bluuebunny/crossref_metadata_2025_split huggingface dataset:
LncRNA AWPPH as a Prognostic Predictor in Human Cancers: Evidence From Meta-analysis
Authors: Li Yongfeng , Rui Xinmiao , Chen Daobao , Xuan Haojun , Yang Hongjian , Meng Xuli 
Published: December 2020

Abstract
Background: Long noncoding RNA associated with poor prognosis of hepatocellular carcinoma (AWPPH) is a novel oncogene and dysregulated in a variety of human cancers. It has been revealed to be associated with the clinicopathological features and prognosis. However, the prognostic value of AWPPH in various cancers remains unclear. Therefore, we perform this meta-analysis to evaluate the relationship between AWPPH expression and clinical outcomes in human cancers.Methods: Comprehensive literature search was performed in PubMed, Web of Science, CNKI and Wangfang databases, and eligible studies were obtained according to the inclusion and exclusion criteria. The pooled hazard ratios (HRs) and odds ratios (ORs) were applied to assess the clinical value of AWPPH expression for overall survival (OS) and clinicopathological features.Results: A total of 19 articles including 1699 cancer patients were included in the study. The pooled results demonstrated that evaluated AWPPH expression was positively related to a poorer overall survival of patients with cancers (HR=1.79, 95%CI: 1.44-2.14, P<0.001). Subgroup analysis revealed that tumor type and sample size affect the predictive value of AWPPH on OS, whereas cut-off value and HR estimation method have no impact on it. In addition, the pooled data also showed that AWPPH was positively linked to advanced TNM stage (OR=2.67, 95%CI: 1.86-3.83, P<0.001) , bigger tumor size (OR=2.64, 95%CI:1.47-4.73, P=0.001), macro-vascular invasion (OR=2.08, 95%CI: 1.04-4.16, P=0.04) and lymph node metastasis (OR=2.68, 95%CI: 1.82-3.96, P<0.001). Moreover, the results of the trim and fill analysis confirmed the reliability of our finding. Conclusions: Upregulation of AWPPH was associated with advanced TNM stage, bigger tumor size, worse lymph node metastasis, macro-vascular invasion, and shorter overall survival, suggesting that AWPPH may serve as a biomarker for prognosis and clinicopathological characteristics in human cancers.
Evaluation of prosthetic complications and tumor recurrence with the single energy metal artifact reduction algorithm in patients with hip tumor prostheses
Authors: Zhang Fangling , Zhang Xiaoling , Ma Ling , Li Ruocheng , Zhang Zhaohui , Zeng Donglin , Ding Lei 
Published: December 2020

Abstract
Background: To evaluate the effectiveness of the single energy metal artifact reduction (SEMAR) algorithm with a second-generation 320-row multi-detector computed tomography (MDCT) on complications and tumor recurrence detection in patients with hip tumor prostheses.Methods: From February 2016 to June 2019, 31consecutive patients with tumor prostheses of the hip joint underwent CT scans. Lesions were confirmed by histology or clinical and imaging follow-up. Images were reconstructed using 2 methods: iterative (IR) algorithm alone and SEMAR algorithm (IR+ SEMAR). Two radiologists graded the image quality visually by a 6-point (from 0 to 5) ordinal scale. Standard deviations (SD) of CT attenuation value defined as the artifact index (AI) were compared between the two reconstructed methods. Paired sample t-test was adopted to compare the AI values on IR and SEMAR images. Wilcoxon matched-pairs signed rank test was performed to compare the visual scores on IR and SEMAR images. A p- value less than 0.05 was considered statistically significant. Results: The artifacts of the SEMAR images were reduced compared to the Non-SEMAR images (113.94 ±128.54 vs 35.98 ± 53.75HU，t=2.867, P < 0.05). 20 and 16 more lesions were detected by observer 1 and observer 2 with SEMAR algorithm respectively. The mean scores of lesions without SEMAR were 1.39 ± 1.45 (observer 1) and 1.55± 1.34 (observer 2); with SEMAR, the scores were significantly higher, 4.42±0.56 (z=-4.752, p < 0.001) and 4.54± 0.72 (z=-4.837, p < 0.001) respectively. Conclusion: The SEMAR algorithm can effectively reduce metal artifacts in patients with hip tumor prostheses and increase the diagnostic accuracy of prosthetic complications and tumor recurrence.
HINT3 suppresses AKT/mTOR signaling activity during breast cancer tumorigenesis through transcriptionally activation of PTEN
Authors: Ju Qi , Liu Yaobang , Lian Bing , Li Hong , Chai Dahai , Gao Yali , Wang Yanbai , Li Jinping 
Published: December 2020

Abstract
Background
Histidine triad nucleotide-binding (HINT) protein belongs to the histidine triad proteins family. Recent studies have shown that HINT1 and HINT2 play pivotal roles in cancer growth. However, the function of HINT3 in cancers, including breast cancer (BRCA) remains to be determined. In the present study, we investigated the role of HINT3 in BRCA.
Methods
The clinical relevance of HINT3 in BRCA was analyzed using the datasets from The Cancer Genome Atlas. HINT3 was over-expressed and knocked down using lentivirus system. qRT-PCR and Western blot assays were performed to detect mRNA and protein expression. CCK-8 and colony formation assays were used to assess cell proliferation. Migration was analyzed using Transwell assay. Luciferase reporter activity assay was performed using pGL3.Basic/TK system. Xenogrfted tumorigenesis was performed to evaluate the effect of HINT3 on tumor development.
Results
HINT3 was down-regulated in BRCA tissues based on TCGA analysis and our qPCR analysis. TCGA database also showed that HINT3 transcript was much lower in BRCA tissues with higher stage. In vitro, HINT3 knockdown promoted the cell proliferation, colony growth and EDU cooperation in MCF7 and MDA-MB-231 cells. Oppositely, HINT3 overexpression suppressed the DNA synthesis and proliferation in both cells. In vivo, HINT3 ectopic expression blunted the xenografted tumorigenesis of MDA-MB-231 cells. Furthermore, HINT3 silencing or overexpression enhanced and inhibited the migration capacity of MCF7 and MDA-MB-231 cells, respectively. Lastly, HINT3 upregulated PTEN at transcription level, which resulted in inactivation of AKT/mTOR signaling in vitro and in vivo.
Conclusions
Taken together, HINT3 inhibits PTEN/AKT/mTOR signaling pathway and suppresses the proliferation, growth, migration and tumor development of BRCA cells.
The gut microbial composition in polycystic ovary syndrome with insulin resistance: Findings from a normal-weight Population
Authors: He Fangfang , Li Yu-mei 
Published: December 2020

Abstract
Background
A few studies have reported on the relationship between intestinal flora dysbiosis and clinical characteristics in polycystic ovary syndrome (PCOS). But the structure and characteristics of gut microbiota in PCOS have not been fully elucidated.
Objective
To analyze the composition of the Intestinal flora population in normal-weight women with PCOS and insulin resistance(IR) compared to PCOS alone and healthy women.
Methods
The study included 14 PCOS patients with insulin resistant(PCOS-IR) and 12 PCOS alone༈PCOS-NIR༉,and 10 age- and body mass index-matched healthy control women. BMI: 18.5–23.9 kg/m2. The bacterial 16S rDNA V3-V4 fragment was amplified and sequenced. The sequencing data were analyzed for species annotation, community diversity, inter-group differences, to explore the composition characteristics of gut microbial of the subjects and their correlation with clinical parameters.
Results
No significant difference in diversity was observed between PCOA and sample cluster analysis among the three groups (Beta-diversity) and Alpha-diversity. The relative abundance of Rothia, Ruminococcus, and Enterococcus were significantly higher in the PCOS-IR group than in the other two groups (P < 0.05), whereas the abundance of the Prevotella was dramatically decreased (P < 0.05). The abundance of Enterococcus was positively correlated with waist circumference, hip circumference, diastolic blood pressure, and insulin resistance index. Meanwhile, Rothia abundance was positively associated with waist circumference and free fatty acids.
Conclusion
The gut microbial composition of PCOS patients with insulin resistance is different from that of PCOS alone and healthy women. The difference is correlated with the clinical characteristics of PCOS, with regards to insulin resistance, abdominal obesity, free fatty acids, and other indicators. PCOS-IR patients have an increased abundance of Enterococcus. It may affect the intestinal environment of the host by enriching the metabolic pathways related to insulin resistance, leading to the occurrence and development of PCOS.
Low expression of circular RNA hsa_circ_0078607 predicts poor prognosis in high-grade serous ovarian cancer
Authors: Zhang Nan , Yang Zhiyou , Jin Yue , Cheng Shanshan , Yang Jiani , Wang Yu 
Published: December 2020

Abstract
Background

Ovarian cancer remains one of the most lethal malignancies in women which is typically diagnosed at a late stage and has no effective screening strategy. It is essential to explore novel biomarkers for the diagnosis and prognosis of ovarian cancer, as well as therapeutic targets. Recent studies have shown that circRNAs participate in ovarian cancer progression by regulating various processes and being able to act as potential biomarkers for ovarian cancer diagnosis and prognosis. In the present study we aimed to explore the prognostic role of circ_0078607 in high-grade serous ovarian cancer.
Results

The expression of circ_0078607 in 49 high-grade serous ovarian cancer and adjacent non-cancerous tissue samples were detected by quantitative real-time polymerase chain reaction (qRT-PCR). We noticed that circ_0078607 expression was significantly downregulated in ovarian cancer tissues compared with adjacent non-cancerous tissues. Besides, patients with low circ_0078607 expression exhibited parameters associated with poor prognosis, including advanced FIGO stage and higher serum CA125 level. Kaplan-Meier survival curve analysis showed that both progression-free survival and overall survival were significantly shortened in patients with low circ_0078607 expression. Cox regression model analysis showed that low expression of circ_0078607 was an adverse prognostic indicator for high-grade serous ovarian cancer patients.
Conclusions

Low expression of circ_0078607 might be an adverse prognostic indicator for high-grade serous ovarian cancer patients.
Mycobacterium tuberculosis latency-associated antigen Rv1733c SLP improves the accuracy of differential diagnosis of active tuberculosis and latent tuberculosis infection
Authors: Zhang Lifan , Ma Huimin , Wan Shijun , Zhang Yueqiu , Gao Mengqiu , Liu Xiaoqing 
Published: December 2020

Abstract
Background
The differential diagnosis of active tuberculosis(ATB) and latent tuberculosis infection(LTBI) is still challenging. The objective of the study was to evaluate the accuracy of the novel M. tuberculosis latency-associated antigens Rv1733c and Rv1733c SLP for differentiating ATB from LTBI.
Methods
A case-control study was designed to enroll pathogen-confirmed ATB cases admitted to the Peking Union Medical College Hospital and Beijing Chest Hospital, whereas those with LTBI were denoted as the control group. The Fluorescence-Immunospot (FluoroSpot) assay was used to detect the frequencies of IL-2-, IFN-γ-secreting T cells stimulated by the M. tuberculosis latency-associated antigens Rv1733c and Rv1733c SLP. The combination of the ESAT-6/CFP-10-Fluorospot test was evaluated with regard to the sensitivity, specificity, predictive value and likelihood ratio for the differential diagnosis of ATB and LTBI.
Results
A total of 20 pathogens-confirmed TB and 28 LTBI cases were included. The sensitivity and specificity of ESAT-6/CFP-10-FluoroSpot for the differential diagnosis of ATB and LTBI were 95% (95% CI, 75.13–99.87%) and 82.14% (95% CI, 63.11–93.94%), respectively. Following stimulation with Rv1733c and Rv1733c SLP, the maximum AUROC was 0.711 (95% CI, 0.566–0.856) as determined by the ROC curve, which was used to assess the frequency of single IL-2-secreting T cells stimulated by Rv1733c SLP. The cutoff value of 0 SFCs/2.5 × 105 PBMCs was used for the analysis. The frequency, sensitivity and specificity of Rv1733c SLP for differentiating ATB and LTBI were 75% (95% CI, 50.90–91.34%) and 60.71% (95% CI, 40.58–78.50%), respectively. The ESAT-6/cfp-10-fluorospot was combined with the frequency of single IL-2-secreting T cells, which were stimulated by Rv1733c SLP for the differential diagnosis of ATB and LTBI. This resulted in an increased sensitivity and specificity to 100% (95% CI, 83.16–100.00%), as determined by the parallel test and to 92.86% (95% CI, 71.77–97.73%) as determined by the serial test, respectively.
Conclusions
Rv1733c SLP has the potential to be used as a candidate antigen for T cell-based tuberculosis diagnostic tests, in combination with ESAT-6 and CFP-10, to differentiate between ATB and LTBI diagnosis.
Bio-lipid production from crude glycerol and lignocellulosic hydrolysate with oleaginous yeasts
Authors: Chmielarz Mikolaj , Blomqvist Johanna , Sampels Sabine , Sandgren Mats , Passoth Volkmar 
Published: December 2020

Abstract
Background: Crude glycerol (CG) and hemicellulose hydrolysate (HH) are low- value side-products of biodiesel transesterification and pulp- and paper industry, respectively, which can be converted to microbial lipids by oleaginous yeasts. This study aimed to test the ability of oleaginous yeasts to utilise CG and HH and mixtures of them as carbon source. Results: Eleven out of 27 tested strains of oleaginous yeast species were able to grow in plate tests on CG as sole carbon source. Among them, only one ascomycetous strain, belonging to Lipomyces starkeyi , was identified, the other 10 strains were Rhodotorula spec. When yeasts were cultivated in mixed CG/ HH medium, we observed an activation of glycerol conversion in the Rhodotorula strains, but not in L. starkeyi . Two strains - Rhodotorula toruloides CBS 14 and Rhodotorula glutinis CBS 3044 were further tested in controlled fermentations in bioreactors in different mixtures of CG and HH. The highest measured average biomass and lipid concentration were achieved with R. toruloides in 40% HH medium mixed with 60 g/L CG - 19.4 g/L and 10.6 g/L, respectively, with a lipid yield of 0.22 g lipids per consumed g of carbon source. Fatty acid composition was similar to other R. toruloides strains and comparable to that of vegetable oils. Conclusions: There were big strain differences in the ability to convert CG to lipids, as only few of the tested strains were able to grow. Lipid production rates and yields showed that mixing GC and HH have a stimulating effect on lipid accumulation resulting in shortened fermentation time to reach maximum lipid concentration, which provides a new perspective on converting these low- value compounds to biolipids.
Racial and Ethnic Disparities in Viral Acute Respiratory Infections in the United States: Protocol of a Systematic Review
Authors: Menezes Neia Prata , Malone Jowanna , Lyons Carrie , Cadet Kechna , Dean Lorraine , Millett Gregorio , Baral Stefan 
Published: December 2020

Abstract
Background: The COVID-19 pandemic caused by SARS-CoV-2 has highlighted consistent inequities in the risk of infection, severity of disease, or mortality across racial and ethnic minority populations in the United States and beyond. Although novel, SARS-CoV-2 shares commonalities in transmission dynamics with other viral respiratory pathogens where similar disparities in morbidity and mortality have been documented. However, to date, there has not been a systematic review of disparities in viral respiratory pathogens. In response, this review aims to synthesize data on racial and ethnic disparities in morbidity and mortality due to viral acute respiratory infections (ARI) other than SARS-CoV-2. In particular, this review will focus on understanding structural health and social factors outside of race and ethnicity driving these disparities in the United States.Methods: We will conduct a systematic review of studies published between January 1, 2002 and September 30, 2020 that capture data on racial and ethnic disparities associated with increased incidence, disease severity, risk of hospitalization and/or death in viral ARI in the United States. Data characterizing individual-, community-, and structural-level factors associated with these disparities will be abstracted to better understand the underlying structural inequities contributing to racial disparities in ARI. The Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines will be used with reviewers employing COVIDENCE to conduct two independent rounds of title/abstract and full text reviews for all articles. A built-in tool in COVIDENCE will be used for data abstraction.Discussion: Findings from this systematic review will shed light on patterns of racial and ethnic disparities in viral ARI in the United States. Leveraging these data can support predictive studies of the differential impacts of COVID-19 across the United States as well as adaptive intervention strategies mitigating structural inequities, including structural racism, driving both incidence and disparities in marginalized communities. Moreover, data emerging from this review may reignite pandemic preparedness focused on vulnerable communities given structural inequities, facilitating improved future pandemic responses to novel or endemic viral respiratory pathogens in the United States.Systematic review registration: PROSPERO CRD42020219771
Novel mutations identified in the Chinese Han population with keratoconus by next-generation sequencing
Authors: Chen Binbin , Yu Xiaoning , Zhang Xin , Yang Hao , Cui Yilei , Shentu Xingchao 
Published: December 2020

Abstract
BACKGROUND
Keratoconus (KC) is characterized by bilateral progressive corneal thinning and ectasia. The prevalence of KC is approximately 8.8 to 54.4 per 100,000 individuals across the globe. Genetic factors have been shown to contribute to the pathogenesis of KC. This study will identify new mutations in the susceptibility gene of keratoconus (KC) in the Chinese Han population.
METHODS
A total of fifty-two patients with primary KC were recruited. Blood samples were collected, and genomic DNA was isolated from peripheral blood leukocytes. The entire coding region, intron–exon junctions, and promoter regions of sixteen known KC susceptibility genes were screened with next-generation sequencing technology, and all identified variants were further confirmed using the Sanger sequencing technology. The Sorting Intolerant from Tolerant (SIFT), Mutation Taster and PolyPhen 2 programs were used to predict the effect of amino acid substitution on protein.
RESULTS
After removing twelve known SNPs (single nucleotide polymorphisms) and three variants predicted to be harmless, nine novel mutations were identified in eight of the fifty-two patients, including c.455C > T:p.P152L in FNDC3B, c.3636_3637del:p.R1212fs in COL4A4, c.5015G > T:p.R1672L, c.3798dupA:p.P1267fs and c.28G > A:p.A10T in MPDZ, c.1940C > T:p.P647L in DOCK9, c.127_128insGGC:p.Q43delinsRQ in POLG, c.3019G > A:p.V1007I in IPO5, and c.624 + 7->A in TGFBI. All nine mutations in the patients with KC were heterozygote.
CONCLUSION
This study enlarged the gene profile of KC and should be further confirmed by well-powered, genome-wide association studies (GWAS) of Han Chinese patients.
Comparison of ocular biometric parameters between concomitant exotropic and orthotropic eyes
Authors: Gong Weifen , Yang Fan , Lin Shibin , Wang Geng 
Published: December 2020

Abstract
PurposeTo compare the biometric characteristics between concomitant exotropia (XT) and orthotropia (OT) with OA2000.MethodThis cross-sectional study collected 4–18 years old children. All subjects underwent a comprehensive ophthalmic examination and prism alternate cover test for ocular alignment measurement. Included subjects had no any eye surgery, structural ocular anomalies, amblyopia of either eyes, ptosis, cataract and nystagmus. OA-2000 was used for the measurement of ocular biological parameters. Spherical equivalent (SE, spherical power + (cylindrical power)/2), keratometry, central corneal thickness (CCT), white to white distance (WTW), pupil diameter (PD), anterior chamber depth (ACD), lens thickness (LT), axial lengths (AL) and intereye differences in SE, keratometry, CCT, WTW, PD, ACD, LT and AL were analyzed by independent sample t-tests. Pearson correlation was used for correlations assessment. Partial correlation was used to control for intereye differences in SE.ResultsA total of 156 subjects (79 XT and 77 OT) were collected. Intereye differences in spherical equivalent (SE) (t 2.369, P 0.019), AL (t 3.423, P 0.001), ACD (t 3.782, P < 0.001), LT (t 3.136, P 0.002) and PD (t 3.229, P 0.002) were significantly larger in XT patients than OT patients. The correlation coefficient of XT with SE asymmetry was 0.187 (P 0.020), 0.265 with AL asymmetry (P 0.001), 0.289 with ACD asymmetry (P < 0.001), 0.251 with PD asymmetry (P 0.002) and 0.243 with LT asymmetry (P 0.002). Strong correlation (r 0.875) was found between anisometropia and AL asymmetry. After controlling the effect of anisometropia, the correlation coefficients slightly reduced between XT patients and intereye differences in AL (reduced to 0.213), ACD (reduced to 0.266), PD (reduced to 0.230) and LT (reduced to 0.230). Strong correlation (r 0.855) was found between intereye differences in ACD and LT.ConclusionCompared with OT subjects, intereye differences in SE, AL, ACD, LT and PD were significantly larger in XT patients and had positive correlation with XT and may be associated with the pathogenesis of XT.
Comparative Analysis of Super-enhancers Across Mammals Reveals Their High Function Conservation
Authors: Peng Yanling , Zhang Yubo 
Published: December 2020

Abstract
BackgroundSuper-enhancers (SEs) are key positive regulatory elements in defining cells/tissues identity in mammals, yet their similarities and differences of sequence and function across mammals have been poor studied. To allow sequence and function comparison across mammalian SEs, we employ H3K27ac ChIP-seq data to six cell types/tissues across human, pig, and mouse, which represent different lineages of mammals in the evolutionary tree.ResultsOverall, a median of 848 human SEs, 888 pig SEs and 503 mouse SEs are identified across cells/tissues. These SEs are largely distributed in promoter regions for human (91.9% in median) and mouse (63.4% in median), while mostly in distal intergenic regions for pig (66.1% in median). Extremely higher unique orthologous SEs frequency (91.6%~92.1%) has been detected for the same cell/tissue across species. Consistently, their overlapping rates are very low for the same cell/tissue across species (0.1%~0.5%). For the SE-associated orthologous genes, they also show high unique frequency for species (63.3%~83.9%) and low overlapping rates (0.8%~1.3%) at inter-species comparison. However, orthologous SEs function comparisons across species have shown similar biological processes related to cells/tissues identity in the top 15 significant enriched terms for the same cell/tissue. Meanwhile, common core transcription factors that determine cells/tissues identity are determined for the same cell/tissue across mammals.ConclusionsThis study highlights the differences of SEs genomic distribution across mammals. It reveals low orthologous sequence overlapping but high function conservation of SEs across mammals. It would improve our understanding of regulation function cis-regulatory elements in mammals.