- Ege University,
Faculty of Medicine,
Department of Biostatistics and Medical Informatics,
İzmir - Turkey
Medical University of Vienna
Center for Medical Statistics, Informatics, and Intelligent Systems
Section for Medical Expert and Knowledge-Based Systems
Spitalgasse 23, A-1090 Vienna, Austria
- Medical Statistics, Multivariate Statistics, Biostatistics, Applied Statistics, Clinical Trials, Decision Theory, and 7 moreOperations Research, Multi-criteria Decision Analysis infrastructure, Decision Support System in Medicine, Clinical Decision-Making, Multi Criteria Decision Making, Decision Support Systems, and Statisticsedit
- Dr. Aslı Suner Karakülah currently works at Ege University, School of Medicine, Department of Biostatistics and Medic... moreDr. Aslı Suner Karakülah currently works at Ege University, School of Medicine, Department of Biostatistics and Medical Informatics in Turkey as an associate professor. She obtained BSc (2005), MSc (2007) and PhD (2013) degrees from Dokuz Eylül University, Science Faculty, Statistics Department in Turkey. Between March 2011 and February 2012, she joined Professor Klaus-Peter Adlassnig’s research group as a visiting PhD student at Medical University of Vienna, Center for Medical Statistics, Informatics, and Intelligent Systems, Section for Medical Expert and Knowledge-Based Systems, Vienna, Austria. Her main research interests include: biostatistics, bioinformatics, medical informatics and applied statistics – particularly the analysis of problems in decision theory, multicriteria decision making, clinical decision support systems, and data mining.edit
Correspondence analysis is a method making easy to interpret the categorical variables given in contingency tables, showing the similarities, associations as well as divergences among these variables via graphics on a lower dimensional... more
Correspondence analysis is a method making easy to interpret the categorical variables given in contingency tables, showing the similarities, associations as well as divergences among these variables via graphics on a lower dimensional space. Since it factors the data matrix into the rows and columns, and shows each of them with a separate graphics, it releases important information about the structure of the data. There are similarities between this analysis and some other multivariate methods including Principal Component Analysis, Log-Linear Models and Multidimensional Scaling. Having lots of categorical data in applied science, such as in medicine, biology and economy, makes the correspondence analysis very popular method. In this book, correspondence analysis will be applied to the epidemiological research data obtained from the study in which people who had any illnesses and were gathered for adults? mental health research at Narlidere education and research area conducted by Dokuz Eylul University School of Medicine Department of Public Health, were utilized.
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In disease diagnosis classification, ensemble learning algorithms enable strong and successful models by training more than one learning function simultaneously. This study aimed to eliminate the irrelevant variable problem with the... more
In disease diagnosis classification, ensemble learning algorithms enable strong and successful models by training more than one learning function simultaneously. This study aimed to eliminate the irrelevant variable problem with the proposed new feature selection method and compare the ensemble learning algorithms’ classification performances after eliminating the problems such as missing observation, classroom noise, and class imbalance that may occur in the disease diagnosis data. According to the findings obtained; In the preprocessed data, it was seen that the classification performance of the algorithms was higher than the raw version of the data. When the algorithms’ classification performances for the new proposed advanced t-Score and the old t-Score method were compared, the feature selection made with the proposed method showed statistically higher performance in all data sets and all algorithms compared to the old t-Score method (p = 0.0001).
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Amaç: Çalışmanın amacı plasenta invazyon derecesi ile tedavide kullanılan cerrahi yöntemlerin ilişkisinin incelenmesiydi. Yöntem: Ege Üniversitesi Tıp Fakültesi Kadın Hastalıkları ve Doğum Kliniği’nde 2017-2022 yılları arasında sezaryen... more
Amaç: Çalışmanın amacı plasenta invazyon derecesi ile tedavide kullanılan cerrahi yöntemlerin ilişkisinin incelenmesiydi. Yöntem: Ege Üniversitesi Tıp Fakültesi Kadın Hastalıkları ve Doğum Kliniği’nde 2017-2022 yılları arasında sezaryen yapılan ve histopatolojik inceleme sonrası plasenta akreata spekturumu (PAS) tanısı alan olgular çalışmaya dahil edildi. Olguların yaşı, gebelik sayısı, daha önce geçirdikleri sezaryen sayısı, uygulanan cerrahi yöntem, eritrosit transfüzyon ihtiyaçları ve histopatolojik inceleme sonuçları elektronik ve basılı hasta dosyalarından elde edilerek olgu formuna kaydedildi. Vakaların yönetiminde kullanılan operatif teknikler, sezaryen+bilateral uterin arter ligasyonu, sezaryen+segmental rezeksiyon, sezaryen+bilateral uterin arter ligasyonu+segmental rezeksiyon+bilateral internal iliak arter ön dal ligasyonu ve son olarak sezaryen+histerektomi şeklinde belirlendi. Bulgular: Dahil edilme kriterlerini karşılayan 109 olgu retrospektif çalışmaya alındı. Olguları...
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Cyclophosphamide is a well-known alkylating cytotoxic chemotherapeutic agent. Aim: To investigate protective effects of Resveratrol in combination or comparison with Zinc in experimental testicular injury induced by Cyclophosphamide is... more
Cyclophosphamide is a well-known alkylating cytotoxic chemotherapeutic agent. Aim: To investigate protective effects of Resveratrol in combination or comparison with Zinc in experimental testicular injury induced by Cyclophosphamide is studied for the first time in literature. Materials and Methods: Rats (n=63) were randomly divided into 9 groups. After 21 days of drug administration biochemical and histological analysis were performed. Daily water consumption, body weights and weight of testes were measured. Johnsen’s testicular scoring and sperm morphology were evaluated. Hematoxylin&Eosin, Periodic acid-Schiff and Masson's trichrome stainings and iNOS, eNOS and CD34 antibodies were applied histologically. To determine oxidative stress, MDA and CAT values were determined. Statistically, one-way ANOVA with post Hoc Tukey HSD test for multiple comparisons was performed via IBM SPSS Version 25.0. Results: Cyclophosphamide caused an increase in testicular MDA levels due to elevate...
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Papillary thyroid carcinoma (PTC) is the most common type of thyroid cancer and accounts for 85-90% of all thyroid cancers. Metastatic differentiated thyroid cancer, radioiodine-refractory thyroid cancer, and anaplastic thyroid cancer... more
Papillary thyroid carcinoma (PTC) is the most common type of thyroid cancer and accounts for 85-90% of all thyroid cancers. Metastatic differentiated thyroid cancer, radioiodine-refractory thyroid cancer, and anaplastic thyroid cancer still lack effective therapeutic options. Here, we aimed to assess HDAC9 and P300 expression in the papillary thyroid carcinoma cell line and compare them with normal thyroid cells. Methods: Nthy-ori-3-1, a normal thyroid cell line, and BCPAP, a PTC cell line, were cultured for 24 and 48 h and immunofluorescence staining was used to determine the levels of HDAC9 and P300 protein expression. HDAC9 paracrine release was assessed using an ELISA assay. Results: HDAC9 protein expression was higher in both cell groups at the 48th hour than at the 24th hour; however, P300 protein expression was lower in BCPAP cells at the 48th hour than at the 24th hour. In comparison to Nthy-ori-3-1, BCPAP expressed more HDAC9 and P300 proteins. HDAC9 secretion slightly increased in Nthy-ori-3-1 cells from 24 to 48 h. Furthermore, HDAC9 secretion in BCPAP cells dramatically decreased from 24 to 48 h. Conclusion: Our findings revealed that the expression of HDAC9 and P300 was higher in the PTC cell line than in normal thyroid cells. This indicates that the acetylation mechanism in thyroid cancer cells is not the same as it is in healthy cells. Epigenetic studies may reveal the mechanisms underlying PTC with further analysis.
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Objectives To define and compare the diagnostic accuracy of ultrasonography (USG) and magnetic resonance imaging (MRI) for the placental adhesive disorder (PAD). Methods A prospective study was conducted between January 2019 and February... more
Objectives To define and compare the diagnostic accuracy of ultrasonography (USG) and magnetic resonance imaging (MRI) for the placental adhesive disorder (PAD). Methods A prospective study was conducted between January 2019 and February 2020 in a tertiary referral university hospital. A total of 115 placenta previa cases were included in the study during the third trimester of gestation. USG examination was performed, and the placenta was scanned in a systematic manner using gray-scale ultrasound, color Doppler flow mapping, and 3-D imaging for each participant. Thereafter, all participants underwent an MRI examination. USG and MRI findings were compared with histopathological findings. Results Loss of the retroplacental sonolucent zone (71% [95% CI 47–88]) and an irregular retroplacental sonolucent zone (71% [95% CI 47–88]) were the most sensitive USG parameters. For MRI, the uterine bulging parameter was the most sensitive (60% [95% CI 36–80]) and specific (91% [95% CI 83–96]) fi...
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Aim: Thyroid diseases can cause maternal and fetal adversities, and proper diagnosis, follow-up and treatment during pregnancy requires special attention. In the evaluation of thyroid functions during pregnancy, free thyroxine (FT4) is... more
Aim: Thyroid diseases can cause maternal and fetal adversities, and proper diagnosis, follow-up and treatment during pregnancy requires special attention. In the evaluation of thyroid functions during pregnancy, free thyroxine (FT4) is used primarily with thyroid-stimulating hormone (TSH). Our aim is to investigate the prevalence and the effects of thyroid dysfunction during pregnancy. Material and Methods: Our study is a prospective study including 960 pregnant women and spanning from November 2017 to May 2019 in Ege University Endocrinology outpatient clinic.100 pregnant women with thyroid dysfunction out of 960 pregnant women were included in the study. Maternal age, gestational trimester, family history of the thyroid disorder, TSH, FT4, free triiodothyronine (FT3), anti-thyroid peroxidase antibody (Anti-TPO), anti-thyroglobulin antibody (Anti-TG), thyrotropin (TSH) receptor antibody (TRAb) were collected. The correlations between TSH, FT3 and FT4 were examined. Results: In the ...
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Purpose Hashimoto's thyroiditis (HT) is one of the most prevalent autoimmune endocrine diseases and caused by the loss of immune tolerance for the thyroid gland. Many pathophysiological mechanisms were speculated about the... more
Purpose Hashimoto's thyroiditis (HT) is one of the most prevalent autoimmune endocrine diseases and caused by the loss of immune tolerance for the thyroid gland. Many pathophysiological mechanisms were speculated about the development of HT. In our study, we aimed to reveal the relationship between HT and IL-10, MCP-1, IFNɤ, and PD1 levels and compare them with control subjects. Methods We collected 37 patients with HT and 25 controls referred to our outpatient clinic. The diagnosis of HT was based on the detection of circulating antibodies to thyroid antigens and decreasing echogenicity on thyroid USG in patients with appropriate clinical characteristics. Serum IL-10, MCP-1, IFNɤ, and PD1 levels were detected using an ELISA KIT (96 T) method according to the manufacturer's instructions. Results All subjects were euthyroid (median TSH level was 1.68 mU/L in HT vs 1.83 mU/L in the controls, p = 0.672). Twenty-three of 37 patients with HT were taking L-thyroxin replacement. Levels of serum IL-10, IFNɤ, and PD1 in patients with HT were higher than the controls, but the differences were not statistically significant (p = 0.393, p = 0.495, and p = 0.052 respectively). The serum levels of MCP-1 in HT patients were statistically different and higher than the controls (p = 0.018). Correlation analysis displayed significant associations between IL-10, MCP-1, IFNɤ, and PD1 levels. Conclusion Our study demonstrated that serum MCP-1 levels in HT patients were significantly increased; on the other hand, significant difference was not found between HT patients and the controls in terms of serum IL-10, IFNɤ, and PD1 levels.
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Amaç: Tüm dünya Aralık 2019'dan bu yana SARS-CoV-2 virüsü ile başa çıkmaya çalışmaktadır. Hastalığın erken belirtileri, soğuk algınlığı ve grip gibi diğer yaygın durumlarla örtüştüğünden, hekimler için erken tanının önemi büyüktür. Bu... more
Amaç: Tüm dünya Aralık 2019'dan bu yana SARS-CoV-2 virüsü ile başa çıkmaya çalışmaktadır. Hastalığın erken belirtileri, soğuk algınlığı ve grip gibi diğer yaygın durumlarla örtüştüğünden, hekimler için erken tanının önemi büyüktür. Bu çalışmada, genel kullanıma açık anonim bir veri seti kullanılarak, rutin kan testleri sonuçları üzerinden Yeni Koronavirüs Hastalığı (COVID-19) tanısının (pozitif/negatif) makine öğrenmesi algoritmaları yardımıyla tahmin edilmesine yönelik bir mobil uygulama geliştirilmesi amaçlanmaktadır. Gereç ve Yöntem: Veri setinde yer alan, kayıp gözlem, sınıf dengesizliği, aykırı gözlem ve ilgisiz değişken problemleri giderildikten sonra makine öğrenmesi yöntemlerinin sınıflandırma performansları test edilmiş, ardından uygun değişkenlerle COVID-19 tanısı için lojistik regresyon modeli kurulmuştur. Bu model kullanılarak makine öğrenmesi tabanlı mobil uygulaması tasarlanmıştır. Bulgular: Tanı koymada en iyi sonuç veren değişkenler, eozinofil, lökosit, trombosit...
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Purpose Acromegaly is associated with oxidative stress and inflammation parameters. Chitotriosidase (CHITO) is a marker of macrophage activation and plays a pivotal role in the activation of inflammatory and immunological responses. Our... more
Purpose Acromegaly is associated with oxidative stress and inflammation parameters. Chitotriosidase (CHITO) is a marker of macrophage activation and plays a pivotal role in the activation of inflammatory and immunological responses. Our study aimed to determine CHITO,YKL-40, advanced glycation end product (AGE), and high-sensitivity C-reactive protein (hsCRP) levels to investigate malondialdehyde (MDA), catalase, superoxide dismutase (SOD), and glutathione peroxidase (GSH-Px) activities and to evaluate any association of these parameters with carotid intima media thickness (cIMT) in patients with controlled acromegaly. Methods Thirty controlled acromegaly patients and 41 age-and sex-matched control cases were studied. We obtained demographic data, hormonal and metabolic parameters, and cIMT. CHITO activity was measured with the fluorometric method of Chamoles et al. YKL-40 and hsCRP levels were measured using ELISA. AGEs were measured based on spectrofluorimetric detection. GSH-Px activity was determined by a colorimetric assay. MDA, SOD, and catalase activities were determined in hemolysis. Results Higher CHITO, AGE, and hsCRP concentrations were observed in patients with acromegaly compared to controls. SOD levels were non-significantly higher in the acromegaly group, while catalase activities were lower in patients with acromegaly. Correlation analyses of CHITO, AGEs, YKL-40, hsCRP, MDA, catalase, GSH-Px, and SOD with metabolic, anthropometric, and laboratory parameters did not demonstrate any significant correlation (p > 0.05). There was no significant difference between groups with regard to cIMT levels. Conclusion This is the first study investigating CHITO and AGE levels in patients with acromegaly. Serum CHITO, AGE, and hsCRP levels in acromegalic patients were significantly increased. It may be important to evaluate CHITO, AGE, and hsCRP levels in acromegalic patients who are already under cardiometabolic surveillance due to risk of developing cardiovascular disease.
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In recent years, supervised machine learning methods have increased attention to extracting clinically relevant information from complex health data. Ensemble learning methods enable the establishment of more successful models by training... more
In recent years, supervised machine learning methods have increased attention to extracting clinically relevant information from complex health data. Ensemble learning methods enable the establishment of more successful models by training multiple learners jointly to solve the same problem. Herein, we aimed to compare the performance of classification algorithms after data preprocessing to problems such as missing data, class noise, and class imbalance that may be encountered in the datasets used to make an accurate disease diagnosis. To this end, we used random forest and weighted subspace random forest as bagging algorithms while additive logistic regression and gradient boosted machines algorithms were used as boosting algorithms. The performance and running time of the algorithms were also calculated. Our findings indicated that the performance of algorithms increased after data preprocessing and the performance of boosting algorithms yielded higher results than the bagging algorithms. We also observed that the boosting algorithms were the longest-running ones. In conclusion, complementing existing studies, our work highlights the importance and effect of using multiple data preprocessing methods together.
Research Interests: Computer Science, Artificial Intelligence, Imbalanced Data, Mathematical Sciences, Diagnosis, and 9 moreMissing Data, Missing Data Imputation, Class Imbalance Problem, Ensemble Learning, Data Preprocessing, Ensamble Learning, Imbalance, Imputation of Missing Values In Statistical Data, and Class noise
A wide range of issues including missing values, class noise, class imbalance, outliers, correlation and irrelevant variables have the potential to negatively affect the overall performance of disease diagnosis classification algorithms.... more
A wide range of issues including missing values, class noise, class imbalance, outliers, correlation and irrelevant variables have the potential to negatively affect the overall performance of disease diagnosis classification algorithms. This study proposes a new technique, alternative to the t-Score method, to increase the performance of ensemble learning classification algorithms by removing irrelevant variables. Therefore, three publicly available datasets from medical domain varying in their sample sizes, number of variables, and data preprocessing problems were selected and processed with our newly proposed feature selection method called Outliers and Correlation t-Score (OCtS). Afterwards, six widely used ensemble learning algorithms including Random Forest, Gradient Boosting Machine, Extreme Gradient Boosting Machine, Light Gradient Boosting Machine, CatBoost, and Bagging were employed for disease diagnosis classification, and performance metrics were measured. Our results indicate that the classification performance of six ensemble learning algorithms significantly increased when the OCtS method was employed, and our feature selection method, OCtS, exhibited higher performance compared to the standard tscore method across all datasets (p ¼ 0.0001). We conclude that, using data preprocessing methods with OCtS offers better algorithm performance when employing ensemble learning algorithms in disease diagnosis classification.
Research Interests: Computer Science, Artificial Intelligence, Statistics, Machine Learning, Feature Selection, and 13 moreImbalanced Data, Random Forest, Mathematical Sciences, Correlation, Missing Data, Missing Data Imputation, Class Imbalance Problem, Ensemble Learning, Data Processing, Gradient Boosting, Ensamble Learning, Imbalance, and Outlier
Macrophages are highly plastic cells that can polarize into functionally distinct subsetsin vivoandin vitroin response to environmental signals. The development of protocols to model macrophage polarizationin vitrogreatly contributes to... more
Macrophages are highly plastic cells that can polarize into functionally distinct subsetsin vivoandin vitroin response to environmental signals. The development of protocols to model macrophage polarizationin vitrogreatly contributes to our understanding of macrophage biology. Macrophages are divided into two main groups: Pro-inflammatory M1 macrophages (classically activated) and anti-inflammatory M2 macrophages (alternatively activated), based on several key surface markers and the production of inflammatory mediators. However, the expression of these common macrophage polarization markers is greatly affected by the stimulation time used. Unfortunately, there is no consensus yet regarding the optimal stimulation times for particular macrophage polarization markers inin vitroexperiments. This situation is problematic, (i) as analysing a particular marker at a suboptimal time point can lead to false-negative results, and (ii) as it clearly impedes the comparison of different studies...
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BACKGROUND The aim of this study is to reveal the relationship between end-tidal CO2 (EtCO2) values with infarct volume and early prognosis in patients diagnosed with acute ischemic stroke in the emergency department. MATERIALS AND... more
BACKGROUND The aim of this study is to reveal the relationship between end-tidal CO2 (EtCO2) values with infarct volume and early prognosis in patients diagnosed with acute ischemic stroke in the emergency department. MATERIALS AND METHODS This prospective cross-sectional study was conducted in a tertiary hospital. The demographics, characteristics, EtCO2, volume of the stroke area on diffusion-weighted magnetic resonance imaging and the modified Rankin Scale (mRS) of the patients were recorded. The values calculated at admission and at discharge were labeled as "mRS-1" and "mRS-2", respectively, and the mRS-2 measurement was used as a prognostic indicator. The "good" and the "poor" functional outcomes were defined as mRS ≤2 and mRS >2, respectively. Correlations between levels of EtCO2 and infarct volume, mRS were calculated. RESULTS In total, 44 patients were included in the study. The median age of the patients was 69 years (interquartile range; 16; min-max: 35 to 88 y) and 68.2% of them were male. In the univariate logistic regression models of the mRS-2 [0 to 2 (0) and 3 to 6 (1)], all variables were not statistically significant to predict mRS-2 group. There were statistically significant differences in EtCO2 values between mRS-1 (P=0.03) and mRS-2 (P=0.04). A negative moderate correlation was found between EtCO2 and mRS-2 (r=-0.410; P=0.006). The correlation between EtCO2 and infarct volume was not statistically significant (r=-0.256; P=0.093). CONCLUSIONS This study highlights the importance of capnography follow-up of patients with acute ischemic stroke. In patients with acute ischemic stroke, the EtCO2 value measured at the time of admission is lower in the group with high mRS at both admission and discharge.
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OBJECTIVE The aim of this study was to compare antioxidant vitamin C and vitamin E levels in the non-acromegaly control group and in patients with acromegaly with and without remission. MATERIAL AND METHODS In this study, 100 cases,... more
OBJECTIVE The aim of this study was to compare antioxidant vitamin C and vitamin E levels in the non-acromegaly control group and in patients with acromegaly with and without remission. MATERIAL AND METHODS In this study, 100 cases, acromegaly patients of 57% (n=57, 29F, 28M, mean ages of 49.5±12.1) and control subjects of 43% (n=43, 29F, 14M, mean ages of 49.6±9.2). Acromegaly patients were classified into two groups; active acromegaly (AA; n=33) and controlled acromegaly (CA; n=24). RESULTS Vitamin C levels were significantly lower in the acromegaly group [7.6 (4.7) mg/L, as median (IQR)] when compared to the control group [12.2 (5.5) mg/L, as median (IQR)] (p <0.001). Vitamin E levels didn't show a significant difference between the acromegaly and the control groups (14.2±3.6 vs. 14.8±3.7, as mean±SD, respectively, p = 0.439). Correlation analysis showed that vitamin C levels were not significantly associated with clinical, anthropometric and laboratory parameters in the a...
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Correspondence analysis is a method making easy to interpret the categorical variables given in contingency tables, showing the similarities, associations as well as divergences among these variables via graphics on a lower dimensional... more
Correspondence analysis is a method making easy to interpret the categorical variables given in contingency tables, showing the similarities, associations as well as divergences among these variables via graphics on a lower dimensional space. Since it factors the data matrix into the rows and columns, and shows each of them with a separate graphics, it releases important information about the structure of the data. There are similarities between this analysis and some other multivariate methods including Principal Component Analysis, Log-Linear Models and Multidimensional Scaling. Having lots of categorical data in applied science, such as in medicine, biology and economy, makes the correspondence analysis very popular method. In this book, correspondence analysis will be applied to the epidemiological research data obtained from the study in which people who had any illnesses and were gathered for adults'' mental health research at Narlidere education and research area cond...
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Although latent tuberculosis infection (LTBI) treatment is given before anti-tumor necrosis factor (TNF) treatment, tuberculosis (TB) still develops in these patients and the risk factors are not well known. Besides, there is little data... more
Although latent tuberculosis infection (LTBI) treatment is given before anti-tumor necrosis factor (TNF) treatment, tuberculosis (TB) still develops in these patients and the risk factors are not well known. Besides, there is little data on the safety of isoniazid (INH) treatment in this group of patients. This study aimed to determine the risk factors for the development of tuberculosis and the safety of LTBI in such patients. All patients (n=665) given anti-TNF in a single center were included in this study. Complete data were obtained from the records of 389 patients. Seven patients (1.1%) were diagnosed with TB. There was no significant difference in age, gender, smoking rate, comorbidities, leukocyte counts, hemoglobin, creatinine, AST, ALT, protein levels, and tuberculin reaction between patients with and without TB. Of 389 patients, 289 (76%) had received INH prophylaxis, including 43 tuberculin-negative patients. Thirty patients had anti-TNF use prior to INH prophylaxis. None of these patients had TB in the follow-up period. Seven patients who developed TB had completed LTBI treatment, including one patient who was tuberculin-negative. The time from the completion of INH treatment to the diagnosis of TB was 6–61 months. None had any history of contact with TB during this period. INH treatment was associated with hepatotoxicity in 49 patients (17%); all resolved without any need to stop INH. Patients on anti-TNF treatment had a high rate of TB despite INH prophylaxis, but no risk factor for TB development was identified. Mild hepatotoxicity frequently developed during LTBI treatment. Key Points • Tuberculosis still develops in patients treated with tumor necrosis factor (TNF)–inhibitors despite prior screening and treatment for latent tuberculosis infection (LTBI). • In this cohort, all patients in whom tuberculosis developed had been treated for LTBI and all but one were initially tuberculin-positive. No risk factors have been identified. • The current policy of treating tuberculin-positive patients with a 9-month INH regimen does not seem to be fully effective in preventing tuberculosis. Key Points • Tuberculosis still develops in patients treated with tumor necrosis factor (TNF)–inhibitors despite prior screening and treatment for latent tuberculosis infection (LTBI). • In this cohort, all patients in whom tuberculosis developed had been treated for LTBI and all but one were initially tuberculin-positive. No risk factors have been identified. • The current policy of treating tuberculin-positive patients with a 9-month INH regimen does not seem to be fully effective in preventing tuberculosis.
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Objective We aimed to develop and evaluate a mobile learning (m-learning) design for large group application learning based on flipped classroom approach within an integrated curriculum of medical faculty. Materials and methods Totally... more
Objective We aimed to develop and evaluate a mobile learning (m-learning) design for large group application learning based on flipped classroom approach within an integrated curriculum of medical faculty. Materials and methods Totally 359 students enrolled in a two-credit course during the 2017–2018 academic year. An instructional design called 5-Lecture-5 (5L5) was implemented via mobile application. This design is a blend of m-learning and flipped classroom approaches, with pre-, during-, and post-lecture elements. Data were analysed using Chi-square, Mann–Whitney U, and Kruskal–Wallis tests. Open-ended questions and course observations were analysed thematically and reported together. Results Of the participating students, 26.96% who saw the first announcement examined pre-lecture materials and 55.43% attended face-to-face lecture. Achievement test scores of those who attended lecture were significantly higher (p = 0.027). Correct response rates for each question were 99.30, 72....
Research Interests: Mobile Learning, Mathematics Education, Blended And Mobile Learning, Blended Learning, Blended learning in higher education, and 6 moreCurriculum, Blended Learning and the Use of Information Technology in Education, Flipped Classroom, Flipped learning, Digital Media Learning, and Biochemistry and cell biology
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A number of specialized clustering methods have been developed so far for the accurate analysis of single-cell RNA-sequencing (scRNA-seq) expression data, and several reports have been published documenting the performance measures of... more
A number of specialized clustering methods have been developed so far for the accurate analysis of single-cell RNA-sequencing (scRNA-seq) expression data, and several reports have been published documenting the performance measures of these clustering methods under different conditions. However, to date, there are no available studies regarding the systematic evaluation of the performance measures of the clustering methods taking into consideration the sample size and cell composition of a given scRNA-seq dataset. Herein, a comprehensive performance evaluation study of 11 selected scRNA-seq clustering methods was performed using synthetic datasets with known sample sizes and number of subpopulations, as well as varying levels of transcriptome complexity. The results indicate that the overall performance of the clustering methods under study are highly dependent on the sample size and complexity of the scRNA-seq dataset. In most of the cases, better clustering performances were obtai...
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IntroductionThe aim of this study was to evaluate usage habits, attitudes and perceptions towards mobile learning (m-learning), as well as to identify variables related to those attitudes amongst undergraduate dental students.Materials... more
IntroductionThe aim of this study was to evaluate usage habits, attitudes and perceptions towards mobile learning (m-learning), as well as to identify variables related to those attitudes amongst undergraduate dental students.Materials and MethodsThe study consists of 81 dental undergraduate students who who volunteered to participate. The data collection tool consists of an m-learning attitude scale, a questionnaire, and open-ended questions. To compare the total scores and factors of m-learning attitude scale for demographic information and mobile technology usage habits of the students; the Mann–WhitneyUtest was used for two independent groups such as gender, presence of electronic devices, and places of Internet usage. The Kruskal–Wallis test was also used to compare the total scores and factors of m-learning attitude scale for more than two independent groups including internet usage purposes and opinions. Spearman’s correlation coefficient was performed, and linear regression ...
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Background: Mosquitoes, being a nuisance species, are considered as one of the most important species in public health control programs due to their role as a vector in mosquito-borne diseases observed in humans and animals. We evaluated... more
Background: Mosquitoes, being a nuisance species, are considered as one of the most important species in public health control programs due to their role as a vector in mosquito-borne diseases observed in humans and animals. We evaluated the susceptibility status of Culex pipiens collected from northern Izmir, Turkey in 2011–16. Methods: Mosquito larvae, collected from three different locations in northern İzmir, were reared in the laboratory. Adult susceptibility bioassays were performed using the WHO insecticide-impregnated papers including deltamethrin 0.05%, permethrin 0.75%, α-cypermethrin 0.05% and cyfluthrin 0.15%. In addition, adult bioassays were performed after the pre-exposure to piperonyl butoxide (PBO) to determine the contribution of P450 detoxification enzymes to the phenotypic resistance. Results: In all of the three populations, high levels of resistance were observed (mortalities<63%) to all of the four pyrethroids. Different pyrethroids but with the same mode o...
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Amaç: Bu çalışmada Moodle ile internet destekli biyoistatistik e itimi alan ö rencilerin e-ö renme süreçlerine ilişkin hazır bulunuşluk durumlarının, düşüncelerinin ve memnuniyetlerinin de erlendirilmesi amaçlanmıştır.Gereç ve Yöntem:... more
Amaç: Bu çalışmada Moodle ile internet destekli biyoistatistik e itimi alan ö rencilerin e-ö renme süreçlerine ilişkin hazır bulunuşluk durumlarının, düşüncelerinin ve memnuniyetlerinin de erlendirilmesi amaçlanmıştır.Gereç ve Yöntem: 2015-2016 ile 2016-2017 e itim ve ö retim yıllarında anabilim dalımızda Moodle ortamındaki lisans ve yüksek lisans derslerini alan 19 ö renci çalışmaya alındı. Ö rencilerin kişisel bilgilerinin elde edilmesi ve sistemin de erlendirilmesi amacıyla 10 soruluk anket formu; beşli likert tipinde hazırlandı, geçerlili i ve güvenilirli i önceden çalışılmış 26 soruluk e-ö renme sürecine ilişkin hazır bulunuşluk ve beklenti ölçe i (HBBÖ) ile 29 soruluk e-ö renme sürecine ilişkin memnuniyet ölçe i (MÖ) kullanıldı. Ölçeklerin Cronbach Alfa de erleri hesaplandı, her bir faktörün ham puanları, standart puanlara dönüştürüldü. Puanların normallik varsayımının incelenmesinde Shapiro-Wilk testi, grup puanları arasındaki farklılı ın de erlendirilmesinde Mann-Whitney U t...
Research Interests: Psychology and Humanities
Acute bronchiolitis might be associated with morbidity and mortality in infants. The aim of this study was to evaluate the role of mean platelet volume (MPV) in the prediction of acute bronchiolitis. One hundred and eighty-four of these... more
Acute bronchiolitis might be associated with morbidity and mortality in infants. The aim of this study was to evaluate the role of mean platelet volume (MPV) in the prediction of acute bronchiolitis. One hundred and eighty-four of these infants were diagnosed with acute bronchiolitis and 100 were healthy children. The ability of MPV, C-reactive protein (CRP), white blood cell (WBC) count, and lymphocyte values to predict all bronchiolitis groups and the control group was examined by receiver operating characteristic (ROC) curve and their respective areas under the curves (AUC) with 95% confidence intervals. Patients with acute bronchiolitis had higher MPVs than their healthy counterparts (P < 0.001). However, there was no difference statistically significant in MPVs among all bronchiolitis groups (P = 0.239). ROC curve analysis suggested that MPV level cut-off point for making the prediction of acute bronchiolitis was 6.0 fL, with a sensitivity and specificity of 90% and 28%, res...
Research Interests: Immunology, Biostatistics, Inflammation, Medicine, Internal Medicine, and 12 moreC reactive protein, Receiver Operating Characteristics (ROC) curve, Bronchiolitis, Lymphocytes, Area Under the Curve, White Blood Cell, Receiver Operating Characteristic, Predictive value of tests, Confidence Interval, Mean platelet volume, acute bronchiolitis, and Cardiovascular medicine and haematology
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Research Interests: Engineering, Emergency Medicine, Orthopedic Surgery, Medicine, Prospective studies, and 15 moreHumans, Female, Male, Emergency, Model Based Clinical Decision Support Systems, Clinical Sciences, Radiography, Adult, Physical examination, Sensitivity and Specificity, Cross Sectional Studies, Receiver Operating Characteristic, Wrist, Emergency Department, and Ecchymosis
Hand hygiene is one of the most effective attempts to control nosocomial infections, and it is an important measure to avoid the transmission of pathogens. However, the compliance of healthcare workers (HCWs) with hand washing is still... more
Hand hygiene is one of the most effective attempts to control nosocomial infections, and it is an important measure to avoid the transmission of pathogens. However, the compliance of healthcare workers (HCWs) with hand washing is still poor worldwide. Herein, we aimed to determine the best hand hygiene preference of the infectious diseases and clinical microbiology (IDCM) specialists to prevent transmission of microorganisms from one patient to another. Expert opinions regarding the criteria that influence the best hand hygiene preference were collected through a questionnaire via face-to-face interviews. Afterwards, these opinions were examined with two widely used multi-criteria decision analysis (MCDA) methods, the Multi-Attribute Utility Theory (MAUT) and the Analytic Hierarchy Process (AHP). A total of 15 IDCM specialist opinions were collected from diverse private and public hospitals located in İzmir, Turkey. The mean age of the participants was 49.73 ± 8.46, and the mean exp...
Research Interests: Computer Science, Decision Making, Biostatistics, Healthcare workers, Analytic Hierarchy Process, and 15 moreHand Hygiene, Clinical Microbiology, Humans, Female, Clinical microbiology and infection control, Geomatic Engineering, Handwashing and Hygiene interventions, Hygiene, Clinical Sciences, Adult, Healthcare Associated Infections, Hand Sanitizers, Alcohols, Decision Support Techniques, and Cross Infection
Leishmaniasis, visceral and cutaneous, is seen in Turkey and has both public and veterinary importance. So far, four Leishmania species and their vectors have been detected in Turkey. Vector control is essential in endemic areas and... more
Leishmaniasis, visceral and cutaneous, is seen in Turkey and has both public and veterinary importance. So far, four Leishmania species and their vectors have been detected in Turkey. Vector control is essential in endemic areas and several personal protection methods are available including long-lasting insecticidal nets (LLINs). In this study, we aimed to measure the effects of usage and storage conditions on LLINs in a village-scale study. Olyset(®) Plus bed nets were set up in different climatic conditions (rain, exposed to sunlight and humidity) and collected after 6 months. The effectiveness of bed nets were tested by WHO&amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;amp;#39;s cone test method using wild-caught sand flies. Bed nets, which were placed directly exposed to sunlight (A1, A2) showed lower (17.2%) knock down effect compared to bed nets placed indoors (A3, B1). Twenty-four hour mortality was 100% for the five study groups (A2, A3, B1, C1, C2) whereas group A1 was found to have a lower mortality rate (44.4%). Bed nets need to avoid direct exposure to sunlight. When used and stored in appropriate conditions (cool, well-ventilated place away from sunlight) they can be used as an effective vector control tool in endemic areas.
Research Interests: Microbiology, Parasitology, Biostatistics, Medical Microbiology, Biology, and 15 moreMedicine, Insecticides, Leishmaniasis, Humans, Darkness, Animals, Relative Humidity, Public health systems and services research, Psychodidae, Biological Assay, Sand Flies, Sandfly, Insect Vectors, Environmental effects, and Insect Control
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Research Interests: Engineering, Computer Science, Algorithms, Decision Making, Judgment and decision making, and 15 moreDecision Support Systems, Decision Analysis, Multi Criteria Decision Making, Analytic Hierarchy Process, Medicine, Colorectal cancer, Decision support system, Clinical Decision Making, Decision Trees, Humans, Artificial Intelligence in Medicine, Decision Tree, Multimodal imaging, Perforation, and Decision Support Techniques
Uygunluk Analizi (Correspondence Analysis), kategorik değişkenlerin yorumlanmasını kolaylaştıran, çapraz tablolarda (uyum tablosu, olumsallık tablosu, kontenjans tablosu, crosstable, correspondence table) satır ve sütun değişkenleri... more
Uygunluk Analizi (Correspondence Analysis), kategorik değişkenlerin yorumlanmasını kolaylaştıran, çapraz tablolarda (uyum tablosu, olumsallık tablosu, kontenjans tablosu, crosstable, correspondence table) satır ve sütun değişkenleri arasındaki benzerlik, ...
Research Interests:
The transcription factor p73 is a member of the p53 tumor suppressor gene family and one of the key regulators of apoptosis. TP73 gene encodes two protein isoforms classes with diverse functions, TAp73 and DNp73, and TAp73 expression in... more
The transcription factor p73 is a member of the p53 tumor suppressor gene family and one of the key regulators of apoptosis. TP73 gene encodes two protein isoforms classes with diverse functions, TAp73 and DNp73, and TAp73 expression in tumor tissues is altered. Unlike the TP53 gene, TP73 is not mutated in cancers. Here, we sought to explore the expression of p73 isoforms across eight major cancer types using the publicly available data deposited at the GDC data portal and the TSVdb database. Our results showed that TAp73α is overexpressed in breast invasive carcinoma, stomach adenocarcinoma, lung squamous cell carcinoma, colon adenocarcinoma, and esophageal carcinoma tumors, whereas the expression of DNp73 isoforms is downregulated in breast invasive carcinoma (DNp73α,β,γ), Prostate Adenocarcinoma (DNp73β), Lung Adenocarcinoma (DNp73α), Lung Squamous Cell Carcinoma (DNp73α) tumors. In summary, this study revealed that TAp73α has higher expression than the DNp73 isoforms in several cancer types.
Research Interests:
VCF file containing filtered mutated sites in SARS-CoV-2 genomes obtained from GISAID EpiCoV, separated by individual mutations. The columns correspond to viral genome accession ID, nucleotide position in the genome, mutation ID (left... more
VCF file containing filtered mutated sites in SARS-CoV-2 genomes obtained from GISAID EpiCoV, separated by individual mutations. The columns correspond to viral genome accession ID, nucleotide position in the genome, mutation ID (left blank in all rows), reference nucleotide, identified mutation, quality, filter, and information columns (all left blank), format (GT in all rows), column corresponding to reference genome (all 0, referring to reference nucleotide column), and columns corresponding to isolate genomes, with each row identifying the nucleotide in the POS column, and whether it is non-mutant (0), or the mutant indicated in the identified mutation column (1). The file is tab delimited, with 22546 rows including the names, and 30690 columns. The file was generated to test the hypothesis whether the five most common mutations in the SARS-CoV-2 genome replication complex proteins, nsps 7, 8, 12, and 14, significantly affect the mutation density of the virus over time and whether these affect the synonymous and nonsynonymous mutation densities differently. We discovered that mutations in nsp14, an exonuclease with error correcting capabilities, are most likely to be correlated with increased mutational load across the genome compared to wildtype SARS-CoV-2. These results were obtained by identifying the frequency of mutations across all isolates in genomic regions of interest, analyzing which of the twenty mutations (five per nsp) have a statistically meaningful relationship with the mutation density in the M and E genes (chosen due to being under little selective pressure), and identifying the synonymous and nonsynonymous genomic SNV density for isolates with any of the statistically meaningful mutations, as well as isolates with none of the identified mutations.
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1. Giriş Tiroid kanseri, en sık görülen endokrin bez kanseri olmakla beraber tüm kanserler içinde küçük bir bölümü oluşturmaktadır. Son 20 yılda dünyada pek çok ülkede insidansta dikkati çeken bir artış olduğu, ancak mortalitenin artış... more
1. Giriş
Tiroid kanseri, en sık görülen endokrin bez kanseri olmakla beraber tüm kanserler içinde küçük bir
bölümü oluşturmaktadır. Son 20 yılda dünyada pek çok ülkede insidansta dikkati çeken bir artış olduğu,
ancak mortalitenin artış göstermediği ve sağkalımın da giderek artma eğiliminde olduğu
bildirilmektedir.
Bu çalışmada, Ege Üniversitesi Hastane Tabanlı Kanser Kayıt sisteminde, baş boyun tümörleri grubunda
yer alan tiroid kanseri hastalarının cinsiyet, yaş, evre ve tanı tarihlerinin yıllara göre değişimlerinin
incelenmesi amaçlanmıştır.
2. Yöntem
1992-2012 yılları arasında Ege Üniversitesi Tıp Fakültesi hastanesine başvuran 5117 olguya ilişkin
cinsiyet, yaş, evre ve tanı tarihi gibi değişkenler incelenmiştir. Tüm veriler için frekans tabloları
oluşturulmuştur. Değişkenlerin birbiri ile ilişkilerinin incelenmesinde çapraz tablolardan yararlanılarak
ki-kare istatistikleri hesaplanmıştır. Genelleştirilmiş Doğrusal Model (GLM) yöntemi ile cinsiyet ve
evrenin yıllara göre dağılımının anlamlılığı değerlendirilmiştir. Daha sonra tanı evreleri, yaşlar ve tanı
tarihleri yeniden gruplanarak, değişken arasındaki ilişkiler çoklu uygunluk analizi (multiple
correspondence analysis) ile incelenmiştir (1-6). İstatistiksel analizlerde Minitab 16 demo (Minitab Inc.,
State College, PA) kullanılmıştır (7).
3. Sonuçlar
Tiroid kanserleri, Ege Üniversitesi Hastane Tabanlı Kanser Kayıt sisteminde baş boyun tümörleri
grubunda, %48,1 (n=5117) oranı ile en sık görülen malignitedir. Kadınlarda %78,3 (4101 olgu) oranıyla
ilk sırada yer alırken erkeklerde larinks kanserinden sonra %18,8 (1016 olgu) ile ikinci sırada yer
almaktadır. Kadınlarda tiroid kanseri sıklığı erkeklere göre 4 kat fazla bulunmuştur.
Tiroid kanserlerinin yaş gruplarının cinsiyetlere dağılımı incelendiğinde, kadınlarda en yüksek oranda
40-49 yaş grubunda, ikinci sıklıkta 30-39 yaş grubunda görülürken; erkeklerde en sık 50-59 yaş
grubunda, ikinci sırada 40-49 yaş grubunda görüldüğü saptanmıştır. Kadınlarda erkeklere göre daha
erken yaşta görüldüğü istatistiksel anlamlı olarak bulunmuştur (Kikare:83,121; p<0,0001). Tiroid
kanseri evrelere dağılımı incelendiğinde %66,4 ile lokalize tümör evresi en yüksek orandadır. Evrelerin
cinsiyete göre dağılımı incelendiğinde erkeklerde %55,1 ve kadınlara %69,2 oranlarında lokalize tümör
tanısı saptanmıştır. Kadınlarda %13,2 ve erkeklerde %17,8 oranı ile lokal ileri evre ikinci sırada yer
almaktadır. Oranlar arası fark istatistiksel olarak anlamlı bulunmuştur (Kikare: 96,200; p<0,0001).
Çoklu uygun analizi uygulamadan önce tanı evreleri, yaşlar ve tanı tarihleri analiz için yeniden
gruplanarak, veriler özetlenmiştir. Yeni düzenlemede olguların %80,6’sı (4122 olgu) lokalize tümör
evresinde, %19,4’ü (995 olgu) metastaz-bilinmiyor grubunda yer almaktadır. Olguların yaşları
genellikle %49,5 (2533 olgu) oranıyla 40-59 yaş grubunda, %31,6 (1619 olgu) oranıyla da 20-39 yaş
grubundadır. Olguların sadece %2,8’i (144 olgu) 20 yaş altındadır. Tanı tarihleri açısından
değerlendirildiğinde, olguların %45.8’inin (2345 olgu) 2006-2010 yılları arasında tanı aldığı görülmüştür. Tiroid tümörlerinin yıllara ve cinsiyet göre değişimleri incelendiğinde özellikle 2002
yılından 2012 yılına kadar olan 10 yıllık dönemde her iki cinsiyette doğrusal artış olduğu saptanmıştır
(GLM: p<0,0001). Tiroid kanseri olgularının yıllara göre evrelere dağılımı incelendiğinde, lokalize tümör
evresinin yıllara göre anlamlı artış gösterdiği, evresi bilinmeyen grubu ve uzak yayılım grubunun ise
azalma eğiliminde olduğu bulunmuştur (GLM: F=141,942; p<0,0001). Cinsiyete göre tiroid kanseri
dağılımı incelendiğinde; evre (p<0,0001), yaş grubu (p<0,0001) ve tanı tarihi (p=0,015) açısından
istatistiksel olarak anlamlı farklılık saptanmıştır. Tiroid kanserinin yaş gruplarına göre evre (p<0,0001)
ve tanı tarihi (p=0,002) açısından istatistiksel olarak anlamlı derecede farklı olduğu görülmüştür.
Ayrıca, tanı tarihi açısından evrelerin istatistiksel olarak anlamlı bir farklılık gösterdiği
söylenebilmektedir (p<0,0001).
Çoklu uygunluk analizi grafiği sonuçlarına göre, değişken kategorilerinin gruplara ayrıldığı, erkeklerin
genellikle 20-59 yaş aralığında, 2006-2010 yılları arasında tanı alan lokal tümör evresinde olduğu
söylenebilmektedir. Kadın troid kanseri hastalarının ise çoğunlukla 60 yaş üstünde olduğu; metastaz ve
bilinmeyen tümör evresindekilerin ise genellikle 2000 yılından önce tiroid kanseri tanısı aldığı
belirlenmiştir. Ayrıca, 2001-2005 yılları arasında tiroid kanseri tanısı alanların 20 yaş altında olduğu
görülmüştür.
4. Tartışma
Tiroid kanserine ilişkin 10 yıllık olgulara ilişkin cinsiyet, yaş, evre ve tanı yılı gibi değişkenler
incelendiğinde, kadınlarda erkeklere oranla daha sık görülen tiroid kanserinin, tarama yöntemleri
kullanılarak erken tanı ile genç yaşlarda tespit edilebileceği söylenebilmektedir. Son yıllarda tiroid
kanseri tanısı alanların erken evredeki hastalar olduğu; metastaz ve bilinmeyen tümör evresindekilerin
uzun yıllardır tiroid kanseri hastası olduğu belirlenmiştir.
Tiroid kanseri, en sık görülen endokrin bez kanseri olmakla beraber tüm kanserler içinde küçük bir
bölümü oluşturmaktadır. Son 20 yılda dünyada pek çok ülkede insidansta dikkati çeken bir artış olduğu,
ancak mortalitenin artış göstermediği ve sağkalımın da giderek artma eğiliminde olduğu
bildirilmektedir.
Bu çalışmada, Ege Üniversitesi Hastane Tabanlı Kanser Kayıt sisteminde, baş boyun tümörleri grubunda
yer alan tiroid kanseri hastalarının cinsiyet, yaş, evre ve tanı tarihlerinin yıllara göre değişimlerinin
incelenmesi amaçlanmıştır.
2. Yöntem
1992-2012 yılları arasında Ege Üniversitesi Tıp Fakültesi hastanesine başvuran 5117 olguya ilişkin
cinsiyet, yaş, evre ve tanı tarihi gibi değişkenler incelenmiştir. Tüm veriler için frekans tabloları
oluşturulmuştur. Değişkenlerin birbiri ile ilişkilerinin incelenmesinde çapraz tablolardan yararlanılarak
ki-kare istatistikleri hesaplanmıştır. Genelleştirilmiş Doğrusal Model (GLM) yöntemi ile cinsiyet ve
evrenin yıllara göre dağılımının anlamlılığı değerlendirilmiştir. Daha sonra tanı evreleri, yaşlar ve tanı
tarihleri yeniden gruplanarak, değişken arasındaki ilişkiler çoklu uygunluk analizi (multiple
correspondence analysis) ile incelenmiştir (1-6). İstatistiksel analizlerde Minitab 16 demo (Minitab Inc.,
State College, PA) kullanılmıştır (7).
3. Sonuçlar
Tiroid kanserleri, Ege Üniversitesi Hastane Tabanlı Kanser Kayıt sisteminde baş boyun tümörleri
grubunda, %48,1 (n=5117) oranı ile en sık görülen malignitedir. Kadınlarda %78,3 (4101 olgu) oranıyla
ilk sırada yer alırken erkeklerde larinks kanserinden sonra %18,8 (1016 olgu) ile ikinci sırada yer
almaktadır. Kadınlarda tiroid kanseri sıklığı erkeklere göre 4 kat fazla bulunmuştur.
Tiroid kanserlerinin yaş gruplarının cinsiyetlere dağılımı incelendiğinde, kadınlarda en yüksek oranda
40-49 yaş grubunda, ikinci sıklıkta 30-39 yaş grubunda görülürken; erkeklerde en sık 50-59 yaş
grubunda, ikinci sırada 40-49 yaş grubunda görüldüğü saptanmıştır. Kadınlarda erkeklere göre daha
erken yaşta görüldüğü istatistiksel anlamlı olarak bulunmuştur (Kikare:83,121; p<0,0001). Tiroid
kanseri evrelere dağılımı incelendiğinde %66,4 ile lokalize tümör evresi en yüksek orandadır. Evrelerin
cinsiyete göre dağılımı incelendiğinde erkeklerde %55,1 ve kadınlara %69,2 oranlarında lokalize tümör
tanısı saptanmıştır. Kadınlarda %13,2 ve erkeklerde %17,8 oranı ile lokal ileri evre ikinci sırada yer
almaktadır. Oranlar arası fark istatistiksel olarak anlamlı bulunmuştur (Kikare: 96,200; p<0,0001).
Çoklu uygun analizi uygulamadan önce tanı evreleri, yaşlar ve tanı tarihleri analiz için yeniden
gruplanarak, veriler özetlenmiştir. Yeni düzenlemede olguların %80,6’sı (4122 olgu) lokalize tümör
evresinde, %19,4’ü (995 olgu) metastaz-bilinmiyor grubunda yer almaktadır. Olguların yaşları
genellikle %49,5 (2533 olgu) oranıyla 40-59 yaş grubunda, %31,6 (1619 olgu) oranıyla da 20-39 yaş
grubundadır. Olguların sadece %2,8’i (144 olgu) 20 yaş altındadır. Tanı tarihleri açısından
değerlendirildiğinde, olguların %45.8’inin (2345 olgu) 2006-2010 yılları arasında tanı aldığı görülmüştür. Tiroid tümörlerinin yıllara ve cinsiyet göre değişimleri incelendiğinde özellikle 2002
yılından 2012 yılına kadar olan 10 yıllık dönemde her iki cinsiyette doğrusal artış olduğu saptanmıştır
(GLM: p<0,0001). Tiroid kanseri olgularının yıllara göre evrelere dağılımı incelendiğinde, lokalize tümör
evresinin yıllara göre anlamlı artış gösterdiği, evresi bilinmeyen grubu ve uzak yayılım grubunun ise
azalma eğiliminde olduğu bulunmuştur (GLM: F=141,942; p<0,0001). Cinsiyete göre tiroid kanseri
dağılımı incelendiğinde; evre (p<0,0001), yaş grubu (p<0,0001) ve tanı tarihi (p=0,015) açısından
istatistiksel olarak anlamlı farklılık saptanmıştır. Tiroid kanserinin yaş gruplarına göre evre (p<0,0001)
ve tanı tarihi (p=0,002) açısından istatistiksel olarak anlamlı derecede farklı olduğu görülmüştür.
Ayrıca, tanı tarihi açısından evrelerin istatistiksel olarak anlamlı bir farklılık gösterdiği
söylenebilmektedir (p<0,0001).
Çoklu uygunluk analizi grafiği sonuçlarına göre, değişken kategorilerinin gruplara ayrıldığı, erkeklerin
genellikle 20-59 yaş aralığında, 2006-2010 yılları arasında tanı alan lokal tümör evresinde olduğu
söylenebilmektedir. Kadın troid kanseri hastalarının ise çoğunlukla 60 yaş üstünde olduğu; metastaz ve
bilinmeyen tümör evresindekilerin ise genellikle 2000 yılından önce tiroid kanseri tanısı aldığı
belirlenmiştir. Ayrıca, 2001-2005 yılları arasında tiroid kanseri tanısı alanların 20 yaş altında olduğu
görülmüştür.
4. Tartışma
Tiroid kanserine ilişkin 10 yıllık olgulara ilişkin cinsiyet, yaş, evre ve tanı yılı gibi değişkenler
incelendiğinde, kadınlarda erkeklere oranla daha sık görülen tiroid kanserinin, tarama yöntemleri
kullanılarak erken tanı ile genç yaşlarda tespit edilebileceği söylenebilmektedir. Son yıllarda tiroid
kanseri tanısı alanların erken evredeki hastalar olduğu; metastaz ve bilinmeyen tümör evresindekilerin
uzun yıllardır tiroid kanseri hastası olduğu belirlenmiştir.
Research Interests:
Introduction Hashimoto’s thyroiditis (HT), also known as chronic lymphocytic thyroiditis, is an organ-specific autoimmune disease characterized by the presence of goitre, lymphocytic infiltration and serum thyroid autoantibodies. HT is... more
Introduction
Hashimoto’s thyroiditis (HT), also known as chronic lymphocytic thyroiditis, is an organ-specific autoimmune disease characterized by the presence of goitre, lymphocytic infiltration and serum thyroid autoantibodies. HT is a complex disease caused by overt autoimmune response, multiple gene susceptibility and environmental factors. Leptin is involved in pathogenesis of several autoimmune diseases. Leptin can modulate T cell function. Accumulating evidence suggests that leptin acts as a proinflammatory cytokine in immune responses, which is involved in the pathogenesis of various autoimmune diseases. In this study, we investigated leptin levels in premenouposal women with Hashimato’s thyroiditis.
Material and Method
We enrolled 80 premenopousal women with BMI level of 20-25 kg/m2. Out of 40 were patients with HT. They had AntiTg and/or AntiTPO positivity called as antibody positive group. Control group was antibody negative one without HT. All patients were euthyroid and had normal BMI values. They had regular menstrual periods and were not taking oral contraceptive pills. Groups were age, sex and BMI matched.
Results
Mean level of leptin in antibody positive group was 8.50±3.79 ng/ml and was 8.80±4.49 ng/ml in antibody negative group (p=0.81). When correlation analysis was performed, there were no correlation of leptin with antiTg (p=0.36) and with antiTPO (p=0.81). No correlation was observed between leptin and TSH level (p=0.76).
Conclusion
There was no significant difference in leptin levels between HT and control group. It is suggested that leptin can take a role in immune responses. But in this study, there were no correlation between leptin and antiTPO levels. So, further investigations are needed to elucidate the role of leptin in HT.
Hashimoto’s thyroiditis (HT), also known as chronic lymphocytic thyroiditis, is an organ-specific autoimmune disease characterized by the presence of goitre, lymphocytic infiltration and serum thyroid autoantibodies. HT is a complex disease caused by overt autoimmune response, multiple gene susceptibility and environmental factors. Leptin is involved in pathogenesis of several autoimmune diseases. Leptin can modulate T cell function. Accumulating evidence suggests that leptin acts as a proinflammatory cytokine in immune responses, which is involved in the pathogenesis of various autoimmune diseases. In this study, we investigated leptin levels in premenouposal women with Hashimato’s thyroiditis.
Material and Method
We enrolled 80 premenopousal women with BMI level of 20-25 kg/m2. Out of 40 were patients with HT. They had AntiTg and/or AntiTPO positivity called as antibody positive group. Control group was antibody negative one without HT. All patients were euthyroid and had normal BMI values. They had regular menstrual periods and were not taking oral contraceptive pills. Groups were age, sex and BMI matched.
Results
Mean level of leptin in antibody positive group was 8.50±3.79 ng/ml and was 8.80±4.49 ng/ml in antibody negative group (p=0.81). When correlation analysis was performed, there were no correlation of leptin with antiTg (p=0.36) and with antiTPO (p=0.81). No correlation was observed between leptin and TSH level (p=0.76).
Conclusion
There was no significant difference in leptin levels between HT and control group. It is suggested that leptin can take a role in immune responses. But in this study, there were no correlation between leptin and antiTPO levels. So, further investigations are needed to elucidate the role of leptin in HT.
Research Interests:
The lack of laboratory tests for the diagnosis of most of the congenital anomalies renders the physical examination of the case crucial for the diagnosis of the anomaly; and the cases in the diagnostic phase are mostly being evaluated... more
The lack of laboratory tests for the diagnosis of most of the congenital
anomalies renders the physical examination of the case crucial for the diagnosis of the anomaly; and the cases in the diagnostic phase are mostly being evaluated in the light of the literature knowledge. In this respect, for accurate diagnosis, ,it is of great importance to provide the decision maker with decision support by presenting the literature knowledge about a particular case. Here, we demonstrated a methodology for automated scanning and determining of the phenotypic features from the case reports related to congenital anomalies in the literature with text and natural language processing methods, and we created a framework of an information source for a potential diagnostic decision support system for congenital anomalies.
anomalies renders the physical examination of the case crucial for the diagnosis of the anomaly; and the cases in the diagnostic phase are mostly being evaluated in the light of the literature knowledge. In this respect, for accurate diagnosis, ,it is of great importance to provide the decision maker with decision support by presenting the literature knowledge about a particular case. Here, we demonstrated a methodology for automated scanning and determining of the phenotypic features from the case reports related to congenital anomalies in the literature with text and natural language processing methods, and we created a framework of an information source for a potential diagnostic decision support system for congenital anomalies.
Research Interests:
Statistical hypothesis testing is an essential component of biological and medical studies for making inferences and estimations from the collected data in the study; however, the misuse of statistical tests is widely common. In order to... more
Statistical hypothesis testing is an essential component of biological and medical studies for making inferences and estimations from the collected data in the study; however, the misuse of statistical tests is widely common. In order to prevent possible errors in convenient statistical test selection, it is currently
possible to consult available test selection algorithms developed for various purposes. However, the lack of an algorithm presenting the most common statistical tests used in biomedical research in a single flowchart causes several problems such as shifting users among the algorithms, poor decision support in test selection and lack of satisfaction of potential users. Herein, we demonstrated a unified flowchart; covers mostly used statistical tests in biomedical domain, to provide decision aid to non-statistician users while choosing the appropriate statistical test for testing their hypothesis. We also discuss some of the findings while we are integrating the flowcharts into each other to develop a single but more comprehensive decision algorithm.
possible to consult available test selection algorithms developed for various purposes. However, the lack of an algorithm presenting the most common statistical tests used in biomedical research in a single flowchart causes several problems such as shifting users among the algorithms, poor decision support in test selection and lack of satisfaction of potential users. Herein, we demonstrated a unified flowchart; covers mostly used statistical tests in biomedical domain, to provide decision aid to non-statistician users while choosing the appropriate statistical test for testing their hypothesis. We also discuss some of the findings while we are integrating the flowcharts into each other to develop a single but more comprehensive decision algorithm.
Research Interests:
Obezite prevalansı gittikçe artan önemli bir sağlık sorunu haline gelmiştir. Obezite için uygulanan tedavilerden; diyet, fiziksel aktivite, davranış terapisi ve kilo verdirici ilaçlar kilo verdirme açısından çok güçlü olmadığı gibi... more
Obezite prevalansı gittikçe artan önemli bir sağlık
sorunu haline gelmiştir. Obezite için uygulanan tedavilerden;
diyet, fiziksel aktivite, davranış terapisi ve kilo verdirici
ilaçlar kilo verdirme açısından çok güçlü olmadığı
gibi uzun dönem sürdürülebilir etkileri zayıf kalmaktadır.
Obezite cerrahisi anlamlı ve kalıcı kilo verilmesini sağlamaktadır.
Cerrahi tedavinin başarısının altında yatan olası
mekanizmalar; gastrik volümün azalması, malabsorpsi21
- 25 Mayıs 2014 / Cornelia Diamond Hotel / Antalya 143
SÖZEL BİLDİRİLER
yon, sindirim sistemi hormonlarındaki değişiklik sonucu
açlık ve iştah hissindeki değişikliklerdir. Ege Üniversitesi
Hastanesi’nde bariatrik cerrahi yapılmış hastalarımızın
preoperatif ve postoperatif 1. ve 3. ay metabolik verilerini
sunuyoruz.
Materyal -Metod : Obezite konseyimizde bariatrik cerrahi
kararı alınmış toplam 47 hastaya (n=39 K, n=8 E) bariatrik
cerrahi kararı alındı. Sleeve gastrektomi (SG) ve
gastrik bypass (GB) olmak üzere iki farklı cerrahi uygulandı.
Bu hastalar cerrahi sonrasında kilo ve metabolik
parametrelerin değişimini değerlendirmek üzere 1. ve 3.
ay takiplere çağrıldı. Hastaların preoperatif ve postoperatif
1. ve 3. ay kilo, VKİ, APG, HbA1c, bazal insülin, lipid profili,
karaciğer fonksiyon testleri, vitamin B12, vitamin D düzeyleri,
Hb, demir parametreleri, tiroid fonksiyon testleri
ölçüldü. Hastaların kilo değişimi uygulanan cerrahi tipine
göre de karşılaştırıldı.
Bulgular : Toplam 47 hastanın 20’sine gastrik by-pass
(%43), 27’sine (%57) sleeve gastrektomi uygulandı. Hastalarımızın
ortalama yaşı 37±9.5 idi (19-59 y). Cerrahi uygulanan
hastalarımızın %17’si erkek, %83’ü kadındı. Toplam
47 hastadan verisine ulaşılabilen 31 hastanın kilo verilerinin
analizinde preop ortalama kilo değeri 125.4±15.9 kg
iken postop 1. ay ortalama kilosu 112.7±13.2 kg (p<0.001),
3. ay postop ortalama kilosu 100.9±17.5 kg (p<0.001) olarak
tespit edildi. Toplam 47 hastadan verisine ulaşılabilen 23
hastanın analizinde preop APG değeri ortalama 102.5±19.2
mg /dL, postop 1.ay APG 91.6±10.9mg/dL (p=0.03), postop
3 ay APG 87.3±2.0 mg/dL idi. Hastalarımızdan 39 tanesine
OGTT yapıldı. OGTT sonuçlarına göre; %82.1’inde normal
glukoz toleransı, %12.8’inde bozulmuş glukoz toleransı,
%5.1’inde DM saptandı. Hastalarımızın preoperatif ve postop
1. ve 3.ay kilo ve metabolik değerleri Tablo 1’de sunulmuştur.
GB operasyonu olan grupta 1.ayda ortalama
12.4±5.5 kg, 3. ayda (preoperatif dönem kilosuna göre) ortalama
22.2±8.6 kg kilo değişimi gözlendi. SG olan hastalarımızda
kilo değişimi postop 1. ay için 13.7 ±4.5 kg iken 3.
ayda 23.4±5.8 kg olarak tespit edildi Cerrahi tipine göre 1.
ve 3. ay kilo değişimleri arasında anlamlı fark bulunmadı.
Sonuç : Bariatrik cerrahi sonrası yakın dönemde anlamlı
kilo değişikliği olmaktadır. Açlık plazma glukozunda da
anlamlı düşüş gözlenmiştir. Hastalarımızda cerrahi şekline
göre kilo değişiminde anlamlı farklılık görülmemiştir.
Bariatrik cerrahi hastalarının kilo ve metabolik verileri
açısından yakın ve uzun süreli takibi gerekmektedir.
Tablo 1. Bariatrik cerrahi uygulanan hastalarımızın (n=47)
preop ve postop metabolik verileri
Preop Postop 1. ay Postop 3. ay
Kilo(kg) 127.5±15.9 114.3±13.6 100.9±17.5
APG(mg/dL) 100.4±19.4 91.1±11.2 88.3±9.5
Bazal
insülin(mIU/
mL)
22.6±10.4 13.6±10.7 12.8±5.0
ALT(U/L) 25.0±14.6 36.7±31.5 19.3±8.0
LDL (mg/dL) 118.9±29.3 99.8±18.6 110.7±23.7
HDL (mg/dL) 48.5±13.6 40.0±8.7 44.2±15.7
TG (mg/dL) 123.1±54.9 114.0±47.9 118.9±49.2
Hb (g/dL) 13.1±1.2 13.0±1.2 13.0±1.5
Demir
(mikrog/dL)
60.3±36.2 55.2±19.5 67.4±28.3
Ferritin(ng/
mL)
43.8±40.3 66.2±48.9 43.7±43.0
B12(pg/mL) 328.2±143.0 461.2±278.7 345.3±211.3
sT4(ng/dL) 1.17±0.16 1.82±2.63 1.10±0.11
sT3(pg/mL) 3.12±0.54 2.8±0.57 2.7±0.4
TSH
(mikroIU/mL)
2.16±1.06 1.93±0.96 1.36±1.44
sorunu haline gelmiştir. Obezite için uygulanan tedavilerden;
diyet, fiziksel aktivite, davranış terapisi ve kilo verdirici
ilaçlar kilo verdirme açısından çok güçlü olmadığı
gibi uzun dönem sürdürülebilir etkileri zayıf kalmaktadır.
Obezite cerrahisi anlamlı ve kalıcı kilo verilmesini sağlamaktadır.
Cerrahi tedavinin başarısının altında yatan olası
mekanizmalar; gastrik volümün azalması, malabsorpsi21
- 25 Mayıs 2014 / Cornelia Diamond Hotel / Antalya 143
SÖZEL BİLDİRİLER
yon, sindirim sistemi hormonlarındaki değişiklik sonucu
açlık ve iştah hissindeki değişikliklerdir. Ege Üniversitesi
Hastanesi’nde bariatrik cerrahi yapılmış hastalarımızın
preoperatif ve postoperatif 1. ve 3. ay metabolik verilerini
sunuyoruz.
Materyal -Metod : Obezite konseyimizde bariatrik cerrahi
kararı alınmış toplam 47 hastaya (n=39 K, n=8 E) bariatrik
cerrahi kararı alındı. Sleeve gastrektomi (SG) ve
gastrik bypass (GB) olmak üzere iki farklı cerrahi uygulandı.
Bu hastalar cerrahi sonrasında kilo ve metabolik
parametrelerin değişimini değerlendirmek üzere 1. ve 3.
ay takiplere çağrıldı. Hastaların preoperatif ve postoperatif
1. ve 3. ay kilo, VKİ, APG, HbA1c, bazal insülin, lipid profili,
karaciğer fonksiyon testleri, vitamin B12, vitamin D düzeyleri,
Hb, demir parametreleri, tiroid fonksiyon testleri
ölçüldü. Hastaların kilo değişimi uygulanan cerrahi tipine
göre de karşılaştırıldı.
Bulgular : Toplam 47 hastanın 20’sine gastrik by-pass
(%43), 27’sine (%57) sleeve gastrektomi uygulandı. Hastalarımızın
ortalama yaşı 37±9.5 idi (19-59 y). Cerrahi uygulanan
hastalarımızın %17’si erkek, %83’ü kadındı. Toplam
47 hastadan verisine ulaşılabilen 31 hastanın kilo verilerinin
analizinde preop ortalama kilo değeri 125.4±15.9 kg
iken postop 1. ay ortalama kilosu 112.7±13.2 kg (p<0.001),
3. ay postop ortalama kilosu 100.9±17.5 kg (p<0.001) olarak
tespit edildi. Toplam 47 hastadan verisine ulaşılabilen 23
hastanın analizinde preop APG değeri ortalama 102.5±19.2
mg /dL, postop 1.ay APG 91.6±10.9mg/dL (p=0.03), postop
3 ay APG 87.3±2.0 mg/dL idi. Hastalarımızdan 39 tanesine
OGTT yapıldı. OGTT sonuçlarına göre; %82.1’inde normal
glukoz toleransı, %12.8’inde bozulmuş glukoz toleransı,
%5.1’inde DM saptandı. Hastalarımızın preoperatif ve postop
1. ve 3.ay kilo ve metabolik değerleri Tablo 1’de sunulmuştur.
GB operasyonu olan grupta 1.ayda ortalama
12.4±5.5 kg, 3. ayda (preoperatif dönem kilosuna göre) ortalama
22.2±8.6 kg kilo değişimi gözlendi. SG olan hastalarımızda
kilo değişimi postop 1. ay için 13.7 ±4.5 kg iken 3.
ayda 23.4±5.8 kg olarak tespit edildi Cerrahi tipine göre 1.
ve 3. ay kilo değişimleri arasında anlamlı fark bulunmadı.
Sonuç : Bariatrik cerrahi sonrası yakın dönemde anlamlı
kilo değişikliği olmaktadır. Açlık plazma glukozunda da
anlamlı düşüş gözlenmiştir. Hastalarımızda cerrahi şekline
göre kilo değişiminde anlamlı farklılık görülmemiştir.
Bariatrik cerrahi hastalarının kilo ve metabolik verileri
açısından yakın ve uzun süreli takibi gerekmektedir.
Tablo 1. Bariatrik cerrahi uygulanan hastalarımızın (n=47)
preop ve postop metabolik verileri
Preop Postop 1. ay Postop 3. ay
Kilo(kg) 127.5±15.9 114.3±13.6 100.9±17.5
APG(mg/dL) 100.4±19.4 91.1±11.2 88.3±9.5
Bazal
insülin(mIU/
mL)
22.6±10.4 13.6±10.7 12.8±5.0
ALT(U/L) 25.0±14.6 36.7±31.5 19.3±8.0
LDL (mg/dL) 118.9±29.3 99.8±18.6 110.7±23.7
HDL (mg/dL) 48.5±13.6 40.0±8.7 44.2±15.7
TG (mg/dL) 123.1±54.9 114.0±47.9 118.9±49.2
Hb (g/dL) 13.1±1.2 13.0±1.2 13.0±1.5
Demir
(mikrog/dL)
60.3±36.2 55.2±19.5 67.4±28.3
Ferritin(ng/
mL)
43.8±40.3 66.2±48.9 43.7±43.0
B12(pg/mL) 328.2±143.0 461.2±278.7 345.3±211.3
sT4(ng/dL) 1.17±0.16 1.82±2.63 1.10±0.11
sT3(pg/mL) 3.12±0.54 2.8±0.57 2.7±0.4
TSH
(mikroIU/mL)
2.16±1.06 1.93±0.96 1.36±1.44
Research Interests:
In the treatment of the rectal cancer which is the second most common type of cancer in women and the third in men worldwide; there are various criteria and treatment options that effect the decision of which treatment should be applied.... more
In the treatment of the rectal cancer which is the second most common type of cancer in women and the third in men worldwide; there are various criteria and treatment options that effect the decision of which treatment should be applied. It was aimed to create a system to support the physician’s decisions in order to determine the most appropriate treatment method. The decision model that built by combining analytic hierarchy process and decision tree was presented to the user by using a web-based application. This study supports the decision making process using patient data as well as expert knowledge.
Key Words: Analytic hierarchy process (AHP), decision trees, rectal cancer treatment, clinical decision support systems (CDSS), decision making, expert opinion.
Key Words: Analytic hierarchy process (AHP), decision trees, rectal cancer treatment, clinical decision support systems (CDSS), decision making, expert opinion.
Research Interests:
"The extensive profiles of all the Departments of Statistics in Turkey were compiled in this study. Data on the departments’ curriculum, academic staff, and undergraduate, graduate and postgraduate programs were collected via information... more
"The extensive profiles of all the Departments of Statistics in Turkey were compiled in this study. Data on the departments’ curriculum, academic staff, and undergraduate, graduate and postgraduate programs were collected via information forms. Statistics regarding the Departments of Statistics in Turkey were summarized. The past, present and future of the existing and newly established Departments of Statistics in Turkey were evaluated.
Keyword: Profile of the Department of Statistics, Statistics regarding students from Department of Statistics, Statistics regarding academic staff from Department of Statistics.
"
Keyword: Profile of the Department of Statistics, Statistics regarding students from Department of Statistics, Statistics regarding academic staff from Department of Statistics.
"
Research Interests:
With drastically decreasing costs of genetic sequencing, it has become feasible to use individual genetic markers to optimize treatment selection in cancer therapy. However, it is still difficult for medical practitioners to integrate... more
With drastically decreasing costs of genetic sequencing, it has become feasible to use individual genetic markers to optimize treatment selection in cancer therapy. However, it is still difficult for medical practitioners to integrate these new kinds of data into clinical routine, since available information is growing rapidly. We demonstrate how a blend of manual curation and automated data extraction and evidence synthesis can be used to generate a 'living review', a summarization of current evidence on cancer classification, corresponding genetic markers, genetic tests and treatment options that can be used by clinicians to refine treatment choices. In contrast to a classical review, this automated 'living review' offers the opportunity of automatically updating core content when available data changes, making it easier to keep an overview of the best current evidence. We discuss some of the findings we made while creating a prototype of a 'living review' for colorectal cancer pharmacotherapy.
Research Interests:
Colorectal cancer is one of the most common health problems today, with increasing incidence worldwide; therefore the treatment of colorectal cancer is of great importance. Currently, there are several treatment options such as surgery,... more
Colorectal cancer is one of the most common health problems today, with increasing incidence worldwide; therefore the treatment of colorectal cancer is of great importance. Currently, there are several treatment options such as surgery, chemotherapy and radiotherapy for the patients with colorectal cancer diagnosis; and while making a decision regarding the most appropriate treatment for the patient, different combinations of these options might be selected with regard to the status of that particular patient. In this study, which aims to determine the most appropriate method for the treatment of rectum cancer, sequential decision tree structure was used for determining treatment method taking different criteria into consideration. Therefore, we selected Analytic Hierarchy Process (AHP) method for determining the priorities of the criteria, while constructing the sequential decision tree which, used for the decision process regarding the treatment of colorectal cancer. Criteria used in two decision steps in the decision making process were determined and their priorities over each other were achieved by expert-decision via consulting to general surgeons. Data were analyzed with “Expert Choice” Software, developed specially for AHP; and inconsistency ratios were calculated for each set of judgments, respectively for the first decision step 0.08 and for the second, 0.06. For the first decision step, 0.310 was the highest priority for presence of perforation criteria; for the second step, 0.149 was the highest priority for stage of the disease criteria. The decision tree was constructed with these priorities at hand. For future studies, the decision algorithm developed in this study is planned to be supported by software, thus a clinical decision support system for treatment of rectum cancer patients would be created. If a comprehensive database be gathered in the future, both probabilistic results would be examined, and interpretations could be made for the corresponding patient.
Research Interests:
Research Interests:
In this study, we aimed at comparing the results of the survival analysis of patients with breast cancer with parametric models such as Weibull, Gamma, Gompertz, Log-Logistic and Log-Normal. The data received from 5457 patients with... more
In this study, we aimed at comparing the results of the survival analysis of patients with breast cancer with parametric models such as Weibull, Gamma, Gompertz, Log-Logistic and Log-Normal. The data received from 5457 patients with breast cancer from Ege University Cancer Research Center (EUCRC) between 1992-2007 was used in this study. The patients were divided into two groups based on their ages which ranged from 49 and below 49 with 50 and above 50. Survival curves of two groups were compared by using a log-rank test and no statistical significant difference was found between the two groups. To determine the best model among parametric models Akaike Information Criteria (AIC) was exploited. The results of the study revealed that the survival model found by the Gompertz distribution is the most appropriate one.
Research Interests:
Multiple correspondence analysis is a method making easy to interpret the categorical variables given in contingency tables, showing the similarities, associations as well as divergences among these variables via graphics on a lower... more
Multiple correspondence analysis is a method making easy to interpret the categorical variables given in contingency tables, showing the similarities, associations as well as divergences among these variables via graphics on a lower dimensional space. Since it factors the data matrix into the rows and columns, and shows each of them with a separate graphics, it release important information about the structure of the data. Having lots of categorical data in applied science, such as in medicine, biology and economy, makes the correspondence analysis very popular method.
In multiple correspondence analysis, the aim is to explain as much information as about the associations among the variables on a lower dimensional space. To determine the structure of the contingency table, a multidimensional graphic consisting the points regarding the levels of categorical variables is drawn using mathematical methods. Cluster Analysis is an analysis used to classify the grouped data according to their similarities and to get useful summarized data from them. The identification of common-featured groups are made by using the distance between the units and the multivariate data, and by grouping the similar and dissimilar units.
In this study, multiple correspondence analysis and cluster analysis methods will be applied the epidemiological research data obtained from the College of Medicine at DEU, and the results of each of these methods will be compared.
Key Words: Multiple Correspondence Analysis, Cluster Analysis, Homogenity Analysis
In multiple correspondence analysis, the aim is to explain as much information as about the associations among the variables on a lower dimensional space. To determine the structure of the contingency table, a multidimensional graphic consisting the points regarding the levels of categorical variables is drawn using mathematical methods. Cluster Analysis is an analysis used to classify the grouped data according to their similarities and to get useful summarized data from them. The identification of common-featured groups are made by using the distance between the units and the multivariate data, and by grouping the similar and dissimilar units.
In this study, multiple correspondence analysis and cluster analysis methods will be applied the epidemiological research data obtained from the College of Medicine at DEU, and the results of each of these methods will be compared.
Key Words: Multiple Correspondence Analysis, Cluster Analysis, Homogenity Analysis
Research Interests:
Research Interests:
Research Interests:
Correspondence analysis is a method making easy to interpret the categorical variables given in contingency tables, showing the similarities, associations as well as divergences among these variables via graphics on a lower dimensional... more
Correspondence analysis is a method making easy to interpret the categorical variables given in contingency tables, showing the similarities, associations as well as divergences among these variables via graphics on a lower dimensional space. Since it factors the data matrix into the rows and columns, and shows each of them with a separate graphics, it release important information about the structure of the data. Having lots of categorical data in applied science, such as in medicine, biology and economy, makes the correspondence analysis very popular method.
In correspondence analysis, the aim is to explain as much information as about the associations among the variables on a lower dimensional space. To determine the structure of the contingency table, a multidimensional graphic consisting the points regarding the levels of categorical variables is drawn using mathematical methods. There are similarities between this analysis and some other multivariate methods including Principal Component Analysis, Log-Linear Models and Multi-dimensional scaling.
In this study, correspondence analysis and these methods will be applied the epidemiological research data obtained from the College of Medicine at DEU, and the results of each of these methods will be compared.
Key Words: Correspondence analysis, homogenity analysis, multivariate methods, analysis of categorical data.
In correspondence analysis, the aim is to explain as much information as about the associations among the variables on a lower dimensional space. To determine the structure of the contingency table, a multidimensional graphic consisting the points regarding the levels of categorical variables is drawn using mathematical methods. There are similarities between this analysis and some other multivariate methods including Principal Component Analysis, Log-Linear Models and Multi-dimensional scaling.
In this study, correspondence analysis and these methods will be applied the epidemiological research data obtained from the College of Medicine at DEU, and the results of each of these methods will be compared.
Key Words: Correspondence analysis, homogenity analysis, multivariate methods, analysis of categorical data.
Research Interests:
Background Microarray and other high-throughput technologies generate huge amount of data about expression patterns of genes which are differentially regulated under varying conditions. Due to the large numbers of up- and down-regulated... more
Background
Microarray and other high-throughput technologies generate huge amount of data about
expression patterns of genes which are differentially regulated under varying conditions.
Due to the large numbers of up- and down-regulated genes within a single microarray
experiment researchers usually suffer to interpretate the data and its biological
significance. Bioinformatics tools are important to facilitate the understanding of biological
meaning of gene sets and have been used increasingly. We designed a new web-based tool
called hasGO to identify features of Homo sapiens, Rattus norvegicus, Mus musculus, Danio
rerio and Saccharomyces cerevisiae gene sets. We believe that the database will provide
users to pick significant GO terms in a given gene list with statistical analysis and help users
make functional analysis and biological interpretation of gene sets.
Data and Methods
To obtain gene symbols and gene IDs with associated Gene Ontology (GO) terms, gene_info
and gene2go files were downloaded from Entrez Gene
[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene]. In order to assign the parentchild
relationship between GO terms, GO data was extracted from Gene Ontology Database
[http://www.geneontology.org]. Additionally, Affymetrix annotation files retrieved from
Affymetrix website [http://www.affymetrix.com] to provide users analyze microarray data
according to the type of the array. Downloaded data sets were combined on hasGO
database that was created using Mysql version 5.0.18 on Linux Suse server version 10.0 and
the user interfaces were constructed with HTML and PHP version 5.1.2. Probability values
of each GO terms related to a gene set were calculated by hypergeometric distribution.
Results and Conclusion
Our web-based tool hasGO has been designed as a helpful agent to identify the features of
Homo sapiens, Rattus norvegicus, Mus musculus, Danio rerio and Saccharomyces cerevisiae
gene sets. By using the database users can find out significant GO terms in a given gene list.
Statistical analysis is also available. This database can also be used for functional analysis
and biological interpretation of gene sets. Our database visualizes GO term tree for an
input gene set on the GO hierarchy. hasGO database is still in progress and it will have
some additional features for sensitive data analysis and network visualization of genes in
near future.
Microarray and other high-throughput technologies generate huge amount of data about
expression patterns of genes which are differentially regulated under varying conditions.
Due to the large numbers of up- and down-regulated genes within a single microarray
experiment researchers usually suffer to interpretate the data and its biological
significance. Bioinformatics tools are important to facilitate the understanding of biological
meaning of gene sets and have been used increasingly. We designed a new web-based tool
called hasGO to identify features of Homo sapiens, Rattus norvegicus, Mus musculus, Danio
rerio and Saccharomyces cerevisiae gene sets. We believe that the database will provide
users to pick significant GO terms in a given gene list with statistical analysis and help users
make functional analysis and biological interpretation of gene sets.
Data and Methods
To obtain gene symbols and gene IDs with associated Gene Ontology (GO) terms, gene_info
and gene2go files were downloaded from Entrez Gene
[http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gene]. In order to assign the parentchild
relationship between GO terms, GO data was extracted from Gene Ontology Database
[http://www.geneontology.org]. Additionally, Affymetrix annotation files retrieved from
Affymetrix website [http://www.affymetrix.com] to provide users analyze microarray data
according to the type of the array. Downloaded data sets were combined on hasGO
database that was created using Mysql version 5.0.18 on Linux Suse server version 10.0 and
the user interfaces were constructed with HTML and PHP version 5.1.2. Probability values
of each GO terms related to a gene set were calculated by hypergeometric distribution.
Results and Conclusion
Our web-based tool hasGO has been designed as a helpful agent to identify the features of
Homo sapiens, Rattus norvegicus, Mus musculus, Danio rerio and Saccharomyces cerevisiae
gene sets. By using the database users can find out significant GO terms in a given gene list.
Statistical analysis is also available. This database can also be used for functional analysis
and biological interpretation of gene sets. Our database visualizes GO term tree for an
input gene set on the GO hierarchy. hasGO database is still in progress and it will have
some additional features for sensitive data analysis and network visualization of genes in
near future.