Artificial neural network optimization for protein secondary structure prediction

YÖK Tez ID: 520278Bu çalışmada protein işlevlerinin anlaşılmasında hayati önemi olan ikincil yapılarının tahmin edilebilmesi için çok katmanlı yapay sinir ağı ve çift yönlü tekrarlayan yapay sinir ağı optimizasyonu yapılmıştır. Bazı optimizasyon işlemleri için özgür yazılımlar kullanılarak bir hesaplama kümesi hazırlanmıştır. Optimizasyon sonucunda çift yönlü tekrarlayan yapay sinir ağlarının çok katmanlı yapay sinir ağından daha başarılı sonuç verdiği görülmüştür.In this study, a multi-layer artificial neural network and bidirectional recurrent artificial neural network optimization were performed in order to estimate secondary structures that are vital for understanding protein functions. For some optimization operations, a computation grid is prepared using open source software. As a result of the optimization, it has been seen that bidirectional artificial neural networks are more successful than the multi-layer artificial neural network

Protein ikincil yapı tahmini için yapay sinir ağı modellerinin optimizasyonu

Tez (Yüksek Lisans) -- Kırıkkale Üniversitesiref. no : 10208522119933

Open source slurm computer cluster system design and a sample application

2017 International Conference on Computer Science and Engineering (UBMK) -- OCT 05-08, 2017 -- Antalya, TURKEYErbay, Hasan/0000-0002-7555-541X; Celik, Mete/0000-0002-1488-1502WOS: 000426856900075Cluster computing combines the resources of multiple computers as they act like a single high-performance computer. In this study, a computer cluster consisting of Lustre distributed file system with one cluster server based on Slurm resource management system and thirteen calculation nodes were built by using available and inert computers that have different processors. Different bioinformatics algorithms were run using different data sets in the cluster, and the performance of the clusters was evaluated with the amount of time the computing cluster spent to finish the jobs.IEEE Adv Technol Human, Istanbul Teknik Univ, Gazi Univ, Atilim Univ, TBV, Akdeniz Univ, Tmmob Bilgisayar Muhendisleri Odas

Bilgisayar Bilimlerinde Güncel Konular

Günümüzün teknoloji çağı olarak nitelendirilmesinde şüphe yok ki bilgisayar bilimlerinin payı oldukça fazladır. Bilgisayar bilimi kavramı ortaya çıktığı andan itibaren hızlı bir gelişim göstermiş; günümüzde de ivmesi artarak devam etmektedir. “Bilgisayar Bilimlerinde Güncel Konular” isimli bu kitap on beş farklı bölümden oluşmaktadır. Kitabın bölümleri titiz bir çalışma neticesinde belirlenmiştir. Her biri alanında uzman, akademisyen ve mühendislerden oluşan yazar grubunun itinalı çalışması neticesinde ortaya çıkan bu eser, Bilgisayar Mühendisliğinde Güncel Konular, Bilgisayar Bilimlerinde Güncel Konular, Bilgisayar Mühendisliğinde Özel Konular, Bilgisayar Mühendisliğine Giriş, Yazılım Mühendisliğine Giriş ve Kariyer Planlama dersleri için kaynak kitap niteliğindedir. Eser, içerik itibarıyla bilgisayar ve yazılım Mühendisliği Bölümü öğrencileri başta olmak üzere lise öğrencilerinden akademik kariyer planı yapan lisansüstü öğrencilere kadar bilişim ve bilgisayar alanına ilgi duyan herkesi muhatap almaktadır.</p

Clinical and molecular evaluation of MEFV gene variants in the Turkish population: a study by the National Genetics Consortium

Familial Mediterranean fever (FMF) is a monogenic autoinflammatory disorder with recurrent fever, abdominal pain, serositis, articular manifestations, erysipelas-like erythema, and renal complications as its main features. Caused by the mutations in the MEditerranean FeVer (MEFV) gene, it mainly affects people of Mediterranean descent with a higher incidence in the Turkish, Jewish, Arabic, and Armenian populations. As our understanding of FMF improves, it becomes clearer that we are facing with a more complex picture of FMF with respect to its pathogenesis, penetrance, variant type (gain-of-function vs. loss-of-function), and inheritance. In this study, MEFV gene analysis results and clinical findings of 27,504 patients from 35 universities and institutions in Turkey and Northern Cyprus are combined in an effort to provide a better insight into the genotype-phenotype correlation and how a specific variant contributes to certain clinical findings in FMF patients. Our results may help better understand this complex disease and how the genotype may sometimes contribute to phenotype. Unlike many studies in the literature, our study investigated a broader symptomatic spectrum and the relationship between the genotype and phenotype data. In this sense, we aimed to guide all clinicians and academicians who work in this field to better establish a comprehensive data set for the patients. One of the biggest messages of our study is that lack of uniformity in some clinical and demographic data of participants may become an obstacle in approaching FMF patients and understanding this complex disease

The prevalence of microalbuminuria and relevant cardiovascular risk factors in Turkish hypertensive patients.

Objectives: A growing body of data illustrates the importance of microalbuminuria (MAU) as a strong predictor of cardiovascular risk in the hypertensive population. The present study was designed to define the prevalence of MAU and associated cardiovascular risk factors among Turkish hypertensive outpatients. Study design: Representing the Turkish arm of the multinational i-SEARCH study involving 1,750 sites in 26 countries around the world, a total of 1,926 hypertensive patients from different centers were included in this observational and cross-sectional survey study. Patients with reasons for a false-positive MAU test were excluded. The prevalence of MAU was assessed using a dipstick test, and patients were inquired about comorbidities, comedication, and known cardiovascular risk factors. Results: The overall prevalence of MAU was 64.7% and there was no difference between genders. Most of the patients (82.5%) had uncontrolled hypertension, 35.6% had dyslipidemia, and 35.5% had diabetes, predominantly type 2. Almost one-third of the patients (26.4%) had at least one cardiovascular-related comorbidity, with 20.3% having documented coronary artery disease (CAD). Almost all patients (96.8%) had one or more risk factors for cardiovascular disease in addition to hypertension, including family history of myocardial infarction or CAD, diabetes, dyslipidemia, lack of physical exercise, and smoking. A trend towards higher MAU values in the presence of CAD was determined. Conclusion: Microalbuminuria tests should be routinely used as a screening and monitoring tool for the assessment of subsequent cardiovascular morbidity and mortality among hypertensive patients. © 2011 Turkish Society of Cardiology