bluuebunny/crossref_metadata_2025_split huggingface dataset:
BAI1 Acts as a Tumor Suppressor in Triple-Negative Breast Cancer via Modulating p73 Transactivation
Authors: yang Xia , Wei Ping , Shui Ruohong 
Published: August 2020

Abstract
Background: Brain-specific angiogenesis inhibitor 1 (BAI1) which belongs to putative G-protein-coupled receptors (GPCRs), has been found down-expressed in various cancers and involved in cancer pathogenesis. However, the role and underlying mechanisms of BAI1 in triple negative breast cancer (TNBC) are still unclear. Methods: The expression levels of BAI1 in TNBC samples and cell lines were examined by immunohistochemistry (IHC), quantitative real-time polymerase chain reaction (qRT-PCR), and western blotting (WB). The functional effects of BAI1 on biological behaviors of TNBC cells were detected using plasmid and siRNA for BAI1 overexpression and knockdown, and the underlying mechanisms were investigated by Immunoprecipitation (IP), immunofluorescence (IF) and luciferase reporter assay. Results: BAI1 was downregulated in TNBC tissues and was significantly associated with poor disease-free survival. Functional experiments indicated that BAI1 inhibited cell proliferation and induced cell apoptosis and cell cycle arrest. Additionally, BAI1 overexpressed cells were more sensitive to cisplatin. Mechanistically, BAI1 interacted with MDM2, thereby enhanced p73 transcriptional activity, then promoted p21and BAX mRNA and protein expression. Overexpression of p73 abolished the BAI1 knockdown induced cell proliferation and the G2 phase cell population of TNBC, the sensitivity to cisplatin also rescued by overregulating p73 in BAI1 knockdown TNBC cells. Conclusions: Our results indicate that BAI1 is a promising prognostic factor in TNBC, and the expression of BAI1 inhibits cell proliferation and induces cell apoptosis and cell cycle arrest; Meanwhile, BAI1 increases the sensitivity of TNBC to cisplatin. For the underlying mechanism, BAI1 specifically binds to MDM2, and exerts its anti-tumor function by affecting the transcriptional activity of p73 protein, then inhibits the malignant progression of TNBC. The BAI1/MDM2/p73 axis may represent a potential target in the future research for TNBC.
Stromal Transcriptome Analysis of Human Lobular Breast Cancer Identifies a Role for Pregnancy-Associated-Plasma Protein-A
Authors: Gómez-Cuadrado Laura , Zhao Hong , Souleimanova Margarita , Noer Pernille Rimmer , Turnbull Arran K , Bownes Richard , Oxvig Claus , Bertos Nicholas , Byron Adam , Dixon J Michael , Park Morag , Sims Andrew H , Brunton Valerie G 
Published: August 2020

Abstract
Background: Invasive lobular carcinoma (ILC) is the second most common histological subtype of breast cancer and exhibits a number of clinico-pathological characteristics distinct from the more common invasive ductal carcinoma (IDC). Despite these differences, ILC is treated in the same way as IDC. We set out to identify alterations in the tumor microenvironment (TME) of ILC with potential clinical significance.Methods: We used laser-capture microdissection (LCM) to separate tumor epithelium from stroma in 23 ER+ ILC samples. Gene expression analysis was used to identify genes enriched in the stroma of ILC, but not IDC or normal breast. Results: 45 genes involved in regulation of the extracellular matrix (ECM) were enriched in the stroma of ILC, but not stroma from ER+ IDC or normal breast. Of these, 10 were expressed in cancer-associated fibroblasts (CAFs) and were increased in ILC compared to IDC in bulk gene expression datasets. PAPPA was the most enriched in the stroma compared to the tumor epithelial compartment in ILC. PAPPA encodes pregnancy-associated plasma protein-A (PAPP-A), a metalloproteinase that cleaves insulin-like growth factor-binding protein-4 (IGFBP-4), increasing IGF-1 bioavailability and downstream signaling. Analysis of PAPPA- and IGF1-associated genes identified a paracrine signaling pathway, and active PAPP-A was shown to be secreted from primary CAFs. Comprehensive survival analysis across 3,000 breast cancers identified PAPPA as a potential ILC-specific prognostic marker.Conclusions: This is the first study to demonstrate molecular differences in the TME between ILC and IDC, and it identifies PAPP-A, a CAF-derived proteinase, as a potential prognostic marker.
Genome Wide Association Study on Development and Evolution of Glutinous Rice
Authors: Jiang Conghui , Rashid Muhammad Abdul Rehman , Zhao Yan 
Published: August 2020

Abstract
Background: As a globally known staple food, rice is well domesticated in the world. Various regions have different food preferences, which lead to design the goals for breeding programs. Glutinous rice as a special endosperm type is also consumed as a staple food in East Asian countries by consumers’ preference. Genetic studies on glutinous rice could be conducive to improve rice quality and understand its development and evolution. Genome-wide association study was performed to explore the associated loci/genes underlying glutinous rice by using 2108 rice accessions. Results: A total of 399, 262 and 156 annotated genes with significant loci were identified to be associated with endosperm type. By combining the expression patterns analysis, 127, 81, and 48 candidate genes were screened in whole rice panel, indica, and japonica sub-populations with moderate expression in seeds. There were 32 genes, including three starch synthesis-related genes Wx, SSG6, and OsSSIIa, detected simultaneously in the whole rice panel and subpopulations, playing important role in determining glutinous rice. The main waxy haplotypes of three starch synthesis-related genes were identified by haplotype analysis, while the combined haplotype analyses, revealed that the waxy combined haplotype mainly distributed in Southeast Asia (SEA), SEA islands (SER) and East Asia islands (EAR). Through population structure and genetic differentiation, we proposed the evolutionary model of waxy haplotypes of the three genes from wild rice to japonica, and then to indica.Conclusion: It was concluded that the waxy haplotypes of the three genes firstly generated (or were directly inherited from wild rice) in japonica, and then flowed into indica in SER, SEA and EAR. These results provide valuable information for further gene discovery and understanding the development and evolution for glutinous rice.
Identification of a prognostic three-long noncoding RNA signature in lung squamous cell carcinoma via bioinformatic analysis
Authors: Zheng Rongjiong , Zheng Mengdi , Wang Mingming , Hu Meiling 
Published: August 2020

Abstract
Background

Lung squamous cell carcinoma (LSCC) is a form of cancer that is associated with high rates of relapse, poor responsiveness to therapy, and a relatively poor prognosis. The relationship between long non-coding RNA (lncRNA) expression and LSCC patient prognosis remains to be established.
Methods

In the present study, we discovered that lncRNAs were differentially expressed in LSCC tumor tissues relative to normal control tissues, and we explored the prognostic relevance of these lncRNA expression patterns using data from the Cancer Genome Atlas (TCGA).
Results

These multidimensional data were analyzed in order to identify lncRNA signatures that were associated with LSCC patient survival outcomes. Kaplan-Meier survival curves revealed prognostic capabilities for three of these lncRNAs (LINC02555, APCDD1L-DT and OTX2-AS1). A Cox regression analysis revealed this three-lncRNA signature to be significantly associated with patient survival. Further GO and KEGG analyses revealed that the predicted target genes of these three lncRNAs were also potentially involved in cancer-associated pathways.
Conclusions

Together these results thus indicate that this novel three-lncRNA signature can be used to predict LSCC patient prognosis.
Distribution of the environmental and socioeconomic risk factors on COVID-19 death rate across continental United States: A spatial nonlinear analysis
Authors: Luo Yaowen , Yan Jianguo , McClure Stephen 
Published: August 2020

Abstract
The COVID-19 outbreak has become a global pandemic. Spatial variation in the environmental, health, socioeconomic, and demographic risk factors of COVID-19 death rate is not well understood. Global models and local linear models were used to estimate the impact of risk factors of the COVID-19, but these do not account for the nonlinear relationships between the risk factors and the COVID-19 death rate at various geographical locations. We proposed a local nonlinear nonparametric regression model named geographically weighted random forest (GW-RF) to estimate the nonlinear relationship between COVID-19 death rate and 47 risk factors derived from US Environmental Protection Agency, National Center for Environmental Information, Centers for Disease Control and the US census. The COVID-19 data were employed to a global regression model random forest (RF) and a local model GW-RF. The adjusted R2 of the RF is 0.69. The adjusted R2 of the proposed GW-RF is 0.78. The result of GW-RF showed that the risk factors (i.e. going to work by walking, airborne benzene concentration, householder with a mortgage, unemployment, airborne PM2.5 concentration and percent of the black or African American) have a high correlation with the spatial distribution of the COVID-19 death rate and these key factors driven from the GW-RF were mapped, which could provide useful implications for controlling the spread of COVID-19 pandemic.
Magnitude and Factors Affecting Virological Treatment Failure among HIV Reactive Adults from Selected Hospitals of North Shoa Zone, Amhara Region, Ethiopia.
Authors: Derseh Behailu Tariku , Shewayerga Belay , Dagnaw Abinet , Basha Elyas Admasu 
Published: August 2020

Abstract
Background: Nowadays Human Immuno-deficiency Virus (HIV) is one of the devastating and prevalent virus affecting the globe without a cure. Highly Active Antiretroviral Therapy (HAART) significantly reduced the morbidity and mortality of patients with HIV infection. Although there is increasing global use of antiretroviral therapy (ART) for the treatment of HIV/AIDs, the global trends in ART failure is growing. In developing countries including Ethiopia, particularly in our study settings, information related to magnitude and correlates of virological treatment failure is scarce. Thus, this study aimed at assessing the magnitude of virological treatment failure and associated factors among HIV reactive adults at selected hospitals of north Shoa, Amhara Region, Ethiopia.Methods: a facility based cross-sectional study was conducted among 498 study participants who started their first-line HAART from August 2005 to December 2018. Data were collected from patients’ charts and face-to-face interviews using a structured questionnaire. Bivariable analysis was executed to select candidate predictor variables at a p-value less than 0.2. Multivariable logistic regression (forward stepwise, conditional) analysis was used to identify factors associated with virologic failure at significant level of 5%. Model adequacy check was done by Hosmer and Lemshow (p = 0.57) and Naglkerke R Square (0.46) was calculated to express the variability of virological failure by predictors.Result: More than half 290 (58.2%) of study participants were females. The median age at ART initiation was 40 years with an interquartile range (IQR) of 15 years. The median duration of virologic failure since initiation of treatment was 96 months (IQR) of 72. The magnitude of virological treatment failure was 10.24% (95% CI: 7.57% - 12.91%). Poor ART drug adherence (AOR = 4.54; 95% CI: 2.09, 9.87), CD4 count less than 250 cell/μl (AOR = 24.88; 95% CI: 11.73, 52.81) and Poor Quality of Life (QoL) (AOR = 2.65; 95% CI: 1.12, 6.25) were independent predictors of virologic failure. Conclusion: The magnitude of Virologic ART treatment failure in this study was relatively high. Poor ART drug adherence, patients’ having lower CD4 count and poorer quality of life were predictors of treatment failure. Thus, intervention program that enrich patients’ health related quality of life should be implemented. Moreover, counselling that supplement the importance of drug adherence and reduction of risks that lowers CD4 counts should be given emphasis which in turn helps to prevent first-line ART treatment failure.
COVID-19 related mental health burdens: Impact of educational level and relationship status among low income earners of Western Uganda
Authors: Monima Lemuel Ann , Usman Ibe Michael , Kasozi Kenneth Iceland , Aigbogun Eric . Osamudiamwen , Bassey Victor Archibong , Ifie Josiah , Ssebuufu Robinson , Afodun Adam Moyosore , Terkimbi Swase Dominic , Mbiydzenyuy Ngala Elvis , Adeoye Azeez , Aruwa Joshua Ojodale , Saidi Odoma , Ssempijja Fred , Ayuba John Tabakwot , Onohuean Hope , Kembabazi Stellamaris , Pius Theophilus , Nankya Viola , Matama Kevin , Henry Rachael , Yusuf Helen , Welburn Susan Christina 
Published: August 2020

Abstract
Introduction: The imposed COVID-19 lockdown is taking a toll mental health, with low-income earners considered particularly affected. The study aimed to investigate level of education and relationship status on awareness of mental healthcare and explore how these factors influence mental health among low income earners in Western Uganda. Methods: A cross sectional descriptive study was undertaken among low-income earners in South Western Uganda. Data were collected from two hundred and fifty-three (253) participants using a structured closed ended questionnaire. Anxiety, anger and depression were assessed using a modified generalized anxiety disorder (GAD-7), Spielberger’s State-Trait Anger Expression Inventory-2 (STAXI-2) and Beck Depression Inventory (BDI) item tools respectively. Result: Most respondents were single male individuals with secondary level. Respondents with tertiary level of education and those with partners had higher score (71.7% and 70.28% respectively) for awareness on mental healthcare. Respondents with primary education level and individuals that were single had higher score (46.98% and 43.72% respectively) for anxiety. Respondents with primary education level and those living with partners had higher mean score (56.44% and 56.21% respectively) for anger. Respondents with no formal education and those who had lost partners had higher mean score (32.11% and 30.50% respectively) for depression. Individuals without formal educational and primary education were observed to have a negative correlation (r 2 = 47.4 and 6.4% respectively) with awareness on mental healthcare, and the no formal group had positive correlation with anger and depression (r 2 =1.9 and 0.3% respectively), while other groups were negatively correlated (r 2 =10.1%). The group of single individuals had a negative correlation with awareness on mental healthcare, anger and depression (r 2 =1.9, 0.8 and 0.3% respectively), and a positive correlation with anxiety (r 2 =3.9%). Conclusion: It is evident that education and relationship status influence awareness on mental healthcare and mental health state among low income earners in Western Uganda. Therefore, we advocate for new approaches in mental healthcare awareness programs equipped with robust strategy, which will focus on improving optimal mental health among these set of people.
Comparing Clinical Efficacy of Artificial Intelligence-powered Ultrasound with Pulse Index Continuous Cardiac Output for Monitoring Critically ill Patients
Authors: Fang Yi , Lv Di , Zhou Haidong , Sun Xiaoxiao , Chen Yuanzhuo , Zhuang Yugang 
Published: August 2020

Abstract
Background: To compare safety and clinical efficacy of artificial intelligence (AI)-powered ultrasound with pulse index continuous cardiac output (PiCCO) for monitoring critically ill patients.Methods: Patients who were admitted to our hospital from April to June 2020 were recruited. PiCCO was employed to monitor cardiac output (CO) and extravascular lung water index (ELWI). Simultaneously, an AI-powered ultrasound was used to automatically monitor CO and the left ventricular outflow tract velocity time integral (LVOT-VTI), and Lung ultrasound B line.Results: A total of 41 patients were enrolled, the male/female ratio was 26:15, and the patients’ median age was 73.6±8.85 years old. There was no significant difference between PiCCO and AI-powered ultrasound in monitoring of CO (t = 1.01, P = 0.316), and the correlation between these two techniques was significant (r=0.911; 95% confidence interval (CI): [0.82; 0.96]; P < 0.001). Similarly, the correlation between lung ultrasound and ELWI was significant r=0.770 (95%CI: [0.58; 0.88]; P < 0.001). Conclusions: Clinical management of critically ill patients can be achieved via monitoring techniques, such as PICCO and AI-powered ultrasound.
Effect of Sequentially Fed High Protein, Hydrolysed Protein, and High Fibre Diets on The Faecal Microbiota of Healthy Dogs: A Cross-Over Study
Authors: Martinez-Lopez Lina Maria , Pepper Amy , Pilla Rachel , Woodward Andrew , Suchodolski Jan , Mansfield Caroline 
Published: August 2020

Abstract
Background Dietary content and environmental factors can shape the gut microbiota, and consequently, the way the gut microbiota metabolises fats, carbohydrates and proteins, affecting overall health of the host. We evaluated the impact of 3 diets (high protein, high fibre and hypoallergenic [hydrolysed protein]) diets on the gut microbiota of healthy dogs in a cross-over sequential study. Results We showed that diet can have a large effect on the gut microbiome in dogs, regardless of the order of feeding. High-protein (all meat) diets were characterised by an increase in bacteria belonging to the Fusobacteria and Bacteroidetes phyla, whereas a high-fibre commercial diet correlated with increases in Firmicutes and Actinobacteria phyla. However, the individual dog’s baseline microbiota had the most impact on the magnitude and nature of the changes in response to dietary intervention. Conclusion Our results suggest that the dog faecal microbiome is driven by protein and fibre composition, and targeted modification of these patterns could be useful in the modulation of the gut microbiota in different diseases.
Multiple-level copy number variations in circulating cell-free DNA for prognostic prediction of hepatocellular carcinoma with radical treatments
Authors: Wang Yang , Wang Xiangxu , Zhou Kaixiang , Liu Yang , Bian Zhenyuan , Guo Dongna , Su Liping , Liu Kun , Gu Xiwen , Guo Xu , Tao Kaishan , Xing Jinliang 
Published: August 2020

Abstract
Background

Copy number variations (CNVs) in circulating free DNA (cfDNA) are emerging as minimally invasive prognostic biomarkers for various cancers. However, little has been reported on the multiple-level analysis of cfDNA CNVs for hepatocellular carcinoma (HCC) patients with radical treatments.
Methods

Here, CNVs at genome-wide, chromosomal-arm and bin levels were analyzed in cfDNA from 117 HCC patients receiving radical treatments via low-coverage whole genome sequencing. Then, the relationship between cfDNA CNVs and clinical outcomes was explored. Our results showed that a concordant profile of CNVs was observed between cfDNA and tumor tissue DNA. Three genome-wide CNV indicators including tumor fraction (TFx), prediction score (P-score) and stability score (S-score) were calculated based on genome-wide cfDNA CNVs.
Results

Kaplan-Meier analysis showed that the patients with high TFx, P-score and S-score exhibited a significantly poorer overall survival (OS) and recurrence free survival (RFS) than those with low TFx, P-score and S-score, respectively (All P < 0.05). Furthermore, a group of high frequency cfDNA CNVs at chromosomal-arm level including loss of 4q, 17p, 19p and the gain of 8q, 1q clearly predicted prognosis of HCC patients. Finally, a bin-level risk score was constructed based on three most relevant prognostic bin regions identified by a LASSO model. Patients with high bin-score had a significantly poorer OS than those with low bin-score (P < 0.001).
Conclusion

Altogether, our study indicates that the multiple-level cfDNA CNVs are significantly associated with OS and RFS in HCC patients with radical treatments, suggesting that cfDNA CNVs detected by low-coverage WGS may be used as potential prognostic biomarkers of HCC patients.
The efficacy and safety of immune checkpoints inhibitors plus radiotherapy as a combination therapy for advanced non-small cell lung carcinoma: a meta-analysis
Authors: Yang Dan , Li DaiRong , Wang LuLu , Huang LuMi , Long JianLin , Wu ZhiJuan , Teng Yan 
Published: August 2020

Abstract
BackgroundImmune checkpoint inhibitors have showed good efficacy in advanced non-small-cell lung cancer(NSCLC). This meta-analysis was conducted to explore the therapeutic efficacy and safety of immune checkpoint inhibitors combined with radiotherapy for patients with advanced NSCLC.MethodsWe used many proper keywords to perform a systematic search in databases and performed a meta-analysis of trials that conducted immune checkpoint inhibitors plus radiotherapy as a treatment for advanced non-small-cell lung cancer. The outcomes included objective response rate (ORR), disease control rate (DCR), progression-free survival (PFS), overall survival (OS) and treatment-related adverse events. A fixed-effect or random-effects model was adopted depending on between-study heterogeneity.ResultsTen trials were finally included in this meta-analysis. The combined ORR and DCR was 34% (19%-49%) and 72% (65%-79%). The combined six-month progression-free survival rates (PFSR6m) and one-year overall survival rate(OSR1y) were 50.0% (29.4%-72.8%) and 59.0% (48%-69%). Immune checkpoint inhibitors plus radiotherapy was significantly associated with improvement of PFS (hazards ratio [HR], 0.64; 95% CI 0.46–0.90; P = 0.01), OS (HR, 0.62; 95% CI 0.46–0.85; P = 0.003). In subgroup analyses, the combined ORR was 31.5% (16.4%-46.6%), combined DCR was 72.1% (63.3%-80.9%), combined PFS6m was 50.0% (20.6%-79.5%) and combined OSR1y was 59.7% (48.1%-71.2%) for anti-PD-1/PD-L1 antibody plus radiotherapy. The combined ORR was 19.5% (9.1%-29.8%) for anti-CTLA4 antibody plus radiotherapy. The combined PFS6m and OSR1y were 58.9% (26.2%-91.7%) and 59.7% (29.7%-89.8%) respectively for the concurrent therapy group. And the combined PFS6m and OS1y were 55.2% (41.6%-68.8%) and 55.7% (42.1%-69.3%) for sequential therapy. For the low-dose radiotherapy group. The combined PFS6m and OS1y were 45.9% (27.0%-64.8%) and 51.6% (37.5%-65.6%). The combined PFS6m and OS1y were 71.1% (37.9%-104.4%) and 67.4% (29.2%-105.6%) separately for high-dose radiotherapy group. When using as first-line therapy. The combined ORR was 53.8% (23.6%-84.1%) and combined ORR was 76.5% (65.0%-88.1%). While as subsequent therapy, the combined ORR and DCR were 25.9% (14.7%-37.2%) and 69.9% (60.9%-78.9%). The combined PFS6m and OS1y were 51.1% (40.3%-61.9%) and 51.8% (40.9%-62.7%).ConclusionsImmune checkpoint inhibitors plus radiotherapy might be an effective and tolerable option as a treatment for advanced NSCLC.