bluuebunny/crossref_metadata_2025_split huggingface dataset:
Early cumulus cell removal reduces available embryo rate while having no negative effect on live-birth and malformation rate in IVF: a propensity score-matched cohort study
Authors: Liu Min Hao , Sun Li Juan , Pan Jia Ping , Liang Shan Shan , Huang Mei Yuan , WU Hai Xia 
Published: January 2020

Abstract
Background Previous studies of the effect of early cumulus cell removal (ECCR) on clinical outcomes remain controversial. Some studies indicated that ECCR combined early rescue ICSI contributed to avoid total fertilization failure, while the other studies demonstrated that ECCR may be detrimental to early embryo development. The aim of this study is to investigate the efficacy and safety of early cumulus cell removal (ECCR) during human IVF. Methods A retrospective analysis was performed between January 2011 and December 2016. The study enrolled 655 couples who underwent IVF treatments with ECCR. After propensity score matching at a 1:2 ratio, 1310 couples who underwent overnight coincubation of gametes were selected. All data were obtained from the Shanghai First Maternity and Infant Hospital IVF patient database. The main outcome measure was the live birth rate and the secondary outcome measures were the normal fertilization rate, polyspermy rate, available embryo rate, clinical pregnancy rate, miscarriage rate and malformation rate. Results No significant differences were found in the live birth rate (28.55% vs 28.4%; RR of 1.008; 95% CI: 0.869-1.170; p=0.916), clinical pregnancy rate (48.28% vs 45.16%; RR of 1.069; 95% CI: 0.951-1.202; p=0.268), implantation rate (32.67% vs 33%; p=0.896), miscarriage rate (13.33% vs 9.32%; RR of 1.43; 95% CI: 0.916-2.232; p=0.115), neonatal congenital anomalies rate (1.32% vs 1.01%; RR of 1.306; 95% CI: 0.315-5.417; p=0.713) or birthweight between the two groups. The study showed that ECCR was associated with a significantly lower fertilization rate (73.86% vs 80.12%; p=0.000), normal fertilization rate (2PN)(62.76% vs 69%, p=0.000) and available embryo rate (59.62% vs 62.29%, p=0.001). There were no significant differences in the polyspermy rate (11.10% vs 11.11%, p=0.982) and cleavage rate (93.93% vs 93.50%, p=0.279) between the ECCR group and traditional insemination group. Conclusions ECCR tended to confer increased risk of a lower available embryo rate but had no negative effect on the live birth rate or the neonatal malformation rate.
Quantitative Phenotype Scan Statistic (QPSS) reveals rare variant associations with Alzheimer’s disease endophenotypes
Authors: Katsumata Yuriko , Fardo David W. 
Published: January 2020

Abstract
Background: Current sequencing technologies have provided for a more comprehensive genome-wide assessment and have increased genotyping accuracy of rare variants. Scan statistic approaches have previously been adapted to genetic sequencing data. Unlike currently-employed association tests, scan-statistic-based approaches can both localize clusters of disease-related variants and, subsequently, examine the phenotype association within the resulting cluster. In this study, we present a novel Quantitative Phenotype Scan Statistic (QPSS) that extends an approach for dichotomous phenotypes to continuous outcomes in order to identify genomic regions where rare quantitative-phenotype-associated variants cluster. Results: We demonstrate the performance and practicality of QPSS with extensive simulations and an application to a whole-genome sequencing (WGS) study of cerebrospinal fluid (CSF) biomarkers from the Alzheimer’s Disease Neuroimaging Initiative (ADNI). Using QPSS, we identify regions of rare variant enrichment associated with levels of AD-related proteins, CSF Aβ 1-42 and p-tau 181P . Conclusions: QPSS is implemented under the assumption that causal variants within a window have the same direction of effect. Typical self-contained tests employ a null hypothesis of no association between the target variant set and the phenotype. Therefore, an advantage of the proposed competitive test is that it is possible to refine a known region of interest to localize disease-associated clusters. The definition of clusters can be easily adapted based on variant function or annotation.
Genetic Variants Associated with Anterior Segment Dysgenesis in South Florida
Authors: Thanikachalam Saradadevi , Hodapp Elizabeth , Chang Ta C. , Swols Dayna Morel , Cengiz Filiz B. , Guo Shengru , Zafeer Mohammad F. , Seyhan Serhat , Bademci Guney , Scott William K. , Grajewski Alana , Tekin Mustafa 
Published: January 2020

Abstract
Background Anterior segment dysgenesis (ASD) comprises a wide spectrum of developmental conditions affecting the cornea, iris, and lens, which may be associated with abnormalities of other organs. Mutations in over 20 genes have been shown to cause ASD. To identify disease-causing variants, we performed exome sequencing in 24 South Florida families with ASD. Results We identified 12 likely causative variants in 10 families (42%), including single nucleotide or small insertion-deletion variants in B3GLCT, BMP4, CYP1B1, FOXC1, FOXE3, GJA1, PXDN, and TP63, and a large copy number variant involving PAX6 . Four variants were novel. Each variant was detected only in one family. Conclusions Presence of rare variants in multiple genes leading to ASD explains its genetic basis in over 40% of patients from South Florida. Exome sequencing for ASD allows us to identify causative variants, thus improving our ability to explain the underlying etiology in more families and to assist them with genetic counseling.
Viral Central Nervous System Infections in Infants &lt;90 Days Old: A Paediatric Investigators’ Collaborative Network on Infections in Canada (PICNIC) Study
Authors: Petel Dara , Barton Michelle , Renaud Christian , Ouchenir Lynda , Brophy Jason , Bowes Jennifer , Khan Sarah , Bitnun Ari , McDonald Jane , Boisvert Andrée-Anne , Ting Joseph , Roberts Ashley , Robinson Joan 
Published: January 2020

Abstract
Background The relative contribution of viruses to central nervous system (CNS) infections in young infants is not clear. For viral CNS infections, there are limited data on features that suggest HSV etiology or that are predictors of unfavorable outcome. Methods In this cross-sectional study, the Pediatric Investigators Collaborative Network on Infections in Canada identified infants <90 days of age with CNS infection proven to be due to viruses. Results Of 174 proven CNS infections, viral causes accounted for 111 (64%) including enterovirus (EV) (N=103; 93%), HSV (N=7; 6%) and human parechovirus (HPeV) (N=1; 1%). All HSV cases and 45 (43%) non-HSV cases presented before 21 days of age. HSV cases were more likely to require ICU admission (p=0.010), present with seizures (p=0.031) and have extra-CNS disease (p<0.001). Three HSV cases (43%) did not have seizures while 4 (57%) HSV and 33 (32%) non-HSV cases lacked cerebrospinal fluid (CSF) pleocytosis. Conclusions Viruses account for about half of proven CNS infections in the first 90 days of life. Empiric therapy for HSV should be considered in suspected CNS infections in the first 21 days even in the absence of CSF pleocytosis unless CSF parameters are suggestive of bacterial meningitis.
The effect of metacognitive skills and academic motivation on academic performance
Authors: Eskandari Mehdi , Amini Mitra , Delavari Somayeh , Mokhtarpour Sedigheh , Jaafari Mohammad 
Published: January 2020

Abstract
Objectives: the purpose of present study is investigation the impact of metacognitive strategies and motivation on academic performance of medical learners Results: The findings showed that the mean scores of metacognitive strategies of participants and the success rate and academic performance of clinical students of the medical school were positively and significantly correlated (r = .406, p = 0.001). The results showed a positive and significant correlation between the metacognitive strategies (70.92 ± 6.1) and academic motivation (136.92 ± 23.9), respectively (P = .001 & r = .24). So, we can find the mediatory role of academic motivation in metacognitive strategies and academic performance Keywords: motivation, academic performance, metacognition skills, learning, Academic Motivation Scale (AMS), Metacognitions Questionnaire-30 (MCQ-30)
Epidemiologic correlation and drug resistance analysis of pathogenic bacteria in different open limb injury external conditions
Authors: Zhang Bin , Xie Bang-lin , Xu Jia-Qiang , Wan Li-jun , Yang Xiao-wei , Yao Wen-ye , Yi Zhi , Hu Niya , Guo Run-sheng 
Published: January 2020

Abstract
OBJECTIVES To study the epidemiological correlation and drug resistance of external factors of infection caused by open injury of limbs to pathogens.METHODS We retrospective analyzed 2017 strains of pathogenic bacteria in a university hospital from 2012 to 2017.Patients were divided into three groups: I. In-hospital infection of clean limb incision, II. In-hospital infection with open injury, III. Community infection with open injury of the limb. We divided patients into six groups based on injury mechanism to explore the relationship between the main pathogens and damage mechanism, apparent temperature and relative humidity.RESULTS No significant difference was seen in the distribution of pathogens among the three groups. The drug resistance of group III was significantly lower than that of group II and group I. The correlation between the injury mechanism and infection of pathogenic bacteria was not significant. The monthly average apparent temperature and relative humidity were correlated with the infection rate of pathogenic bacteria.CONCLUSION In open injury of extremities, apparent temperature and relative humidity is an important risk factor for infection by pathogenic bacteria.The drug resistance of pathogenic bacteria in out-of-hospital infection was lower than that of hospital infection.
MiR-9-5p promotes rabbit preadipocyte differentiation by suppressing leptin gene expression
Authors: Luo Gang , Hu Shenqiang , Lai Tianfu , Wang Jie , Wang Li , Lai Songjia 
Published: January 2020

Abstract
Background: MicroRNAs are a class of small non-coding RNAs and participate in the regulation of cell differentiation programs. Previous studies have demonstrated that miR-9-5p play a key role during cancer cell research, but the mechanisms regulating of miR-9-5p in adipogenesis remain poorly understood. This study intended to investigate its significance in rabbits with high quality meat by observing the regulating effect of miR-9-5p in pre-adipocytes and finding related targets. Methods: In this study, a dual luciferase reporter assay was employed to validate the targeting relationship between miR-9-5p and leptin gene. We also utilized quantitative reverse transcription PCR (qRT-PCR), western blot, determination of triglyceride and oil red O staining assay to analyze the regulation of miR-9-5p and leptin gene during adipocyte differentiation. Results: The analysis demonstrated that during pre-adipocyte differentiation, miR-9-5p was up-regulated and the fat formation related biomarkers fatty acid-binding protein 4(FABP4), CCAAT-enhancer binding protein α(C/EBPα), and peroxisome proliferator activated receptorγ (PPARγ) were also up-regulated. Meanwhile, the oil red O staining assay revealed that the accumulation of lipid droplets increased. We explored the expression pattern and role of miR-9-5p in adipogenesis using white pre-adipocytes. The results showed that miR-9-5p was up-regulated during pre-adipocyte differentiation and overexpression of miR-9-5P enhanced lipid accumulation. Furthermore, we found overexpression of miR-9-5p significantly up regulated the mRNA levels of marker gene PPARγ, C/EBPα and FABP4, as well as the protein levels of PPARγ and content of triglyceride, the results suggested that miR-9-5p might be involved in the regulation of rabbit pre-adipocyte differentiation. We predicted leptin is a target of miR-9-5p by using bioinformatics tools and the conclusion was validated in a luciferase reporter assay. Finally, we verified inhibition of leptin by si-leptin promoted rabbits pre-adipocyte differentiation. Conclusion: In a word, these results indicate that miR-9-5p promotes rabbits white pre-adipocyte differentiation by targeting leptin .
Differential expression of human papilloma virus 16-, 18-, 52-, and 58-derived transcripts in cervical intraepithelial neoplasia
Authors: Baba Satoshi , Taguchi Ayumi , Kawata Akira , Hara Konan , Eguchi Satoko , Mori Mayuyo , Adachi Katsuyuki , Mori Seiichiro , Iwata Takashi , Mitsuhashi Akira , Maeda Daichi , Komatsu Atsushi , Nagamatsu Takeshi , Oda Katsutoshi , Kukimoto Iwao , Osuga Yutaka , Fujii Tomoyuki , Kawana Kei 
Published: January 2020

Abstract
Background: Human papillomavirus (HPV) infection is a primary cause of cervical cancer. Although epidemiologic study revealed that carcinogenic risk differs according to HPV genotypes, the expression patterns of HPV-derived transcripts and their dependence on HPV genotypes have not yet been fully elucidated.Methods: In this study, 382 patients with abnormal cervical cytology were enrolled to assess the associations between HPV-derived transcripts and cervical intraepithelial neoplasia (CIN) grades and/or HPV genotypes. Specifically, four HPV-derived transcripts, namely, oncogenes E6 and E6*, E1^E4, and viral capsid protein L1 in four major HPV genotypes—HPV 16, 18, 52, and 58—were investigated.Results: The detection rate of E6/E6* increased with CIN progression, whereas there was no significant change in the detection rate of E1^E4 or L1 among CIN grades. In addition, we found that L1 gene expression was HPV type-dependent. Almost all HPV 52-positive specimens, approximately 50% of HPV 58-positive specimens, around 33% of HPV 16-positive specimens, and only one HPV18-positive specimen expressed L1.Conclusions: We demonstrated that HPV-derived transcripts are HPV genotype-dependent. Especially, expression patterns of L1 gene expression might reflect HPV genotype-dependent patterns of carcinogenesis.
Molecular characterisation of ampeloviruses associated with mealybug wilt of pineapple disease in Ghana
Authors: Asare-Bediako Elvis , Nyarko Joseph , Puije Grace van der , Asare Aaron Tettey 
Published: January 2020

Abstract
Background: Mealybug wilt of pineapple (MWP) is the most destructive viral disease of pineapple worldwide. The disease is caused by pineapple mealybug wilt-associated virus (PMWaV), a member of the family Closteroviridae and the genus Ampelovirus, and transmitted by mealybugs. Methods: In order to understand the association between closteroviruses and MWP in Ghana, 24 pineapple plant samples showing typical symptoms of MWP were collected during a survey of the Central Region in 2019. Three quantitative reverse transcription-polymerase chain reaction (qRT-PCR) assays with PMWaV species specific primers were performed to amplify the heatshock protein 70 gene (HSP70) of PMWaV-1,-2 and -3 in the pineapple samples. Purified qRT-PCR products of thirteen isolates which consist of PMWaV-1 (7 isolates), PMWaV-2 (4 isolates) and PMWaV-3 (2 isolates) were sequenced in both directions. Sequence and phylogenetic analyses were then conducted.Results: Three different species of Ampelovirus namely PMWaV-1, PMWaV-2, and PMWaV-3, were detected from the plant samples, with abundance of mixed infections. Sixteen out of the 24 samples (66.7%) were infected with at least one of the three species of Ampelovirus identified. PMWaV-2 had the highest infection rate of 62.5% across the districts; this was followed by PMWaV-1 and PMWaV-3 with infection rates of 33.3% and 8.3% respectively. Purified qRT-PCR products of thirteen isolates which consist of PMWaV-1 (7 isolates), PMWaV-2 (4 isolates) and PMWaV-3 (2 isolates) were sequenced in both directions. Sequence comparison using BlastN showed that all the seven sequences of the Ghanaian PMWaV-1 isolates (GenBank Accession Nos. MN427634 - MN427639 and MN399973) shared 95.2% to 99.7% nucleotide identity with each other and 95.2-100% with sequences of isolates previously published in GenBank. The four sequences of the Ghanaian PMWaV-2 isolates (GenBank Accession Nos. MN427642 - MN427645) shared nucleotide identity of 98.9–100% with each other and 98.2-100% nucleotide identity with sequences of isolates previously published in GenBank. Also, the two sequences of the Ghanaian PMWaV-3 isolates (GenBank Accession Nos. MN427640 and MN427641) shared 98.3% nucleotide identity to each other and 97.5- 99.3% nucleotide identity with sequences of isolates previously published in GenBank. Phylogenetic analyses of the nucleotide sequences of HSP70 gene of the 13 Ghanaian isolates and 24 sequences previously published in GenBank, clustered the PMWaV-1, PMWaV-2 and PMWaV-3 isolates into three distinct genetic groups with > 95% bootstrap support. Conclusion: The present study shows for the first time the occurrence of PMWaV-1, PMWaV-2 and PMWaV-3 in Ghana pineapple fields as well as in Africa.
Transcriptome analysis of the hypothalamus and pituitary of turkey hens with low and high egg production
Authors: Brady Kristen , Liu Hsiao-Ching , Hicks Julie , Long Julie A , Porter Tom E 
Published: January 2020

Abstract
Background: High egg producing hens (HEPH) show increased hypothalamic and pituitary gene expression related to hypothalamo-pituitary-gonadal (HPG) axis stimulation as well as increased in vitro responsiveness to gonadotropin releasing hormone (GnRH) stimulation in the pituitary when compared to low egg producing hens (LEPH). Transcriptome analysis was performed on hypothalamus and pituitary samples from LEPH and HEPH to identify novel regulators of HPG axis function. Results: In the hypothalamus and pituitary, 4644 differentially expressed genes (DEGs) were identified between LEPH and HEPH, with 2021 genes up-regulated in LEPH and 2623 genes up-regulated in HEPH. In LEPH, up-regulated genes showed enrichment of the hypothalamo-pituitary-thyroid (HPT) axis. Beta-estradiol was identified as an upstream regulator regardless of tissue. When LEPH and HEPH samples were compared, beta-estradiol was activated in HEPH in 3 of the 4 comparisons, which correlated to the number of beta-estradiol target genes up-regulated in HEPH. In in vitro pituitary cell cultures from LEPH and HEPH, thyroid hormone pretreatment negatively impacted gonadotropin subunit mRNA levels in cells from both LEPH and HEPH, with the effect being more prominent in HEPH cells. Additionally, the effect of estradiol pretreatment on gonadotropin subunit mRNA levels in HEPH cells was negative, whereas estradiol pretreatment increased gonadotropin subunit mRNA levels in LEPH cells.Conclusions: Up-regulation of the HPT axis in LEPH and upstream beta-estradiol activation in HEPH may play a role in regulating HPG axis function, and ultimately ovulation rates. Furthermore, thyroid hormone and estradiol pretreatment impacted gonadotropin mRNA levels following GnRH stimulation, with the inhibitory effects of thyroid hormone being more detrimental in HEPH and estradiol stimulatory effects being more prominent in LEPH. Differential responsiveness to thyroid hormone and estradiol pretreatment may be due to desensitization of target genes to thyroid hormone and estradiol in LEPH and HEPH, respectively, in response general up-regulation of the HPT axis in LEPH and of the HPG axis in HEPH. Further studies will be necessary to identify possible target gene desensitization mechanisms and elicit the full role that the HPT axis and beta-estradiol upstream regulation play in egg production rates in turkey hens.
Genome-wide investigation of CCCH zinc finger family in longan (Dimocarpus longan Lour): characteristic identification and expression profiles in longan somatic embryo
Authors: Su Liyao , Jiang Mengqi , Huang Shuqi , Xue Xiaodong , Li Xue , Lai Zhongxiong , Lin Yuling 
Published: January 2020

Abstract
Background: CCCH Zinc finger ( Znf ) transcription factors ( TF ), as a novel type Znf genes, regulate genes expression by binding on their mRNA and play important roles in plant abiotic stress, growth and development. However, no overall genome-wide analysis or expression profiling of CCCH ( C3H ) gene family in Dimocarpous longan , especially during the early stages of somatic embryo in longan has been studied. Longan is a tropical/subtropical fruit tree of great economic importance in Southeast Asia,and longan embryogenesis is the main factor affecting fruit quality and yield. Results: In this study, a comprehensive analysis of longan C3H （ DlC3H ）gene family was carried out. 49 DlC3H genes were identified from longan genome database,which divided into 3 clades. Besides, genes characteristics, phylogenetic tree, gene structure, motif composition were comprehensively analyzed. The analysis of alternative splicing events (AS) suggested that AS events of DlC3H genes were related to longan non-embryonic and embryonic callus transformation. Promoter analysis indicted that most of DlC3H genes included cis -elements associated with hormones and stress response. Quantitative real-time PCR analysis indicated that 26 DlC3Hs ,which possess MeJA and ABA responsive cis -elements, showed different expression patterns and may involved into ABA and MeJA signaling pathway. The expression profiles of 17 DlC3Hs were performed in four stages of longan, the results showed that only DlC3H01/07/14/16/38 was consistent with the data in the transcriptome. DlC3H 07/14/16/36/49 were highly expressed in EC and only DlC3H 04/38 was in GE , suggesting that they have different functions in embryonic development. Finally, sRNAs were verified involved into regulating 6 DlC3Hs . Conclusion: This study provides the first systematic analysis of CCCH protein in longan somatic embryo. Particularly, CCCH genes may be involved in hormone and stress respond, and somatic embryogenesis. Our results presented here may provide a insight into the characteristics and functions of this family in somatic embryogenesis.
Correlation between the size of the maxillary sinus and vertical growth patterns: a 3-dimensional cone-beam computed tomographic study
Authors: Yili Xu , Yingyi Huang , Jiaqian Fan , Fan Liu , Lei Yonghua 
Published: January 2020

Abstract
Background The maxillary sinus has been considered as an important factor that affects the development of craniomaxillofacial bone. However, the correlation between the maxillary sinus and skeletal malocclusion is controversial. This study aimed to compare the dimensions of the maxillary sinus in patients with different vertical growth patterns and investigated the correlation between the maxillary sinus and craniofacial parameters.Methods This descriptive study included 90 patients from age 15 to 20 years old. According to the vertical growth patterns that were classified by MP-FH (angle between the mandibular plane and Frankfort horizontal plane), they were equally divided into three groups: high-, low- and normal-angle, and the gender ratio was 1:1. Cephalometric tracings were conducted from CBCT images, which were also used to measure the dimensions and volume of the maxillary sinus. Data were analyzed with one-way ANOVA, Pearson’s correlation coefficient, and multiple comparison LSD.Results The variables of the maxillary sinus, including the volume, length, and width, among different groups, were significant(p<0.05). The variables of mandibular body length were significantly correlated with the volume of the maxillary sinus (p<0.01), and the coefficient was 0.425.Conclusions The maxillary sinus volume, length, and width were larger in low-angle patients. The mandibular body length had a significantly positive correlation with the maxillary sinus volume.