bluuebunny/crossref_metadata_2025_split huggingface dataset:
Immediate implant placement in anterior teeth with grafting material of autogenous tooth bone vs xenogenic bone
Authors: Wu Dong , Zhou Lin , Lin Jichao , Chen Jiang , Author) wenxiu huang(Former Corresponding , Author) Yonghui Chen(New Corresponding 
Published: November 2019

Abstract
Background: The aim of the study was to compare the efficacy of the autogenous tooth bone and xenogenic bone grafted in immediate implant placement with bone defect.
Methods: Thirty patients whose compromised anterior teeth need immediate implant placement were enrolled. Autogenous tooth bone made from the extracted teeth by chair-side or the xenogenic bone were used to repaired bone defect. Clinical examination, radiographic assessment about the horizontal bone change in the level of 0mm, 3mm and 6mm below the implant neck and the marginal bone loss were made immediately, 6 and 12 months after implant placement. Questionnaire of feeling was made at the time of removing the sutures.
Results: All implants achieved the success criteria without any complications at the follow-up period. The percent of the horizontal bone change and the marginal bone loss at 6 and 12 months were almost the same between two groups (P>.05). The horizontal bone loss at the first or the latter 6 months is almost the same (P>.05). But the horizontal bone loss at the 6 mm level is less than the 0 mm and 3 mm levels at 6 and 12 months (P<.05). Meanwhile patients seem more satisfied with the autogenous tooth bone derived from the questionnaire.
Conclusion: The bone volume change in the facial part of the implant after immediate placement is almost the same between two groups. Providing clinical evidence that the autogenous tooth bone made from compromised tooth can be an acceptable bone graft material.
Complete genome sequence of Acidithiobacillus ferrooxidans YNTRS-40, a strain of the ferrous iron- and sulfur-oxidizing acidophile
Authors: Zhang Yu , Zhang Shuang , Zhao Dan , Ni Yongqing , Wang Weidong , Yan Lei 
Published: November 2019

Abstract

Acidithiobacillus ferrooxidans YNTRS-40 ( A. ferrooxidans ) is a chemolithoautotrophic aerobic bacterium isolated from Tengchong, Yunnan Province, China and with a broad growth pH range of 1.0-4.5. This study reported the genome sequence of this strain and the information of genes related to the adaptation of diverse stresses and the oxidation of ferrous iron and sulfur. Results showed that YNTRS-40 possesses chromosomal DNA (3,209,933-bp) and plasmid DNA (47,104-bp). The complete genome of 3,257,037-bp was consist of 3349 CDS genes comprising 6 rRNAs, 52 tRNAs and 6 ncRNAs. There are many encoded genes associated with diverse stresses adaptation and ferrous iron and sulfur oxidation such as rus operon, res operon, pet Ⅰ , pet Ⅱ , sqr gene, doxDA , cydAB and cyoABCD . This study will provide essential information for further application of A. ferrooxidans YNTRS-40 in industry.
Separating the signal from the noise in metagenomic cell-free DNA sequencing
Authors: Burnham Philip , Gomez-Lopez Nardhy , Heyang Michael , Cheng Alexandre Pellan , Lenz Joan Sesing , Dadhania Darshana , Lee John Richard , Suthanthiran Manikkam , Romero Roberto , De Vlaminck Iwijn 
Published: November 2019

Abstract
Background: Cell-free DNA (cfDNA) in blood, urine and other biofluids provides a unique window into human health. A proportion of cfDNA is derived from bacteria and viruses, creating opportunities for the diagnosis of infection via metagenomic sequencing. The total biomass of microbial-derived cfDNA in clinical isolates is low, which makes metagenomic cfDNA sequencing susceptible to contamination and alignment noise. Results: Here, we report Low Biomass Background Correction (LBBC), a bioinformatics noise filtering tool informed by the uniformity of the coverage of microbial genomes and the batch variation in the absolute abundance of microbial cfDNA. We demonstrate that LBBC leads to a dramatic reduction in false positive rate while minimally affecting the true positive rate for a cfDNA test to screen for urinary tract infection. We next performed high throughput sequencing of cfDNA in amniotic fluid collected from term uncomplicated pregnancies or those complicated with clinical chorioamnionitis with and without intra-amniotic infection. Conclusions: The data provide unique insight into the properties of fetal and maternal cfDNA in amniotic fluid, demonstrate the utility of cfDNA to screen for intra-amniotic infection, support the view that the amniotic fluid is sterile during normal pregnancy, and reveal cases of intra-amniotic inflammation without infection at term.
Macrophage-derived Netrin-1 participates in endometriosis-associated pain
Authors: Ding Shaojie , Guo Xinyue , Zhu Libo , Wang Jianzhang , Li Tiantian , Yu Qin , Zhang Xinmei 
Published: November 2019

Abstract
Background: Endometriosis is a common disease in reproductive-age women and usually causes pelvic pain. Endometriosis pain is considered as a kind of neuropathic pain and infiltrating nerve fiber in endometriotic lesions may play an important role. Netrin-1 is widely reported as an axon guidance cue that regulates axonal attraction or rejection in neural injury and regeneration. In this study, we aim to determine the role of Netrin-1 in endometriosis-related pain. Methods: Peripheral blood, peritoneal fluid, and endometrial tissues were sampled from women with (n=37) and without (n=23) endometriosis. Serum Netrin-1 concentrations, endometrial expression levels of Netrin-1 and its receptors including DCC, A2BAR, UNC5B, UNC5C and DSCAM were assessed. The polarization phenotypes of the peritoneal macrophages were identified by detecting the marker expression of M1 (CD86+) /M2 (CD163+) macrophages via flow cytometry. Lipopolysaccharide (LPS) and interferon gamma (IFN-γ) stimulated human monocytic cell line (THP-1) and rat alveolar macrophage-derived cell line (NR8383) cells to induce M1 phenotype macrophages. The expression levels of M1 markers and Netrin-1 in THP-1/NR8383 cells were determined. Results: The expression levels of Netrin-1 in serum and endometriotic lesions were significantly higher in women with endometriosis when compared with those in women without endometriosis (P<.05), and both were correlated with pain symptoms (P<.05). Netrin-1 was co-expressed with CD 68 (a macrophage marker) in endometriotic lesions, and was synthesized and secreted by THP-1 and NR8383 cells in process of M1 polarization. In women with endometriosis, peritoneal macrophages were polarized towards M1 phenotype. In addition, increased expression of DCC and A2BAR, and decreased expression of UNC5B, UNC5C and DSCAM in endometriotic lesions were found. Conclusions: These results suggest that Netrin-1 production by macrophages in endometriotic lesions may play an important role in endometriosis pain.
Exploring the reasons why women prefer to give birth at home in rural northern Ghana: A qualitative study
Authors: Adatara Peter , Strumpher Johanita , Ricks Esmeralda 
Published: November 2019

Abstract
Background

Skilled birth care during childbirth is reported in literature as one critical strategy for reducing maternal morbidity and mortality. Despite the importance of birth care provided by skilled birth attendants, women in rural areas of northern Ghana still give birth utilising the birth services provided by Traditional Birth Attendants.

Methods

A qualitative approach was adopted to explore the reasons for women preference to deliver at home in rural areas of northern Ghana. Individual interviews were used to obtain a thick description of factors and experiences of women associated with home births in rural areas in Ghana. The research population consisted of 10 women who utilised birth care services provided by Traditional Birth Attendants in a rural of northern Ghana. Data collected from the interviews were transcribed verbatim and analysed to identify themes.

Results

Findings showed that women gave birth at home in rural northern Ghana due to: Perceived poor quality of care and conduct of Skilled Birth Attendants; women received better care from Traditional Birth Attendants; due to financial constraints and women lacked access to healthcare facilities in the rural areas.

Conclusion

The study highlighted some barriers experienced by participants to the utilisation of birth care services provided by skilled birth attendants in rural northern Ghana. There is a need for skilled birth attendants to collaborate with Traditional Birth Attendants in rural and deprived communities to provide quality and culturally acceptable care in the rural communities to encourage women to patronise the services provided by skilled birth attendants.
Identification of a robust functional subpathway signature for pancreatic ductal adenocarcinoma by comprehensive and integrated analyses
Authors: Wang Ping , Zhang Chunlong , Li Weidong , Zhai Bo , Jiang Xian , Reddy Shiva , Jiang Hongchi , Sun Xueying 
Published: November 2019

Abstract
Background: Pancreatic ductal adenocarcinoma (PDAC) is a highly lethal malignancy and its mortality continues to rise globally. Because of its high heterogeneity and complex molecular landscapes, published gene signatures have shown low specificity and robustness. Functional signatures containing a group of genes involved in similar biological functions display a more robust performance. Methods: The present study was designed to excavate potential functional signatures for PDAC by analyzing maximal number of datasets extracted from available databases with a recently developed method of FAIME (Functional Analysis of Individual Microarray Expression) in a comprehensive and integrated way. Results: By using appropriate search strategies, we extracted 11 PDAC datasets from GEO, ICGC and TCGA databases. By systemically analyzing these datasets, we identified a robust functional signature of subpathway (path:00982_1), which belongs to the drug metabolism-cytochrome P450 pathway. The functional signature has displayed a more powerful and robust capacity in predicting prognosis, drug response and chemotherapeutic efficacy for PDAC, particularly for the classical subtype, in comparison with published gene signatures and clinically used TNM staging system. This signature was further verified by meta-analyses and validated in cell line databases and available clinical datasets. Conclusion: This is the first functional signature for PDAC identified from the largest number of datasets by using comprehensive and integrated analyses. The novel signature warrants a further investigation, since it is like to improve the current systems for predicting the prognosis and monitoring drug response, and to serve a potential linkage to therapeutic options for combating PDAC.
Genome-wide analysis of chalcone synthase (CHS) family from eggplant (Solanum melongena L.) in flavonoid biosynthetic pathway and expression pattern in response to heat stress
Authors: Wu Xuexia , Zha Dingshi 
Published: November 2019

Abstract
Background Enzymes of chalcone synthase (CHS) family participate in the synthesis of a series of secondary metabolites in plants, fungi and bacteria. Some of these metabolites have a wide variety of biological functions such as flower pigmentation, protection against UV radiation, pathogen defense, auxin transport and pollen fertility. CHS also showed significant correlation to the accumulation patterns of anthocyanin. The peel color mainly determined by the content of anthocyanin, is a majority economic trait for eggplant affected by heat stress. Results A total of 7 CHS ( SmCHS1-7 ) putative genes were identified in genome-wide of eggplant ( S. melongena L . ). The SmCHS genes distribute on 7 scaffolds and were classified into 3 clusters. Phylogenetic relationships analysis showed that 73 CHS genes from 7 Solanaceae species were classified into 10 groups. SmCHS5 , SmCHS6 and SmCHS7 were continuously down-regulated under 38℃ and 45℃ treatment, while SmCHS4 was up-regulated under 38℃ but little change at 45℃ in peel. Expression profiles of anthocyanin biosynthesis key genes families showed that the PAL, 4CL and AN11 genes were mainly expressed in all five tissues. CHI, F3H, F3’5’H, DFR, 3GT and bHLH1 genes were expressed in flower and peel. Under heat stress, 52 key genes expression level were reduced under heat stress. By contrast, expression patterns of eight key genes similar to SmCHS4 up-regulated at the 38℃-3h. Conclusions Comparative analysis of putative CHS protein biochemical characteristics, cis -regulatory elements, regulatory network revealed that SmCHS genes family have conservation gene structure and functional diversification. SmCHS showed two or more expression patterns and execute multiple functions to regulate anthocyanin content. Combined with regulatory networks, it is possible to further understand the regulation mechanism of peel color in eggplant.
Clinicopathological variables influencing overall survival, recurrence and post-recurrence survival in resected stage I non-small-cell lung cancer
Authors: Wang Chengdi , Wu Yuxuan , Shao Jun , Liu Dan , Li Weimin 
Published: November 2019

Abstract
Background: To investigate clinicopathological variables influencing overall survival, overall recurrence, and post-recurrence survival (PRS) in patients who experienced curative-intent surgical resection of stage I non-small-cell lung cancer (NSCLC).
Methods: We investigated a series of 1,387 patients with stage I NSCLC who underwent surgical resection from 2008 to 2015. The effecting clinicopathological factors on death, recurrence, and PRS were evaluated by Kaplan-Meier estimates and cox regression analysis.
Results: Among the 1,387 stage I patients, 301 (21.7%) experienced recurrence. The 5-year cumulative incidence of recurrence (CIR) for all patients was 20.2% and median PRS was 25.5 months. The older age (P=0.036), p-stage IB (P=0.001), sublobar resection(P＜0.001), histology subtype (P＜0.001), and lymphovascular invasion (LVI) (P=0.042) were significantly associated with worse overall survival. Among 301 recurrent patients, univariable analysis indicated that p-stage IB (versus IA) (P＜0.001), LVI (P＜0.001) and visceral pleural invasion (VPI) (P＜0.001) were remarkably correlated with the higher incidence of recurrence. Taking the clinicopathological variables on PRS into consideration, smoking history (P=0.043), non-adenocarcinoma (P=0.013), high architectural grade of LUAD (P=0.019), EGFR wild status (P=0.002), bone metastasis (P=0.042) and brain metastasis (P=0.040) were substantially related with poorer PRS. Multivariate analysis demonstrated that high architectural grade of LUAD (P=0.008), brain metastasis (P=0.010) and bone metastasis (P=0.043) were independently associated with PRS.
Conclusion: In patients with resected stage I NSCLC, the older age, p-stage IB (versus IA), sublobar resection, histology subtype, and LVI were significantly associated with worse overall survival. P-stage IB (versus IA), LVI, and VPI were significantly correlated with the higher incidence of recurrence. High architectural grade of LUAD, brain metastasis and bone metastasis were independent risk factors with PRS.
High-throughput RNAi screen identifies ILK as a target to overcome intrinsic EGFR-TKI resistance of lung squamous carcinoma
Authors: Ju Lixia , Dong Zhiyi , Yang Juan , Li Jing , Ren Rongzheng 
Published: November 2019

Abstract
Although targeted therapy has made a significant efficacy in lung adenocarcinoma, there are still no effective targeted drugs for lung squamous cell carcinoma (SqCC). Moreover, immunotherapy only prolonged the OS of lung SqCC for less than 5 months, so till now, chemotherapy and radiotherapy are still the main treatments of advanced SqCC. Lung SqCC patients express higher epithelial growth factor receptor (EGFR) than adenocarcinoma patients, but they are intrinsic resistant to EGFR-tyrosine kinase inhibitors (EGFR-TKIs). Therefore, if this resistance can been reversed, it would benefit to most of the SqCCs. Herein a high-throughput RNAi technology was used to screen the genes related with EGFR-TKI erlotinib resistance of lung SqCCs, and then Integrin-linked kinase (ILK) was found to be the most effective gene. We also studied the effects of ILK on erlotinib resistance in cell line and ILK expression in SqCC and adenocarcinoma patients. At last we analyzed the mechanism of ILK in EGFR-TKIs resistance using Pathway Analysis, GO Analysis and Ingenuity Pathway Analysis (IPA). ILK knockout could overcome erlotinib resistance via inhibited cell proliferation, induced apoptosis and blocked the cells at G2/M phase. ILK was expressed significantly higher in SqCC patients than in adenocarcinoma patients with sensitizing EGFR mutations. Moreover, the cell cycle pathway of G2/M DNA Damage and checkpoint regulation was identified significantly inhibited by ILK knockout in IPA, Pathways and GO analysis. Our results may provide further understanding of EGFR-TKIs resistance in lung SqCCs and thus aiding the development of potential targeted therapies for lung SqCCs.
Clinicopathological and Prognostic Significance of Platelet-Lymphocyte Ratio (PLR) in Gastric Cancer: A Meta-Analysis
Authors: Zhang Xunlei , Zhao Wenjing , Yu Yang , Qi Xue , Song Li , Zhang Chenfei , Li Guoxing , Yang Lei 
Published: November 2019

Abstract
Background: Systemic inflammatory parameters, such as the elevator PLR (platelet-lymphocyte ratio), have been found to be associated with the prognosis in gastric cancer (GC); however, the results remain controversial. So we aimed to evaluate the prognostic role of the PLR in gastric cancer by conducting this meta-analysis.
Methods: We performed a systematic literature search in PubMed, Embase and the Cochrane Library. The hazard ratio (HR) /Odds Ratio (OR) and its 95% confidence (CI) of survival outcomes and clinicopathological parameters were calculated.
Results: A total of 38 studies (39 cohorts) with 23,317 GC patients were included in the final meta-analysis. The pooled results showed that elevated PLR was significantly associated with poor overall survival (OS) (HR: 1.37, 95% CI: 1.25-1.51, p < 0.001; I2= 82.10%, Ph < 0.001) and disease-free survival (DFS) (HR 1.52, 95%CI 1.22–1.90, P< 0.001, I2= 88.6%, Ph< 0.001) of GC patients. Furthermore, patients with elevated PLR had a higher risk of lymph node metastasis (OR = 1.33, 95% CI: 1.03–1.70, p=0.027), serosal invasion (T3 +T4) (OR = 1.58, 95% CI: 1.09–1.31, p=0.017) and increased advanced stage (III+IV) (OR = 1.37, 95% CI: 1.00–1.89, p=0.050).
Conclusions: This meta-analysis demonstrated that elevated PLR was a prognostic factor for poor OS and DFS, and associated with clinicopathological parameters in patients with GC.
Predictors of the Number of Installs in Psychiatry Smartphone Apps: Systematic Search on App Stores and Content Analysis
Authors: Pinheiro Mariana , Serra Madalena , Pereira-Azevedo Nuno 
Published: November 2019

Background
Mental health is integral to our salubrity, but mental disorders are very debilitating and common. Therefore, it is critical to provide accessible, timely, and inexpensive mental care. This can be done through mobile health (mHealth), namely, mobile medical apps, which are gaining popularity among clinicians and patients. mHealth is a fast-paced field, and there is significant variation in the number of installs among psychiatry apps. However, the factors that influence psychiatry app installs have yet to be studied.

Objective
This study aimed to identify predictors of the number of app installs in psychiatry.

Methods
A literature review identified which factors influence app installs. Psychiatry apps available in the Google Play Store were reviewed, and publicly available data were collected. A multivariate ordinal logistic regression analysis was performed to evaluate the effect of said factors on the number of installs.

Results
Our search identified 128 psychiatry apps: 2.3% (3/128) had never been installed, approximately half (53.1%, 68/128) had less than 500 installs, and only 0.8% (1/128) had over 10,000,000 installs. A multivariate logistic regression analysis identified that apps with a lower price (P<.001), a higher rating (P<.001), optional in-app purchases (P<.001), and age restriction (P=.04) had a higher number of installs. The involvement of a psychiatrist or other health care professional (HCP) had no statistically significant influence on the number of installs. Only data from the Google Play Store and the developers’ websites were available for analysis, and the depth of involvement of HCPs was impossible to document.

Conclusions
Psychiatry apps with a lower price, optional in-app purchases, age restriction, and a higher rating are expected to have a higher number of installs. Unlike other medical fields, in this study, the explicit participation of psychiatrists in app development was not a significant predictor of the number of installs. Research is needed to identify other factors that may influence the number of installs, as that can help mHealth app development.
Brief Intervention to Prevent Sexually Transmitted Infections and Unintended Pregnancies: Protocol of a Mixed Methods Feasibility Study
Authors: Stephenson Rob , Metheny Nicholas , Goldenberg Tamar , Bakunina Nataliia , De Vasconcelos Sofia , Blondeel Karel , Kiarie James , Toskin Igor 
Published: November 2019

Background
Sexual well-being is fundamental to physical and emotional health, and the ability to achieve it depends on access to comprehensive sexuality information and high-quality sexual health care from evidence-informed, nonjudgmental providers. Adequate and timely delivery of these components to individuals who are at high risk for sexually transmitted infections (STIs), including HIV, and unintended pregnancies promotes sexual health and mitigates consequences arising from risky sexual behavior. Brief interventions that allow health care providers to improve the information available to clients and motivate and help them to develop risk-reduction skills are seen as efficient ways to improve knowledge, change client behavior, and reduce provider stigma regarding sexual health.

Objective
The aim of the study is to evaluate five aspects of feasibility (acceptability, willingness, safety, satisfaction, and process) of a brief sexuality-related communication (BSC) intervention based on motivational interviewing and behavior change techniques in primary health care settings in low- and middle-income countries (LMICs).

Methods
This protocol outlines a multisite, multiphase study of feasibility of a BSC intervention in primary health care settings in LMICs that will be examined across four phases of the study. Phases I through III involve the collection of formative, qualitative data to examine provider and client perceptions of the feasibility of the intervention, adaptation of the intervention guide, and training providers on how to implement the final version of the BSC intervention. During phase IV, the feasibility of the intervention will be tested in a nonrandomized pre-post test trial where providers and clients will be followed for 6 months and participate in multiphase data collection.

Results
Phase I is currently underway in Moldova, and phases I and II were completed in Peru in late 2019. Results are expected for the feasibility study in 2021.

Conclusions
This feasibility study will determine whether the implementation of brief intervention programs aimed at improving sexual health outcomes is possible in the constraints of LMIC health systems and will add to our understanding of factors shaping clinical practice among primary care providers.

International Registered Report Identifier (IRRID)
DERR1-10.2196/15569