophysical investigation were carried out in attempt to ascertain the factor(s) responsible for the event in question. Rock samples are collected and studied geochemically and radiographically to assess their chemical compositions as well as the quantity of organic chemicals that may have contributed to the burning and temperature increase. In light of the results of the geochemical and geophysical research, it is believed that the self-ignitions are the result of near-surface reactions and oxidation instead of volcanic activity, such as the presence of magma or other comparable phenomena.
ExposomeX: Integrative Exposomic Platform Expediates Discovery of “Exposure-Biology-Disease” Nexus
Authors: Fang Mingliang , Wang Bin , Lan Changxin , Zhang Guohuan , Ren Mengyuan , Feng Yanqiu , Gao Ning , Lin Weinan , Jiangtulu Bahabake , Liu Zhijian , Shao Xuqiang , Su Shu , Wang Yuting , Wang Han , Zhao Fanrong , Peng Bo , Ji Xiaotong , Chen Xiaojia , Nian Min 
Published: December 2022

Abstract
Exposome has become the hotspot of next-generation health studies. To date, there is no available effective platform to standardize the analysis of exposomic data. In this study, we aim to propose one new framework of exposomic analysis and build up one novel integrated platform “ExposomeX” to expediate the discovery of the “Exposure-Biology-Disease” nexus. We have developed 13 standardized modules to accomplish six major functions including statistical learning (E-STAT), exposome database search (E-DB), mass spectrometry data processing (E-MS), meta-analysis (E-META), biological link via pathway integration and protein-protein interaction (E-BIO) and data visualization (E-VIZ). Using ExposomeX, we can effectively analyze the multiple-dimensional exposomics data and investigate the “Exposure-Biology-Disease” nexus by exploring mediation and interaction effects, understanding statistical and biological mechanisms, strengthening prediction performance, and automatically conducting meta-analysis based on well-established literature databases. The performance of ExposomeX has been well validated by re-analyzing two previous multi-omics studies. Additionally, ExposomeX can efficiently help discover new associations, as well as relevant in-depth biological pathways via protein-protein interaction and gene ontology network analysis. In sum, we have proposed a novel framework for standardized exposomic analysis, which can be accessed using both R and online interactive platform (http://www.exposomex.cn/).
Design and Investigation of Angularly Stable Controllable, Tunable Multiband Absorbers in THz regime
Authors: Partibane Bactavatchalame 
Published: December 2022

Abstract
This article presents two terahertz absorbers with Controllable and Tunable multibands using miniaturized metamaterial unit cells. The first absorber consists of a five open-ended rectangular strips-based resonator. The validity of the proposed absorber is tested with a linear array MIMO antenna. The designed MIMO antenna consists of two linear array antennas separated by 40µm with each linear array is made up of three individual antenna elements. The introduction of absorber between the linear arrays provides the minimum isolation of 30dB. The presented highly isolated linear array MIMO antenna realizes maximum efficiency and gain of 83%, 12.2dBi respectively. The absorber unit cell structure is modeled and their electromagnetic characteristics are simulated by the 3D electromagnetic simulator CST Studio Suite. The auto meshing technology and frequency domain solver are used to acquire S-parameter.
Valuing Co-benefits in Private Climate Finance Investment:
How are Corporate Motivations for Voluntary Carbon Offset Investments Reflected in Valuation of Project Co-benefits?
Authors: Lou Jiehong , Hultman Nathan , Patwardhan Anand , Mintzer Irving 
Published: December 2022

Abstract
Companies can prioritize diverse types of sustainable investment finance to reflect their concerns about climate change and carbon emissions. One example of such climate investments is corporate investments in voluntary carbon offset (VCO) projects. Despite growing research into what and how these companies are doing in the VCO markets, much remains to be learned about the motivations for such investments. We utilized two datasets with a natural linkage that can validate across by each other, and conducted a mixed-method analysis based on a group of 186 companies globally with 534 carbon offset projects in 2017 to explore the motivations that drive companies to invest in the offset projects, and how different motivations map on to specific purchase decisions which then channel into larger financial flows. We identified three corporate motivations for carbon offset investment and found that the growing prevalence of companies using carbon offsets to achieve carbon neutrality has been coupled with an increasing number of companies highlighting the importance of using offsets to contribute to “company values” and “market competitiveness.” Our study reveals that companies investing in offsets represent a unique class that is willing to pay more for projects with higher co-benefits.
Genome-wide transcriptional response of Escherichia coli O157:H7 to light- emitting diodes with various wavelengths
Authors: Khan Shehzad Abid , Kim Min-Jeong , Yuk Hyun-Gyun 
Published: December 2022

Abstract
We investigated the physiological and transcriptomic response of Escherichia coli at the early stationary phase to light-emitting diodes with different wavelengths. The objective of this study was to investigate the effects of 465, 520, and 625 nm illuminated light on the growth and metabolic changes of E. coli O157:H7. Under 465 nm illumination, the growth of E. coli O157:H7 was significantly retarded compared to 520 nm and 625 nm illumination and non-illuminated control. Metabolic changes were examined under these illumination and non-illuminated conditions based on transcriptomic reads. Transcriptomic response under 520 nm and 625 nm remained almost similar to control except few up-and down-regulated genes. Carbohydrates metabolic transcriptomic reads were greatly down-regulated under 465 nm illumination compared to 520 nm and 625 nm illumination and non-illuminated control showing depletion of glucose as a sole energy source during the exponential phase. Fatty acid degradation such as fad regulon-related genes was up-regulated in cells under 465 nm illumination revealing the shifting of cells to use fatty acid as a new carbon energy source during the early stationary phase. Exposure of E. coli O157:H7 cells to 465 nm illuminated light down-regulated virulence factor genes such as hlyA, hlyB, hlyC, stx1A, stx2B, paa, and bdm. Under the stress of 465 nm illumination, expression of stress and flagellar motility-related genes were up-regulated causing consumption of energy and reduction in cell growth. Also, oxidative phosphorylated transcriptomic reads were up-regulated under 465 nm illumination probably due to the production of ROS that might involve in the reduction of cell growth during the early stationary phase. These results indicate that pathogenic E. coli O157:H7 respond differentially to a different wavelength of the light-emitting diodes used in this study.
Screening radiation-induced differential expressed circular RNAs and establishing the expression models in human lymphoblastoid cell line AHH-1 induced by 60Co γ-rays
Authors: TIAN XUELEI , ZHANG TINGTING , CAI TIANJING , TIAN MEI , LIU QINGJIE 
Published: December 2022

Abstract

After a large-scale radiological accident, such as Chernobyl or Fukushima Nuclear Power Plant accident occurred, rapid and high-throughput biodosimetry would be needed. It is very important to find a rapid, high-throughput biodosimeter for massive population triage and biological dose estimation. Studies showed that Circular RNA (circRNA) expressions can be altered by ionizing radiation in normal human cell lines and tumor tissue. Whether circRNAs are suitable for triage and dose estimation remains unclear. In this study, radiation-induced differential expressed circRNAs were screened through transcriptome sequencing with human lymphoblastoid cell line AHH-1 at 4 h after irradiated with 0, 2, and 5 Gy Cobalt-60 γ-rays. The results showed that 3 up-regulated and 4 down-regulated circRNAs were identified in 2 Gy-induced cells, and 5 up-regulated and 3 down-regulated circRNAs were identified in 5 Gy-induced cells both compared with those in the 0 Gy group. After validation, 11 circRNAs were chosen for establishing the expression dosimetry models, because their expression levels changed in a dose-dependent manner. Different circRNA expression models involving one or two circRNAs were established by stepwise regression analysis for different time-point (4h, 12 h, 24 h, and 48 h) post-irradiation, with R2ranged from 0.950 to 0.998 (P < 0.01). A blind test showed that most of the estimated doses based on the expression models were deviated from the actual absorbed doses and the relative deviation were higher than 20%. In conclusion, ionizing radiation can alter the circRNA expression profile in the normal cell line AHH-1. Some circRNAs may be having the potential for being radiation biomarkers and needs further comprehensive investigation.
Do tree-ring fire-scar records adequately reflect Native American settlement and land use?
Authors: Tulowiecki Stephen , Hanberry Brice B. , Abrams Marc D. 
Published: December 2022

AbstractBackground:Past burning by Native Americans can be analyzed from tree-ring fire-scar records (FSRs) via dendrochronological methods. However, the degree to which FSRs have adequately captured the varied locations where Native Americans burned landscapes, at both local and regional scales, remains largely unknown. Also unassessed is whether individual studies utilizing FSRs provide adequate spatial contextualization of FSR sites alongside Native American geography (e.g. settlements, travel corridors) to facilitate understanding of spatial relationships between fire and settlement. This paper assesses (1) the representativeness of FSR sites with respect to Native American settlement (circa 1760-1820) in eastern North America, (2) whether FSR-based studies provide adequate contextualization of their study sites with respect to settlement, and (3) spatial relationships between settlement and fire frequency gleaned from available FSRs.Results:Many locations with past Native American settlement are not represented by FSRs, and few individual studies provide locations of settlement to compare with FSR site locations. Available FSRs suggest that fire was most frequent at intermediate distances (i.e. 100-150 km) from villages, and least frequent near villages. This trend may be due to the clearing of nearby trees or deliberate burns away from villages for various purposes, but within a reasonable distance for access.Conclusions:Future FSR development should target locations near former settlement to increase spatial balance, and researchers should provide better description (textual or cartographic) of Native American geography to characterize how proximate and in what environments cultural burning occurred. Such efforts will refine understanding of spatial locations and extent of burning. This study underscores the need to develop and share FSRs in locations where past cultural burning occurred before such samples disappear.
Hospital Antimicrobial Stewardship: Non-Bacterial Saliva Microbiome Emerges as a Biomarker of COVID-19 Severity
Authors: Buendia Patricia , Fernandez Krystal , Raley Castle , Rahnavard Ali , Crandall Keith , Castro Jose G 
Published: December 2022

Abstract
During the COVID-19 Delta variant surge, the CLAIRE cross-sectional study sampled saliva from 120 hospitalized patients, 116 of them with a positive COVID-19 PCR test. Patients received antibiotics upon admission due to possible secondary bacterial infections, with patients at risk of sepsis receiving more potent antibiotics. The saliva samples were analyzed with shotgun DNA metagenomics and respiratory RNA virome sequencing. Medical records for the period of hospitalization were obtained for all patients. Once hospitalization outcome was known, patients were classified based on their COVID-19 disease severity and their sepsis-related antibiotic treatment. 12 patients passed away with all 12 having received sepsis treatment. Significant associations were found between the composition of the COVID-19 saliva microbiome and broad-spectrum antibiotic use, between SARS-CoV-2 genome coverage and severity of disease, and between the non-bacterial microbiome and severity of disease, with Candida albicans, the most significantly elevated fungus in critical patients. Our results suggest a use of the saliva microbiome as a biomarker that aids with emergency room triage and suggests the need to develop narrow-spectrum agents that target pathogenic bacteria.
Early variation of inflammatory indexes refines prognostic prediction in patients with hepatocellular carcinoma under systemic treatment
Authors: Fonseca Leonardo G , Uratani Lucas Fernando , Soares Gabriella Fernandes , Amaral Paulo Siqueira , Alencar Regiane Saraiva Souza Melo , Chagas Aline Lopes , Alves Venancio Avancini Ferreira , Carrilho Flair Jose 
Published: December 2022

Abstract
Background: The search for prognostic markers in hepatocellular carcinoma (HCC) is essential for clinical decisions. In addition to established variables such as liver function and tumor extent, cancer-associated inflammation can impact clinical outcomes. Evolutionary variation in inflammatory indexes, such as the neutrophil-to-lymphocyte ratio (NLR) or platelet-to-lymphocyte ratio (PLR), may correlate with therapeutic benefit. Our aim is to assess the prognostic role of immune cell counts and inflammation indexes in HCC patients treated with systemic therapy and the evolutionary behavior of these variables within the first month of treatment.
Methods: We analyzed a cohort of patients consecutively treated with first-line sorafenib from 2009 to 2021. Subgroups were divided based on the median value of each variable/index in “low” or “high”. Survival was estimated using the Kaplan-Meier method and compared using log-rank. Hazard Ratio (HR) with 95% confidence interval (CI) were estimated using Cox regression models and Harrell´s C indexes were calculated to define their accuracy.
Results: 373 patients were included, most of them male (75.6%), Child-Pugh A (83.1%) and BCLC C (74%). Median survival was 9.7 months (95%CI: 8.7-10.8 months). The following factors were independently associated with a better prognosis: Child-Pugh A (p=0.011), ECOG-PS 0 (p<0.001), absence of ascites (p<0.001) and NLR < 2.6 (p<0.001). Baseline PLR was not correlated with survival (p=0.137). Patients who maintained low NLR at baseline and at 1 month of treatment (reference subgroup) had significantly better survival (18.6 months, 95% CI: 15.4-22.0) compared with the subgroup that maintained high NLR at baseline and at 1 month (4.2 months, 95%CI: 3.6-5.9), with HR: 3.80 (95%CI: 2.89-4.96). The subgroup that had low NLR at baseline and high NLR at 1 month had a worse prognosis compared to the reference group (HR 1.4, 95%CI: 1.1-2.0), whereas the subgroup with high NLR at baseline and low at 1 month had similar outcome (HR: 1.2, 95%CI 0.8-1.6).
Conclusion: Evolutionary variation of NLR has a prognostic role in HCC patients under systemic therapy. This finding suggests that systemic inflammation and early modulation of the immune environment during treatment may correlate with survival.
Identifying driver pathways based on a parameter-free model and a partheno-genetic algorithm
Authors: Wu Jingli , Nie Qinghua , Li Gaoshi , Zhu Kai 
Published: December 2022

Abstract
Background: Tremendous amounts of omics data accumulated has made it possible to identify cancer driver pathways through computational methods, which is believed to be able to offer critical information in such downstream research as ascertaining cancer pathogenesis, developing anti-cancer drugs, and so on. The integration of multiple omics data to identify cancer driving pathways is a challenging problem.
Results: In this paper, a parameter-free identification model SMCMN, incorporating both pathway features and gene associations in Protein-Protein Interaction (PPI) network, is proposed. A novel measurement of mutual exclusivity is devised to exclude some gene sets with "inclusion" relationship. By introducing gene clustering based operators, a partheno-genetic algorithm CPGA is put forward for solving the SMCMN model. Experiments were implemented on three real cancer datasets to compare the identification performance of models and methods. The comparisons of models demonstrate that the SMCMN model does eliminate the "inclusion" relationship, and produces gene sets with better enrichment performance compared with the classical model MWSM in most cases.
Conclusions: The gene set recognized by the proposed CPGA-SMCMN method possesses more genes engaging in known cancer related pathways, as well as stronger connectivity in PPI network. All of which have been demonstrated through extensive contrast experiments among method CPGA-SMCMN and six state-of-the-art ones.