bluuebunny/crossref_metadata_2025_split huggingface dataset:
Ethnobotanical study on medicinal dietary plants used by the Yi people in southeastern Yunnan, China
Authors: Sun Jingxian , Xiong Yong , Li Yanhong , Yang Qingsong , Chen Yijian , Jiang Mengyuan , Li Yukui , Li Hongrui , Bi Zizhen , Huang Xiangzhong , Lu Shugang 
Published: April 2020

Abstract
Background
With a population of more than 5 million, Yi is the largest of the 25 ethnic groups in Yunnan Province, China. Yi people tend to live in mountainous areas, and their culture includes a unique dietary system for treating illnesses and protecting people against them. Medicinal plants occupy an essential place in the Yi diet because they play a key role in health and the prevention and treatment of diseases. The objectives of this paper were to document the medicinal dietary plants and the traditional knowledge associated with them and describes this paper adequately.
Methods
Field investigations were carried out in six villages in Mile County, Honghe Hani and Yi Autonomous Prefecture, Yunnan, from July 2017 to May 2018. Information was collected using participatory rural appraisal (PRA), direct observation, semi-structured interviews, key informant interviews, individual discussions, focus group discussions, and questionnaires.
Results
The study documented 124 species belonging to 62 families and 102 genera. These included: angiosperms (117 spp.), gymnosperms (3), pteridophytes (2), lichens (1), and fungi (1). The most commonly used plant parts were fruits and roots. The most frequently used edible parts were fruits, and the most frequently used medicinal parts were roots. The medicinal parts were used to treat conditions such as cough, catarrh, rheumatism, swelling, kidney deficiency, spleen deficiency, gastric disease, and others. Some of the plants required special preparation. Several had good economic potential due to their significant effects. In addition, a number of these plants are scarce and require conservation. The use-value (UV) and frequency of utilization index (FUI) of medicinal dietary plant species were analyzed. The 20 species with the highest UV were noted as particularly important to the Yi people’s daily life in Mile county.
Conclusion
A wide variety of medicinal dietary plants is used by Yi people in Mile. These plants occupy an essential position in the Yi diet and medicine. These plants are not only nutritious but also have medicinal value and, by consuming them, the Yi people maintain health and treat diseases through their daily diet. Ethnobotanical surveys of medicinal dietary plants provide a theoretical reference for the conservation and sustainable use of these plant resources and can contribute to the protection of the Yi food culture and traditional medicine in Mile. In addition, this information provides a basis for the development and utilization of Yi ethnic medicine and health products.
m6A RNA methylation regulators were associated with the malignancy and prognosis of ovarian cancer
Authors: jinhui Liu , siyue Li , sipei Nie , yujie Shen , huangyang Meng , rui Sun , jing Yang , Cheng Wenjun 
Published: April 2020

Abstract
M6A is a process of RNA methylation. Ovarian cancer poses a great threat to women's life. Abnormal modification of RNA may play a regulatory role in tumor development. RNA and clinical information come from GTEx and TCGA. “limma” was used for pre-analysis. “ConsensusClusterPlus” was used to group samples. Enrich Database was introduced for functional analysis. PPI complex was generated in STRING. GSEA was conducted to explore associated pathways. Regression model was constructed to screen hub genes. cBioPortal tool was used to compare the genetic alterations. TIMER database was used to analyze the abundance of tumor-infiltrating immune cells. “rms” package was used for nomogram and calibrate curve. Kaplan-Meier curve analysis was conducted to compare the survival time. ROC curve analysis was performed to estimate the predictive value of related genes. We analyzed the association between each m6A RNA methylation regulator and the clinical features of OC. Survival analysis showed that ALKBH5, METTLE14, METTLE16, YTHDF1, YTHDF2, YTHDF3 and ZC3H13 were significantly associated. We further found that METTLE3 was central gene in the network of m6A RNA methylation regulators. Its interactions or co-expressions with KIAA1429, METTLE14, WTAP, YTHDF1, YTHDF3, YTHDF2 and YTHDC1 were confirmed in the String database. METTLE3 was also significantly correlated with YTHDC2 and YTHDF3. The expression profiles of METTLE3, YTHDC2 and YTHDF3 were all related to the clinicopathological features in OC. GSEA identified pathways involved in graft versus host disease and oxidative phosphorylation. Regression models identified prognosis-associated HNRNPA2B1, KIAA1429 and WTAP. Dendritic fraction, macrophage fraction and neutrophil fraction were associated with three m6A regulators. YTHDF1, WTAP and ZC3H13 showed the most diverse alterations. Our study analyzed the association between m6A regulators and clinical features of OC. HNRNPA2B1, KIAA1429 and WTAP showed high prognostic value and they participate in OC through regulating the dendritic fraction, macrophage fraction and neutrophil fraction of immune cells. This research provides a new direction for the future research on OC.
Does implementation of the PECARN rules for minor head trauma improve patient-centered outcomes in a lower resource emergency department: A retrospective cohort study
Authors: Sawaya Rasha , Wakil Cynthia , Wazir Adonis , Shayya Sami , Berbari Iskandar , Safa Rawan , Makki Maha , Hamade Mahdi , Tamim Hani 
Published: April 2020

Abstract
Background
Managing children with minor head trauma remains challenging for physicians who evaluate for the need for computed tomography (CT) imaging for clinically important traumatic brain injury (ciTBI) identification. The Pediatric Emergency Care Applied Research Network (PECARN) prediction rules were adopted in our pediatric emergency department (PED) in December 2013 to identify children at low risk for ciTBI. This study aimed to evaluate this implementation’s impact on CT rates and clinical outcomes.
Methods
Retrospective cohort study on pediatric patients with head trauma presenting to the PED of the American University of Beirut Medical Center in Lebanon. Participants were divided into pre- (December 2012 to 2013) and post-PECARN (January 2014 to December 2016) groups. Patients were further divided into <2 and ≥2 years and stratified into groups of low, intermediate and high risk for ciTBI. Bivariate analysis was conducted to determine differences between both groups.
Results
We included 1362 children of which 425 (31.2%) presented pre- and 937 (68.8%) presented post-PECARN rules implementation with 1090 (80.0%) of low, 214 (15.7%) of intermediate and 58 (4.3%) of high risk for ciTBI. CTs were ordered on 92 (21.6%) pre- versus 174 (18.6%) patients post-PECARN (p=0.18). Among patients <2 years, CT rates significantly decreased from 25.2% to 16.5% post-PECARN (p=0.03), and dropped in all risk groups but only significantly for low risk patients from 20.7% to 11.4% (p=0.02). There was no significant decrease in CT rates in patients ≥2 years. There was no increase in bounce-backs numbers, nor in admission rates or positive CT findings among bounce-backs.
Conclusions
PECARN rules implementation reduced CT rates, most significantly among patients <2 years at low risk for ciTBI. The implementation did not increase the number of missed ciTBI.
Shikonin inhibits migration and invasion of triple-negative breast cancer cells by suppressing epithelial-mesenchymal transition via miR-17-5p/PTEN/Akt pathway
Authors: Bao Chang , Liu Tao , Qian Lingbo , Xiao Chi , Zhou Xinru , Ai Heng , Wang Jue , Fan Weimin , Pan Jie 
Published: April 2020

Abstract
Background: Triple-negative breast cancer(TNBC) is a great threat to global women’s health due to its high metastatic potential. Epithelial-to-mesenchymal transition (EMT) is considered as a key event in the process of metastasis. So the pharmacological targeting of EMT might be a promising strategy in improving the therapeutic efficacy of TNBC. Here, we investigated the effect of shikonin exerting on EMT and consequently the metastasis of TNBC cells and its underlying mechanism.Methods: The invasive and migratory capacities of MDA-MB-231 cells were tested using transwell invasion and wound healing assay. MiR-17-5p expression was examined by qRT-PCR. MiR-17-5p targeted genes were predicted with different bioinformatic algorithms from four databases (TargetScan, miRanda, PITA and picTar) and further screened by KEGG pathway enrichment analysis. The differential expressions of predicted genes and their correlations with miR-17-5p were identifed in breast cancer patients based on The Cancer Genome Atlas (TCGA) database. The interaction between PTEN and miR-17-5p was analyzed by luciferase reporter assay. The overexpression vector and small interfering RNA were constructed to investigate the role PTEN played in matastasis and EMT regulation. The expressions of EMT markers, Akt and p-Akt were evaluated by western blot.Results: Shikonin inhibited the migration and invasion of MDA-MB-231 cells by suppressing EMT. Shikonin suppressed the expression of miR-17-5p, which was upregulated in breast cancer and promoted cancer cell migration, invasion and EMT. The 3’-untranslated region of PTEN was found to be direct binding target of miR-17-5p. PTEN expression increased or decreased in breast cancer cells transfected with miR-17-5p inhibitors or mimics respectively. PTEN functioned as a suppressor both in the metastasis and EMT of TNBC cells. Overexpression or knockdown of PTEN reduced or increased the Akt and p-Akt expression respectively.Conclusions: Shikonin inhibits migration and invasion of TNBC cells by suppressing EMT via miR-17-5p/PTEN/Akt pathway. This suggests shikonin as a promising therapeutic agent to counteract metastasis in the TNBC patients.
Population structure and geographic segregation of Cryptosporidium parvum IId subtypes in cattle in China
Authors: Zhang Zhenjie , Hu Suhui , Zhao Wentao , Guo Yaqiong , Li Na , Zheng Zezhong , Zhang Longxian , Kvac Martin , Xiao Lihua , Feng Yaoyu 
Published: April 2020

Abstract
Background: Cryptosporidium parvum is a zoonotic pathogen worldwide. Extensive genetic diversity and complex population structures exist in C. parvum in different geographic regions and hosts. Unlike the IIa subtype family, which is responsible for most zoonotic C. parvum infections in industrialized countries, IId is identified as the dominant subtype family in farm animals, rodents, and humans in China. Thus far, the population genetic characteristics of IId subtypes in calves in China are not clear.Methods: In the present study, 46 C. parvum isolates from cattle in China were characterized using multilocus sequenceanalysis of eight genetic loci. They belonged to three IId subtypes in the 60 kDa glycoprotein (gp60) gene, including IIdA20G1 (n = 17), IIdA19G1 (n = 24) and IIdA15G1 (n = 5). The data generated were analyzed for population genetic structures of C. parvum using various tools.Results: Seventeen multilocus genotypes were identified. The results of linkage disequilibrium analysis indicated the presence of an epidemic genetic structure in the C. parvum IId population. When isolates of various geographical areas were treated as individual subpopulations, maximum likelihood inference of phylogeny, pairwise genetic distance analysis, sub-structure analysis, principal component analysis and network analysis all provided evidence for geographic segregation of subpopulations in Heilongjiang, Hebei, and Xinjiang. In contrast, isolates from Guangdong, Shanghai, and Jiangsu were genetically similar to each other.Conclusions: Data from the multilocus analysis have revealed a much higher genetic diversity of C. parvum than gp60 sequence analysis. Despite an epidemic population structure, there is apparent geographic segregation in C. parvum subpopulations within China.
Immunohistochemical Basigin Expression Level in Thyroid Cancer Tissues
Authors: Guo Wan-Ping , Tang Deng , Pang Yu-Yan , Li Xiao-Jiao , Chen Gang , Huang Zhi-Guang , Tang Xiao-Zhun , Lai Qin-Qiao , Gan Jin-Yan , Huang Xiao-Li , Liu Xiao-Fan , Wei Zhi-Xiao , Ma Wei 
Published: April 2020

Abstract
Background
Thyroid cancer (TC) is the most common endocrine malignancy, Basigin (also known as BSG) plays a crucial role in tumor cell invasion, metastasis, and angiogenesis. This study was designed to identify the change of BSG expression in TC and its possible potential mechanism.
Methods
The BSG expression levels in TC were demonstrated using data collected from in-house immunohistochemical (IHC), RNA-sequencing (RNA-seq), microarrays and literatures. Integrated analysis was performed to determined BSG expression levels in TC comprehensively. The gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses were performed with the integration of BSG co-expressed genes and differentially expressed genes (DEGs) in TC tissues to explore the potential mechanisms of BSG in TC.
Results
The protein expression level of BSG was significantly higher in TC cases based on the IHC experiments. In addition, the combined SMD for BSG expression was 0.39 (p < 0.0001), the diagnostic odds ratio was 3.69, and the AUC of the sROC curve was 0.6986 using 1182 TC cases and 437 non-cancerous cases from 17 independent datasets. Furthermore, BSG co-expressed genes tended to be enriched in gene terms of the extracellular matrix (ECM), cell adhesion, and cell-cell interactions. The expression levels of nine hub BSG co-expressed genes were markedly up-regulated in TC cases.
Conclusion
BSG expression levels were closely correlated with the progression of TC and may affect the signals of the ECM, cell adhesion, and cell-cell interactions.
Association of aortic valve calcification with carotid artery lesions and peripheral artery disease in patients with chronic kidney disease: a cross-sectional study
Authors: Arita Yui , Nakayama Masaru , Matsukuma Yuta , Yoshitomi Ryota , Seki Makiko , Fukui Akiko , Tsuda Susumu , Sonoda Yuri , Imazu Rina , Arakawa Kimika , Tominaga Mitsuhiro , Nakano Toshiaki , Tsuruya Kazuhiko , Kitazono Takanari 
Published: April 2020

Abstract
Background: Patients with chronic kidney disease (CKD) reportedly have a high prevalence of aortic valve calcification (AVC). In population-based studies, AVC is considered a manifestation of systemic atherosclerosis. The association of AVC with atherosclerotic lesions has not been fully investigated in predialysis patients. The present study was performed to determine whether carotid artery lesions and peripheral artery disease (PAD) are associated with AVC in patients with CKD not on dialysis. Methods: In total, 749 patients were included in this cross-sectional study. AVC was evaluated using echocardiography. Carotid artery lesions including carotid artery plaque (CAP) and PAD were simultaneously examined in each patient. A logistic regression analysis was applied to determine the factors associated with AVC. Results: AVC, CAP, and PAD were found in 201, 583, and 123 patients, respectively. In the multivariable analyses adjusted for covariates including the estimated glomerular filtration rate and makers of mineral metabolism (serum calcium, serum phosphorus, parathyroid hormone, 1,25-dihydroxyvitamin D, and fibroblast growth factor 23), AVC was significantly associated with the presence of CAP [odds ratio (OR), 3.37; 95% confidence interval (CI), 1.43–7.95], the presence of PAD (OR, 1.76; 95% CI, 1.10–2.81), the CAP score (per 1.0-point increase) (OR, 1.06; 95% CI, 1.02–1.11), and the ankle-brachial blood pressure index (per 0.1-point increase) (OR, 0.83; 95% CI, 0.72–0.95). Conclusions: AVC was associated with atherosclerotic lesions independent of kidney function and mineral metabolism. We consider that this association between AVC and atherosclerosis might reflect the burden of shared atherosclerotic risk factors.
Predicting the Treatment Response of Certolizumab for Individual Patients with Rheumatoid Arthritis: Protocol for An Individual Participant Data Meta-Analysis
Authors: Luo Yan , Chalkou Konstantina , Yamada Ryo , Funada Satoshi , Salanti Georgia , Furukawa Toshi A. 
Published: April 2020

Abstract
Background: A model that can predict treatment response for a patient with specific baseline characteristics would help decision-making in personalized medicine. The aim of the study is to develop such a model in the treatment of rheumatoid arthritis (RA) patients who receive certolizumab (CTZ) plus methotrexate (MTX) therapy, using individual participant data meta-analysis (IPD-MA).Methods: We will search Cochrane CENTRAL, PubMed, and Scopus as well as clinical trial registries, drug regulatory agency reports, and the pharmaceutical company websites to obtain randomized controlled trials (RCTs) investigating CTZ plus MTX compared with MTX alone in treating RA. We will request the individual-level data of these trials from an independent platform (http://vivli.org). The primary outcome is efficacy defined as achieving either remission (based on ACR-EULAR Boolean or index-based remission definition) or low disease activity (based on either of the validated composite disease activity measures). The secondary outcomes include ACR50 (50% improvement based on ACR core set variables) and adverse events. We will use a two-stage approach to develop the prediction model. First, we will construct a risk model for the outcomes via logistic regression to estimate the baseline risk scores. We will include baseline demographic, clinical and biochemical features as covariates for this model. Next, we will develop a meta-regression model for treatment effects, in which the stage-one risk score will be used both as a prognostic factor and as an effect modifier. We will calculate the probability of having the outcome for a new patient based on the model, which will allow estimation of the absolute and relative treatment effect. We will use R for our analyses, except for the second stage which will be performed in a Bayesian setting using R2Jags.Discussion: This is a study protocol for developing a model to predict treatment response for RA patients receiving CTZ plus MTX in comparison with MTX alone, using a two-stage approach based on IPD-MA. The study will use a new modeling approach, which aims at retaining the statistical power. The model may help clinicians individualize treatment for particular patients.Systematic review registration: PROPSPERO: ID#157595 (Pending).
Identifying incident cancer cases in routinely collected hospital data: A retrospective validation study
Authors: Goldsbury David , Weber Marianne F , Canfell Karen , O’Connell Dianne L 
Published: April 2020

Abstract
Objective Population-level cancer incidence data are critical for epidemiological cancer research, however provision of cancer registry data can be delayed. We previously reported that in a large population-based Australian cohort, registry-based incidence data were well matched by routinely collected hospital diagnosis data (sensitivities and positive predictive values (PPVs) >80%) for six of the 12 most common cancer types: breast, colorectum, kidney, lung, pancreas and uterus. The available hospital data covered more recent time periods. We have since obtained more recent cancer registry data, allowing us to further test the validity of hospital diagnosis records in identifying incident cases. Results The more recent hospital diagnosis data were valid for identifying incident cases for the six cancer types, with sensitivities 81%-94% and PPVs 86%-96%. However, 2%-10% of cases were identified >3 months after the registry’s diagnosis date and detailed clinical cancer information was unavailable. The level of identification was generally higher for cases aged <80 years, those with known disease stage and cases living in higher socioeconomic areas. The inclusion of death records increased sensitivity for some cancer types, but requires caution due to potential false-positive cases. This study validates the use of hospital diagnosis records for identifying incident cancer cases.
Impact of prematurity and the CTG repeat length on outcomes in congenital myotonic dystrophy
Authors: Saito Yu , Matsumura Kenta , Kageyama Misao , Kato Yuichi , Ohta Eiji , Sumi Kiyoaki , Futatani Takeshi , Yoshida Taketoshi 
Published: April 2020

Abstract
Objective: Approximately half of patients with congenital myotonic dystrophy (CDM) are born preterm. Although the CDM severity depends on the CTG repeat length, prematurity may also affect the prognosis in patients with CDM. Given that preterm birth is expected to increase the risk of CDM in newborns, we investigated the outcomes of newborns with CDM according to gestational age to assess prematurity and the CTG repeat length for predicting prognosis. Results: We assessed the outcomes of 54 infants with CDM using data collected from our hospitals and previously published studies. The patients were divided into mild and severe groups based on clinical outcomes. Multivariate logistic regression analysis was performed to estimate odds ratios (ORs) for CDM prognosis according to gestational age and the CTG repeat length and to construct a predictive model. Logistic regression analysis showed both the CTG repeat and gestational age were significantly associated with severe outcomes in patients with CDM (OR: 45.17, 95% CI: 3.22–633.24; p = .0047 and OR: 0.73, 95% CI: 0.59–0.91; p = .0043, respectively). This predictive model for CDM prognosis exhibited good sensitivity (67%) and specificity (86%). Both prematurity and the CTG repeat length were significantly associated with the CDM severity.