Automatic Detection of Pulmonary Embolism in CTA Images Using Machine Learning

In this study, a novel computer-aided detection (CAD) method is introduced to detect pulmonary embolism (PE) in computed tomography angiography (CTA) images. This method consists of lung vessel segmentation, PE candidate detection, feature extraction, feature selection and classification of PE. PE candidates are determined in lung vessel tree. Then, feature extraction is carried out based on morphological properties of PEs. Stepwise feature selection method is used to find the best set of the features. Artificial neural network (ANN), k-nearest neighbours (KNN) and support vector machines (SVM) are used as classifiers. The CAD system is evaluated for 33 CTA datasets with 10 fold cross-validation. The sensitivities of these classifiers are obtained as 98.3 %, 57.3 % and 73 % at 10.2, 5.7 and 8.2 false positives per dataset respectively

Effect of sulphur suplly on length of vegetative and generative season, growing degree days and content of mineral rate of corn seed

Bu çalışmanın amacı farklı dozlarda ve farklı uygulama zamanlarında uygulanan kükürt’ün mısırın gelişimine olan etkisinin belirlenmesidir. Buna ek olarak kükürt'ün mısır tanesinde mineral içeriğine olan etkisi de incelenmiştir. Bunun için 2013 ve 2014 yıllarında kurulan çalışma Adnan Menderes Üniversitesi Ziraat Fakültesi deneme tarlalarında yürütülmüştür. Çalışmada 7 melez mısır çeşidi (İnove, Calipso, Miami, İndaco, Locroso, 31G98 ve Lacasta) kullanılmıştır. Kükürt uygulama formu elementer toz kükürt şeklinde olmuştur. Uygulama miktarı ise baz doygunluğuna göre katyon değişim kapasitesi hesaplanarak pH'yı bir birim düşürebilmek için gereken miktar “doz 1” olarak tanımlanmış ve bunun iki katı “doz 2” olarak belirlenmiştir. Buna göre kükürt uygulama şekilleri; “standart” (hiç kükürt uygulanmamış standart gübreleme N,P,K yapılmış), “Uyg.1” (ekimde doz 1 uygulaması), “Uyg.2” (ekimde doz 2 uygulaması), “Uyg.3” (ekimden yaklaşık 2 ay önce doz 1 uygulaması) ve “Uyg.4” (ekimden yaklaşık 2 ay önce doz 2 uygulaması) olarak planlanmıştır. Tüm bunlara ek olarak hiç gübre verilmemiş “kontrol” parselleri de kurulmuştur. Deneme sonucunda bitkilerin vejetatif ve genaratif dönem için elde edilen büyüme derece gün (BDG) değerleri, tanede çinko (Zn), mangan (Mn), demir (Fe), bakır (Cu) miktarları incelenmiştir. Elementer kükürt mısırın vejetasyon süresini uzatmıştır. Özellikle generatif olum süresini uzatmış ve hesaplanan BDG değerlerini etkilemiştir. Çalışmanın sonucunda S dozlarının, uygulama zamanlarının ve interaksiyonunun tanede Zn, Mn, Fe, ve Cu oranları üzerine önemli etkileri saptanmıştır. En yüksek tanede Zn miktarı kontrol uygulamasında, Mn ve Fe miktarları Uyg2.'de ve Cu miktarı ise Uyg4.'de ölçülmüştür.The purpose of the study was investigated effect of different sulfur doses and application dates on corn plant growing. Besides the sulfur effects on content of mineral rate of corn seed is also determined. Experiment was conducted Adnan Menderes University, on the experiment field of Agriculture Faculty. Seven maize hybrids (Inove, Calipso, Miami, Indaco, Locroso, 31G98 and Lacasta) were selected to materials of the study. Application doses of sulfur were determinate with calculating cation exchange capacity as “dose 1” which to reduce a unit of pH and “dose 2” which to reduce two unit of pH. According to these doses, field practices were applied “standard” -1 -1 -1 [(no sulfur application and only standard fertilization (210 kg.ha N, 60 kg.ha P O , 60 kg.ha K O)], “ App.1” 2 5 2 (standard fertilization and dose 1 application on planting time), “App.2” (standard fertilization and dose 2 application on planting time), “App.3” (standard fertilization and dose 1 application before 8 week of planting time), “App.4” (standard fertilization and dose 2 application before 8 week of planting time) and control (no application). Growing degree days (GDD) values were measured of vegetative and generative stages. In addition content of Zn, Mn, Fe, Cu values were measured. S element effected corn growing period length especially generative period and calculating GDD values. The results of this study indicated that different S levels and application date and their interactions had statistically affected Zn, Mn, and Fe and Cu ratio of grain. It was measured that the highest Zn rate on the control parcel. Similarly the highest Mn and Fe rate were measured on the App2. and the highest Cu rate on the App4

The determination of performance of some hybrid corn varieties

Mısır, dünyada önem bakımından tahıllar grubundaki 3 bitkiden birisidir. Bu sebeple günden güne birçok yeni melez mısır çeşidi geliştirilmektedir. Bu çalışmanın amacı yeni melezlerin performanslarının belirlenmesidir. DenemeAdnan Menderes Üniversitesi Ziraat Fakültesinde kurulmuştur. KompozitArifiye,Ada 9510,Ada 9516, Özgem, DKC6842, Varenne, Cadız, C955, Helen ve Doge çeşitleri çalışmanın materyalini oluşturmuştur. Tepe püskülü çıkarma gün sayısı (TP), koçan püskülü çıkarma gün sayısı (KP), koçan uzunluğu (KU), koçanda tane sayısı(KTS), bin tane ağırlığı(BTA), tane verimi (TV) ve tanede protein oranı(PO) değerleri belirlenmiştir. Tepe püskülü çıkarma gün sayısı değeri 62-72 gün aralığında, koçan püskülü çıkarma gün sayısı değeri 66-78 gün aralığında, koçan uzunluğu 18.9-24.8 cm aralığında, koçanda tane sayısı 514-812 adet aralığında, bin tane ağırlığı 243-330 g aralığında, tane verimi 1130-1680 kg/da aralığında, protein oranı %9.8-%13.5 aralığında olduğu belirtilmiştir. Çalışmanın sonucunda C-955 çeşidi verim ve verim öğeleri bakımından, Kompozit Arifiye çeşidi ise tane kalitesi açısından en yüksek performansı göstermiştir.Corn is one of the three important plants under the cereal crops in the world. Therefore many new hybrid corn varieties are developed day by day. The aim of the study determinates of the new hybrid performance. The trial was establishedAgriculture Faculty ofAdnan Menderes Universities inAydın. KompozitArifiye,Ada 9510,Ada 9516, Özgem, DKC-6842, Varenne, Cadız, C955, Helen and Doge were carried material of the experiment. The number of day to teaseling, the number of day to silking, cob length, the number of grain per cob, a thousand of grain weight, grain yield and protein rate were determinate. The number of day to teaseling among of 62-72 days, the number of day to silking among of 66-78 days, cob length among of 18.9- 24.8 cm, the number of grain per cob among of 514- 812, a thousand of grain weight among of 243-330 g, grain yield among of 1130-1680 kg/da and protein rate among of 9.8%-13.5% was indicated. Result of the experiment C-955 corn variety showed the best performance from the yield and yield component and KompozitArifiye also showed the best performance from the kernel quality

DolphinNext: a distributed data processing platform for high throughput genomics

BACKGROUND: The emergence of high throughput technologies that produce vast amounts of genomic data, such as next-generation sequencing (NGS) is transforming biological research. The dramatic increase in the volume of data, the variety and continuous change of data processing tools, algorithms and databases make analysis the main bottleneck for scientific discovery. The processing of high throughput datasets typically involves many different computational programs, each of which performs a specific step in a pipeline. Given the wide range of applications and organizational infrastructures, there is a great need for highly parallel, flexible, portable, and reproducible data processing frameworks. Several platforms currently exist for the design and execution of complex pipelines. Unfortunately, current platforms lack the necessary combination of parallelism, portability, flexibility and/or reproducibility that are required by the current research environment. To address these shortcomings, workflow frameworks that provide a platform to develop and share portable pipelines have recently arisen. We complement these new platforms by providing a graphical user interface to create, maintain, and execute complex pipelines. Such a platform will simplify robust and reproducible workflow creation for non-technical users as well as provide a robust platform to maintain pipelines for large organizations. RESULTS: To simplify development, maintenance, and execution of complex pipelines we created DolphinNext. DolphinNext facilitates building and deployment of complex pipelines using a modular approach implemented in a graphical interface that relies on the powerful Nextflow workflow framework by providing 1. A drag and drop user interface that visualizes pipelines and allows users to create pipelines without familiarity in underlying programming languages. 2. Modules to execute and monitor pipelines in distributed computing environments such as high-performance clusters and/or cloud 3. Reproducible pipelines with version tracking and stand-alone versions that can be run independently. 4. Modular process design with process revisioning support to increase reusability and pipeline development efficiency. 5. Pipeline sharing with GitHub and automated testing 6. Extensive reports with R-markdown and shiny support for interactive data visualization and analysis. CONCLUSION: DolphinNext is a flexible, intuitive, web-based data processing and analysis platform that enables creating, deploying, sharing, and executing complex Nextflow pipelines with extensive revisioning and interactive reporting to enhance reproducible results

COVID-19 pandemisi sürecinde serbest eczacıların anksiyete düzeyleri: İstanbul’da bir kesitsel araştırma

Community pharmacists have been on the frontlines during the 2019 Coronavirus Disease (COVID-19) pandemic. Although the mental health and anxiety levels of many other health workers are studied in this period, literature is very limited to understand the experience of pharmacists. This study aims to define the anxiety level of community pharmacists in Istanbul during the COVID-19 pandemic and identify possible influencing factors. The population of the study is community pharmacists from pharmacies in Istanbul. In this cross-sectional study, 348 pharmacies are selected by simple random sampling. Participants are approached via telephone and inquired with questions about sociodemographic information, work conditions, COVID-19 specific concerns, and the Beck Anxiety Inven-tory. 239 (68.7%) pharmacists responded. This study identifies that, by the 6th month of the pandemic, the mean anxiety score of the pharmacists in Istanbul is 9.4±10.6, and 54.8% (n=134) of the participants is experiencing “minimal” anxi-ety. However, they have some COVID-19 specific concerns (becoming infected and transmitting the disease to family or environment) at high and extreme lev-els. Those concerns significantly increase the anxiety score. The findings of this study are promising for public health, as they show that community pharmacists could cope with the psychological effects of the pandemic.Eczacılar, 2019 Koronavirüs Hastalığı (COVID-19) pandemisi döneminde sağlık hizmetlerinin ön saflarında çalışmaktadır. Bu süreçte hastalarla birebir temas halinde olmaları ve çalışma şartlarındaki değişiklikler ruhsal iyilik hallerini etkileyebilir ve anksiyeteye sebep olabilir. Alanyazında COVID-19 pandemisi sürecinde, diğer sağlık çalışanlarının ruhsal iyilik halleri ve anksiyete düzeylerine ilişkin araştırmalar mevcut iken araştırmalar eczacıların deneyimini anlamak için yetersizdir. Bu çalışmanın amacı, COVID-19 pandemisi sürecinde İstanbul’da görev yapmakta olan eczacıların anksiyete düzeyini ve onu etkileyebilecek faktörleri tespit etmektir. Araştırmanın evreni İstanbul’daki eczanelerde görev yapan serbest eczacılardır. Kesitsel türdeki bu araştırmada basit rastgele örnekleme yöntemi ile 348 eczane seçilmiştir. Seçilen eczanelere telefon ile ulaşılıp; sosyodemografik bilgiler, çalışma bilgileri ve COVID-19’a özgü endişeler hakkında sorular ile Beck Anksiyete Ölçeği maddeleri yöneltilmiştir. Örnek gruptaki eczacıların %68,7’ine (n=239) ulaşılmıştır. Pandeminin 6. ayı itibariyle İstanbul’daki eczacıların anksiyete ölçeği puanı ortalamasının 9,4±10,6 olduğu ve %54,8’inin (n=134) “minimal düzeyde anksiyete” sahibi olduğu tespit edilmiştir. Bununla beraber COVID-19’a özgü bazı endişelerinin (hastalığa yakalanma ve çevresine bulaştırma) çok ve aşırı çok hissedildiği ve bu endişelerin genel anksiyete puanını istatistiksel olarak önemli düzeylerde etkilediği tespit edilmiştir. Bu sonuç, eczacıların psikolojik olarak pandemiyle başa çıkabildiklerini göstermesi itibariyle halk sağlığı açısından ümit verici olarak yorumlanabilir

An Experimental Study of Reduced-Voltage Operation in Modern FPGAs for Neural Network Acceleration

We empirically evaluate an undervolting technique, i.e., underscaling the circuit supply voltage below the nominal level, to improve the power-efficiency of Convolutional Neural Network (CNN) accelerators mapped to Field Programmable Gate Arrays (FPGAs). Undervolting below a safe voltage level can lead to timing faults due to excessive circuit latency increase. We evaluate the reliability-power trade-off for such accelerators. Specifically, we experimentally study the reduced-voltage operation of multiple components of real FPGAs, characterize the corresponding reliability behavior of CNN accelerators, propose techniques to minimize the drawbacks of reduced-voltage operation, and combine undervolting with architectural CNN optimization techniques, i.e., quantization and pruning. We investigate the effect of environmental temperature on the reliability-power trade-off of such accelerators. We perform experiments on three identical samples of modern Xilinx ZCU102 FPGA platforms with five state-of-the-art image classification CNN benchmarks. This approach allows us to study the effects of our undervolting technique for both software and hardware variability. We achieve more than 3X power-efficiency (GOPs/W) gain via undervolting. 2.6X of this gain is the result of eliminating the voltage guardband region, i.e., the safe voltage region below the nominal level that is set by FPGA vendor to ensure correct functionality in worst-case environmental and circuit conditions. 43% of the power-efficiency gain is due to further undervolting below the guardband, which comes at the cost of accuracy loss in the CNN accelerator. We evaluate an effective frequency underscaling technique that prevents this accuracy loss, and find that it reduces the power-efficiency gain from 43% to 25%.Comment: To appear at the DSN 2020 conferenc

12th WORLD UNIVERSITIES WRESTLING CHAMPIONSHIP FREE STYLE COMPETITION TECHNICAL ANALYSIS

The purpose of this study was to make 12th World Universities Wrestling Championships Free style competition technical analysis. There were 85 participants from 19 countries participated in Çorum. The observation form prepared before the competitions with recorded by two researchers, technical analysis of the recordings were obtained. During the competitions, the scores obtained, warnings, winning types, successful techniques recorded in the technical analyze form. In statistical analysis, the percentage distributions for each parameter and match percentage rates were calculated. Statistical was performed by One Way ANOVA and LSD analysis of variance in group comparisons. The number of technical points taken for all weight groups in wrestling competitions were 789 points. The highest number of points was achieved in middleweight groups with 352 and with the maximum number of matches was made with 33 in the middleweight group. In the free style wrestling, ratio for one competition (ROC) was of received number of 10.38 points. Ratio of received points for one competition between weight groups found differences (p<0.05). The points of Middleweight group are higher from Lightweight and Heavyweight groups. Lightweight wrestlers 51.85% won by score and while 48.15% won by technical superiority. Middleweight wrestlers 48.48% won by score and while 51.52% won by technical superiority. Heavyweight wrestlers 75% won by score and while 25% won by technical superiority. Iran, Russia and Turkey participated in all category competitions. To get degrees, countries must matches at all sizes. Number of touch in Heavyweight wrestlers was more than from lightweight and middleweight wrestlers. Coaches in Countries must follow the wrestlers of competing countries. If necessary, it should go to the weight category setting. Some wrestlers recommended wrestled at the top category or bottom category.   Article visualizations

Vitamin D status in the first-trimester: effects of Vitamin D deficiency on pregnancy outcomes

Objective: To assess serum levels of 25-hydroxyvitamin D [25(OH)D] in the first trimester and to determine the factors affecting deficiency levels and its association with pregnancy outcomes.Methods: Serum 25(OH)D concentrations were measured at 11-14 weeks’ gestation in 229 singleton pregnancies using liquid chromatography-tandem mass spectrometry.Results: The median serum 25(OH)D concentration was 10.8 ng/mL and 45.9% of women had severe vitamin D deficiency with concentrations of <10 ng/mL. Logistic regression analysis revealed that covered dressing style, lack of multivitamin intake, season of blood sampling (November-April) were factors associated with 25(OH)D deficiency. There was a negative correlation between 25(OH)D levels and gestational age at sampling. Low 25(OH)D levels were not associated with adverse pregnancy outcomes. Higher rate of cesarean section (CS) was noted in women with 25(OH)D ≥10 ng/mL compared to those with 25(OH)D < 10mg/ml ( p= 0.01).Conclusion: A high prevalence of vitamin D deficiency was observed in early pregnancy which was related to dress code, use of multi-vitamins and season at sampling. Low 25(OH)D levels were not related with adverse pregnancy outcomes. Women with severe vitamin D deficiency were more likely to deliver vaginally.Keywords: 25-hydroxyvitamin D; pregnancy outcome; vitamin D deficienc