bluuebunny/crossref_metadata_2025_split huggingface dataset:
Neutrophil gelatinase-associated lipocalin as a potential biomarker for pulmonary thromboembolism
Authors: Ozyurt Songul , Karatas Mevlut , Arpa Medeni , Yilmaz Kara Bilge , Duman Hakan , Memoglu Melek , Sahin Unal 
Published: October 2019

Abstract

Objective
Pulmonary thromboembolism (PTE) is a clinical condition that can be lethal unless promptly diagnosed and treated. The objective was to evaluate the significance of serum neutrophil gelatinase-associated lipocalin (NGAL) in the diagnosis of PTE.

Materials and methods
In this study, 60 patients hospitalized for acute PTE between May 2015 and December 2016 were enrolled. PTE was diagnosed using spiral computed tomography angiography of the thorax. Cardiac enzyme levels, arterial blood gas, and echocardiography measurements were performed. Whole blood samples were drawn to measure serum NGAL before treatment.

Results
The PTE group comprised 34 women and 26 men, and the healthy control group included 22 women and 18 men. The mean ages of the patient and control groups were 70.3 ± 14.4 years and 69.0 ± 10.2 years, respectively. Serum NGAL was significantly higher in the patients than in the controls (88.6 ± 33.6 vs. 31.7 ± 10.0 ng/mL, p < 0.001, respectively). The optimal NGAL cut-off value was >50 ng/mL, the sensitivity was 100%, specificity was 98.3%, the negative predictive value was 100%, and the positive predictive value was 68%.

Conclusion
Serum NGAL is a new biomarker with high sensitivity and specificity to detect, diagnose, and exclude PTE.
Comparative Genomics and Transcriptomics To Analyze Fruiting Body Development in Filamentous Ascomycetes
Authors: Lütkenhaus Ramona , Traeger Stefanie , Breuer Jan , Carreté Laia , Kuo Alan , Lipzen Anna , Pangilinan Jasmyn , Dilworth David , Sandor Laura , Pöggeler Stefanie , Gabaldón Toni , Barry Kerrie , Grigoriev Igor V , Nowrousian Minou 
Published: October 2019

AbstractMany filamentous ascomycetes develop three-dimensional fruiting bodies for production and dispersal of sexual spores. Fruiting bodies are among the most complex structures differentiated by ascomycetes; however, the molecular mechanisms underlying this process are insufficiently understood. Previous comparative transcriptomics analyses of fruiting body development in different ascomycetes suggested that there might be a core set of genes that are transcriptionally regulated in a similar manner across species. Conserved patterns of gene expression can be indicative of functional relevance, and therefore such a set of genes might constitute promising candidates for functional analyses. In this study, we have sequenced the genome of the Pezizomycete Ascodesmis nigricans, and performed comparative transcriptomics of developing fruiting bodies of this fungus, the Pezizomycete Pyronema confluens, and the Sordariomycete Sordaria macrospora. With only 27 Mb, the A. nigricans genome is the smallest Pezizomycete genome sequenced to date. Comparative transcriptomics indicated that gene expression patterns in developing fruiting bodies of the three species are more similar to each other than to nonsexual hyphae of the same species. An analysis of 83 genes that are upregulated only during fruiting body development in all three species revealed 23 genes encoding proteins with predicted roles in vesicle transport, the endomembrane system, or transport across membranes, and 13 genes encoding proteins with predicted roles in chromatin organization or the regulation of gene expression. Among four genes chosen for functional analysis by deletion in S. macrospora, three were shown to be involved in fruiting body formation, including two predicted chromatin modifier genes.
ORTAOKUL ÖĞRENCİLERİNİN SALDIRGANLIK DURUMLARI VE OYNADIKLARI BİLGİSAYAR OYUNLARI
Authors: Evgin Derya , (ışık) Çalışkan Zehra , Kaplan Bahriye , Caner Nuray 
Published: October 2019

GİRİŞ: Bu araştırma, ortaokul öğrencilerinin şiddet davranışları ve
oynadıkları bilgisayar oyunlarını belirlemek amacıyla yapılmıştır. YÖNTEM: Kesitsel tanımlayıcı tipte olan çalışma
239 ortaokul öğrencisi ile yapılmıştır. Çalışma için kurum, ebeveyn ve öğrenci
onamı alınmış, veriler anket formu ve Saldırganlık Ölçeği (SÖ) ile yüz-yüze toplanmıştır. Verilerin
değerlendirilmesinde tanımlayıcı
istatistikler ve ki-kare testi kullanılmıştır. BULGULAR: Araştırmaya
katılan öğrencilerin Öğrencilerin % 43.9’u son bir yıl içinde şiddete maruz
kaldığını, %42.3’ü de şiddet uyguladığını ifade etmişlerdir. Öğrenciler en çok
itilme, tekmelenme, tokatlanma (%79.5), bir alet ile saldırma (%79.1), tehdit
edilmeyi (%75.7), en az ise lakap takılmasını (%40.2) şiddet olarak
değerlendirmişlerdir. Ayrıca öğrencilerin % 88.7’ sinin evinde bilgisayar
olduğu, %85.8’ inin bilgisayar oyunu oynadığı ve %10.7’ sinin 2 saatten daha
uzun süre bilgisayarda oyun oynadığı belirlenmiştir. Kız öğrencilerin %39.8’ i
bilgisayarda zeka ve mantık oyunları oynarken, erkek öğrencilerin %61.7’ sinin
savaş ve strateji oyunları oynadıkları bulunmuştur. Öğrencilerin saldırganlık
ölçeğinden aldıkları toplam puanların ortalamasının 80.1±2.53 olduğu bulunmuştur.
Sınıf düzeyi arttıkça saldırganlık düzeyinde artış görülmektedir (p&lt;
0.05). Saldırganlık düzeyi yüksek olan
öğrencilerin daha çok (% 73.3) savaş ve strateji oyunları oynadıkları tespit
edilmiştir ( p&lt;0.05).

SONUÇ: Bu sonuçlar
doğrultusunda; ailelere; şiddet, şiddet davranışları ve bilgisayar oyunlarının
çocuğa yönelik etkileriyle ilgili disiplinler arası işbirliği yapılarak
eğitimler verilmesi önerilmektedir.
Prevalencia y determinantes de tuberculosis pulmonar en un centro carcelario de Cali Colombia
Authors: Muegues Sirley Isabel , Núñez Constanza , Luna Lucy , Pacheco Robinson 
Published: October 2019

Antecedentes: La Tuberculosis Pulmonar (TBp) es un problema de salud pública en el mundo y se exacerba en los centros carcelarios.
Objetivo: Determinar prevalencia y factores de riesgo de la trasmisión de TBp en un centro carcelario de Cali, Colombia, 2013 - 2014.
Métodos: Estudio de casos y controles. El registro institucional de la cárcel de Villahermosa, reportó 5.815 personas privadas de la libertad en el periodo del estudio; de estos 98 fueron casos y 98 controles.
Resultados: La prevalencia de TBp fue de 1.7%. La mediana de edad 29.8 años (RIQ 23.0-33.5), la etnia predominante fue la mestiza con 55% (108/196), estado civil soltero 57% (112/196), nivel educativo secundaria 75% (129/196), nivel socioeconómico dos, 71% (138/196), aseguramiento subsidiado 99% (194/196) y ocupación en construcción 71% (123/196). La probabilidad de desarrollar TBp en la cárcel de Villahermosa es explicada por desnutrición (OR = 17.5 IC 95% 4.06-76.8,), y la infección con VIH (OR= 8.9 IC 95% 1.07-74.2).
Conclusiones: La dinámica de la trasmisión de la TBp está determinada no solo por las condiciones de salud de los individuos, sino, además, por las características del entorno donde estos se interactúan como seres sociales. Los programas de control de TB deben realizar análisis de indicadores en los centros carcelarios de manera independiente al de la población general a fin de implementar estrategias de prevención y control enfocadas en la gestión del riesgo.
A clinical scoring system for pediatric hand-foot-mouth disease
Authors: Huang Hui , Deng Li , Jia Liping , Zhu Runan 
Published: October 2019

Abstract
Background:The aim of the present study was to develop a clinical scoring system for the diagnosis of hand-foot-mouth disease (HFMD) with improved accuracy.Methods: A retrospectiveanalysis was performed on standardized patienthistory and clinicalexamination data obtained from 1435 pediatric patients under the age of three years who presented with acute rash illness and underwent enterovirus nucleicaciddetection. Patients were then divided into the HFMD (1094 patients) group or non-HFMD (341 patients) group based on a positive or a negative result from the assay, respectively. We then divided the data into a training set (1004 cases, 70%) and a test set (431 cases, 30%) using a random number method. Multivariate logistic regression was performed on 15 clinical variables (e.g. age, exposure history, number of rash spots in a single body region) to identify variables highly predictive of a positive diagnosisin the training set.Using the variables with high impact on the diagnostic accuracy, we generated a scoring system for predicting HFMDand subsequently evaluated this system in the test set.Results: Using the logistic model, we identified seven clinical variables (age, exposure history,and rash density at specific regions of the body) to be included into the scoring system. The final scores ranged from −5 to 24 (higher scores positively predicted HFMD diagnosis).Through our training set,a cutoff score of 7resulted ina sensitivity of 0.76 and specificity of 0.68. The area under the receiver operating characteristiccurve(AUC)was 0.804 (95% confidence interval [CI]: 0.773–0.835)(P < 0.001). Using the test set, we obtained an AUC of 0.76 (95% CI: 0.710–0.810) with a sensitivity of 0.76 and a specificity of 0.62. These results from the test set were consistent with those from the training set.Conclusions:This study establishes an objective scoring system for the diagnosis of typical and atypical HFMD using measures accessible through routine clinical encounters. Due to the accuracy and sensitivity achieved by this scoring system, it can be employed as a rapid, low-cost method for establishing diagnoses in children with acute rash illness.
Genome Wide Search to Identify Reference Genes candidates for Gene Expression Analysis in Gossypium hirsutum
Authors: K Smitha P , K Vishnupriyan , Kar Ananya S. , M Anil Kumar , Bathula Christopher , N Chandrashekara K , Dhar Sujan K , Das Manjula 
Published: October 2019

Abstract
Background: Cotton is one of the most important commercial crops as the source of natural fiber, oil and fodder. To protect it from harmful pest populations number of newer transgenic lines have been developed. For quick expression checks in successful agriculture qPCR (quantitative polymerase chain reaction) have become extremely popular. The selection of appropriate reference genes plays a critical role in the outcome of such experiments as the method quantifies expression of the target gene in comparison with the reference. Traditionally most commonly used reference genes are the “ house-keeping genes”, involved in basic cellular processes. However, expression levels of such genes often vary in response to experimental conditions, forcing the researchers to validate the reference genes for every experimental platform. This study presents a data science driven unbiased genome-wide search for the selection of reference genes by assessing variation of >50,000 genes in a publicly available RNA- seq dataset of cotton species Gossypium hirsutum .
Result: Five genes ( TMN5, TBL6, UTR5B, AT1g65240 and CYP76B6 ) identified by data-science driven analysis, along with two commonly used reference genes found in literature ( PP2A1 and UBQ14 ) were taken through qPCR in a set of 33 experimental samples consisting of different tissues (leaves, square, stem and root), different stages of leaf (young and mature) and square development (small, medium and large) in both transgenic and non-transgenic plants. Expression stability of the genes was evaluated using four algorithms - geNorm , BestKeeper , NormFinder and RefFinder.
Conclusion: Based on the results we recommend the usage of TMN5 and TBL6 as the optimal candidate reference genes in qPCR experiments with normal and transgenic cotton plant tissues. AT1g65240 and PP2A1 can also be used if expression study includes squares. This study, for the first time successfully displays a data science driven genome-wide search method followed by experimental validation as a method of choice for selection of stable reference genes over the selection based on function alone.
Evaluation of vision-related quality of life with autologous internal limiting membrane transplantation for refractory macular hole.
Authors: yuan dongqing , Zhang Weiwei , Yuan Songtao , Xie Ping , Liu Qinghuai 
Published: October 2019

Abstract
Background: To evaluate the vision-related quality of life of vitrectomy combined with autologous internal limiting membrane(ILM) transplantation for refractory macular hole． Methods: A prospective and nonrandomized clinical study was carried out. There were fourty eyes with refractory macular hole included and all eyes received 23G vitrectomy and ILM peeling with autologous ILM transplantation. Preoperative and postoperative basic conditions were recorded, including best corrected visual acuity (BCVA), intraocular pressure, central retinal thickness (CRT) measurement by Optical coherence tomography (OCT) examination, macular hole index (MHI) and operative complications. The Chinese version of visual-related quality of life scale -25 (CVRQoL-25) was used to evaluate the visual related quality of life of patients after operation. The correlation between the quality of life and the postoperative visual acuity and the size of the macular hole before operation was tested by Spearman rank correlation test. Results: All patients were followed up for three months after surgery, and 38 patients achieved anatomical closure. The mean postoperative logMAR BCVA was 1.09±0.33, which has significantly improved than that before operation (P=0.000). The vision-related quality of life of patients after surgery was closely related to the macular hole index (r=0.375, P=0.017), but was negatively correlated with the best corrected visual acuity before and after surgery (r=-0.495, P=0.001; r=-0.760，P=0.000). It was also found that the vision-related quality of life of patients positively correlated with the postoperative CRT ( r=0.414，P=0.008). Conclusions: The anatomical structure of refractory macular hole patients with ILM peeling combined with autologous ILM transplantation was largely reduced, and the visual acuity of the patients improved significantly. Meanwhile, the vision-related quality of life was significantly improved after surgery. Trial Registration: ChiCTR-INR-16008660, date of registration: 2016/06/17
A meta-analysis of comparison of proximal gastrectomy with double-tract reconstruction and total gastrectomy for proximal early gastric cancer
Authors: Li Shengnan , Gu Lihu , Shen Zefeng , Mao Danyi , Khadaroo Parikshit Asutosh , Su Hui 
Published: October 2019

Abstract
Background In theory, proximal gastrectomy with double-tract reconstruction (PG-DT) was superior to total gastrectomy (TG) in hematologic and nutritional outcomes. However, its clinical effects in proximal early gastric cancer (EGC) have been controversial. Methods The purpose of this study was to investigate the outcomes of laparoscopic proximal gastrectomy with double-tract reconstruction (LPG-DT) for proximal EGC. For this systematic review and meta-analysis, we searched for articles published before December of 2018 in the following databases: PubMed, Web of Science, EBSCO, Medline, and Cochrane Library. Results The results showed no significant difference in the anastomotic stenosis (OR=0.91, 95%CI=0.33-2.50, p=0.85) and reflux esophagitis (OR=1.87, 95%CI=0.62-5.65, p=0.27) between LPG-DT and laparoscopic total gastrectomy (LTG). The vitamin B12 supplementation rate in the LPG-DT group was lower than the LTG group (OR=0.06, 95%Cl=0.01-0.59, p=0.02). Conclusions Due to comparable clinical effect, PG-DT is comparable to TG for patients with proximal EGC. In addition, LPG-DT not only appears superior to TG in terms of preventing vitamin B12 deficiency, but also does not increase the risk of anastomotic stricture and reflux esophagitis.
The effect of vitamin D supplementation on the glycemic control of pre-diabetic Qatari patients in a randomized control trial.
Authors: Thani Mohammed Al , Sadoun Eman , Sofroniou Angeliki , Jayyousi Amin , Baagar Khaled Ahmed Mohamed , Hammaq Abdulla Al , Vinodson Benjamin , Akram Hammad , Bhatti Zaid Shakoor , Nasser Heba Samir , Leventakou Vasiliki 
Published: October 2019

Abstract
Background: Vitamin D deficiency is associated with indicators of pre-diabetes including, insulin resistance, β-cell dysfunction and elevated plasma glucose with controversial findings from current trials. This study aims to investigate the long-term effect of vitamin D on glucose metabolism and insulin sensitivity in pre-diabetic and highly vitamin-deficient subjects. Methods: 132 participants were randomized to 30,000 IU vitamin D weekly for 6 months. Participants underwent oral glucose tolerance test (OGTT) at 3-month intervals to determine the change in plasma glucose concentration at 2h after 75g OGTT (2hPCG). Secondary measurements included glycated hemoglobin, fasting plasma glucose and insulin, post-prandial insulin, indices of insulin sensitivity (HOMA-IR, Matsuda Index), β-cell function (HOMA-β, glucose and insulin area under the curve (AUC), disposition and insulinogenic indices), and lipid profile. Results: A total of 57 (vitamin D) and 75 (placebo) subjects completed the study. Mean baseline serum 25(OH) D levels were 17.0 ng/ml and 14.9 ng/ml for placebo and vitamin D group, respectively. No significant differences were observed for 2hPC glucose or insulin sensitivity indices between groups. HOMA-β significantly decreased in the vitamin D group, while area under curve for glucose and insulin showed a significant reduction in β-cell function in both groups. Additionally, HOMA-β was found to be significantly different between control and treatment group and significance persisted after adjusting for confounding factors. Conclusion: Vitamin D supplementation in a pre-diabetic and severely vitamin-deficient population had no effect on glucose tolerance or insulin sensitivity. The observed reduction in β-cell function in both placebo and vitamin D groups could be attributed to factors other than supplementation. Trial registration: NCT02098980, 28/03/2014 (www.clinicaltrials.gov).
A lil3 chlp double mutant with exclusive accumulation of geranylgeranyl chlorophyll displays a lethal phenotype in rice
Authors: Li Chunmei , Liu Xin , Pan Jihong , Guo Jia , Wang Qian , Chen Congping , Li Na , Zhang Kuan , Yang Bin , Sun Changhui , Deng Xiaojian , Wang Pingrong 
Published: October 2019

Abstract
Background:
Phytyl residues are the common side chains of chlorophyll (Chl) and tocopherols. Geranylgeranyl reductase (GGR), which is encoded by CHLP gene, is responsible for phytyl biosynthesis. The light-harvesting like protein LIL3 was suggested to be required for stability of GGR and protochlorophyllide oxidoreductase in Arabidopsis.
Results:
In this study, we isolated a yellow-green leaf mutant, 637ys , in rice ( Oryza sativa ). The mutant accumulated majority of Chls with unsaturated geranylgeraniol side chains and displayed a yellow-green leaf phenotype through the whole growth period. The development of chloroplasts was suppressed, and the major agronomic traits, especially No. of productive panicles per plant and of spikelets per panicle, dramatically decreased in 637ys . Besides, the mutant exhibited to be sensitive to light intensity and deficiency of tocopherols without obvious alteration in tocotrienols in leaves and grains. Map-based cloning and complementation experiment demonstrated that a point mutation on the OsLIL3 gene accounted for the mutant phenotype of 637ys . OsLIL3 is mainly expressed in green tissues, and its encoded protein is targeted to the chloroplast. Furthermore, the 637ys 502ys ( lil3 chlp ) double mutant exclusively accumulated geranylgeranyl Chl and exhibited lethality at the three-leaf stage.
Conclusions:
We identified the OsLIL3 gene through a map-based cloning approach. Meanwhile, we demonstrated that OsLIL3 is of extreme importance to the function of OsGGR, and that the complete replacement of phytyl side chain of chlorophyll by geranylgeranyl chain could be fatal to plant survival in rice.
Associations of serum low-density lipoprotein and systolic blood pressure levels with type 2 diabetic patients with and without peripheral neuropathy: Systemic review, meta-analysis and meta-regression analysis of observational studies
Authors: Naqvi Syed Shah Zaman Haider , Author) Saber imani(Former Corresponding , Hosseinifard Hossein , Wen QingLian , Shahzad M. Naveed , Ijaz Iqra , Deng Youcai , Guo Man , Author) Yong Xu(New Corresponding 
Published: October 2019

Abstract
Background:Compositional abnormalities in lipoproteins and cardiovascular risk factors play an important role in the progression of diabetic peripheral neuropathy (DPN). This systematic review aimed to estimate the predicting value of low-density lipoprotein (LDL) and systolic blood pressure (SBP) level in type-2 diabetes mellitus (T2DM) patients with and without peripheral neuropathy. We also tried to determine whether LDL and SBP are associated with an increased collision risk of DPN.
Materials and Methods:A systematic search was conducted for eligible publications which explored the LDL and SBP level in T2DM patients with and without peripheral neuropathy. The quality of the included studies was assessed by the QUADAS-2 tool. The standardized mean difference (SMD) with 95% CI of LDL and SBP level were pooled to assess the correlation between LDL and SBP level with DPN. We performed random effects meta-regression analyses to investigate factors associated with an increased collision risk of DPN.
Results:There was a significant association between LDL and SBP with poor prognosis of DPN in those included studies (I2= 88.1% and I2= 84.9%, respectively, Both P < 0.001). European T2DM patients have higher serum level of LDL in compare with the European DPN patients (SMD = 0.16, 95 % CI: -0.06 - 0.38; P <0.001). SBP level was associated with a 2.6-fold decrease in non-DPN patients of T2DM (SMD = -2.63, 95% CI: -4.00 - -1.27, P <0.001). Old age European T2DM patients have significantly high risk for diabetes drivers. Furthermore, the results of the case-control study design model are more precise to show the accuracy of SBP in Asian T2DM patients.
Conclusion:Our finding supports the LDL and SBP status could be associated with increased risk of peripheral neuropathy in T2DM patients.
Nutritional deficiency and associated factors among new pulmonary tuberculosis patients of Bale Zone Hospitals, Southeast Ethiopia
Authors: Hussien Bedru , Hussen Mohammedaman Mama , Seid Abdulwahhab , Hussen Abduljewad 
Published: October 2019

Abstract
Objective
Tuberculosis remains deadliest communicable diseases responsible for ill health among millions of people each year and is associated with malnutrition. Addressing nutritional deficiency in Tuberculosis patients is an important aspect of Tuberculosis control programme. Therefore, the aim was to assess the magnitude of nutritional deficiency and associated factors among new pulmonary tuberculosis patients of Bale Zone Hospitals, South-east Ethiopia, 2018. Cross-sectional study design was utilized. Data collection was carried out using structured questionnaires and anthropometric measurements. Body mass index was calculated to determine nutritional deficiency. Crude and adjusted odds ratios together with their corresponding 95% confidence intervals were computed. P-value < 0.05 was considered to declare a result as statistically associated.
Results
Prevalence of nutritional deficiency was 63.2 %. The mean Body mass index for all enrolled participants was 17.86 kg/m2. Employment status of the patients, p-value 0.012 (AOR = 1.82; 95 % CI = 1.14, 2.89) and Khat chewing, p-value 0.02 (AOR = 0.43; 95 % CI = 0.23, 0.85) were factors independently associated with Nutritional Deficiency. Prevalence of Nutritional Deficiency was found to be high. Nutritional support for the needy, regular nutritional assessment and dietary counseling are necessary for better treatment outcome and effective Tuberculosis control programme.