Determination of Phylogenetic Relationships of Turkish Native Cattle Breeds with Other Cattle Breeds Using Mitochondrial DNA D-loop Sequence Polymorphism

Ozdemir, Memis,Dogru, Unsal Asian Australasian Association of Animal Productio 2009 Animal Bioscience Vol.22 No.7

The aim of this study was to determine the specific polymorphic sites in cattle breeds and inter- and interbreed genetic variation among breeds and to develop a databank of Turkish native cattle mtDNA using sequence analysis. The entire D-loop region was analyzed based on DNA sequences in Turkish Grey, East Anatolian Red, South Anatolian Red, and Anatolian Black native breeds. In total, 68 nucleotide differences were observed at 26 different sites. The variable positions consisted of 22 transitions, two transversions, and two insertions, but no deletions. Haplotype number, haplotype diversity, nucleotide diversity, and mean number of pairwise difference values were found to be 17, 0.993, 0.00478, and 4.275, respectively. In addition, a phylogeny was developed by comparison among cattle populations for which the entire D-loop sequence was available. A high level of genetic variation was observed within and among the native cattle breeds.

Privacy-Preserving Two-Party Collaborative Filtering on Overlapped Ratings

( Burak Memis ),( Ibrahim Yakut ) 한국인터넷정보학회 2014 KSII Transactions on Internet and Information Syst Vol.8 No.8

To promote recommendation services through prediction quality, some privacy-preserving collaborative filtering solutions are proposed to make e-commerce parties collaborate on partitioned data. It is almost probable that two parties hold ratings for the same users and items simultaneously; however, existing two-party privacy-preserving collaborative filtering solutions do not cover such overlaps. Since rating values and rated items are confidential, overlapping ratings make privacy-preservation more challenging. This study examines how to estimate predictions privately based on partitioned data with overlapped entries between two e-commerce companies. We consider both user-based and item-based collaborative filtering approaches and propose novel privacy-preserving collaborative filtering schemes in this sense. We also evaluate our schemes using real movie dataset, and the empirical outcomes show that the parties can promote collaborative services using our schemes.

Lung ultrasonography in pregnant women during the COVID-19 pandemic: an interobserver agreement study among obstetricians

Murat Yassa,Memis Ali Mutlu,Pinar Biro,Taha Yusuf Kuzan,Erkan Kalafat,Canberk Usta,Emre Yavuz,Ilkhan Keskin,Niyazi Tug 대한초음파의학회 2020 ULTRASONOGRAPHY Vol.39 No.4

Purpose: This study investigated interobserver agreement in lung ultrasonography (LUS) in pregnant women performed by obstetricians with different levels of expertise, with confirmation by an expert radiologist. Methods: This prospective study was conducted at a tertiary "Coronavirus Pandemic Hospital" in April 2020. Pregnant women suspected to have coronavirus disease 2019 (COVID-19) were included. Two blinded experienced obstetricians performed LUS on pregnant women separately and noted their scores for 14 lung zones. Following a theoretical and hands-on practical course, one experienced obstetrician, two novice obstetric residents, and an experienced radiologist blindly evaluated anonymized and randomized still images and videoclips retrospectively. Weighted Cohen's kappa and Krippendorff’s alpha tests were used to assess the interobserver agreement. Results: Fifty-two pregnant women were included, with confirmed COVID-19 diagnosis rate of 82.7%. In total, 336 eligible still images and 115 videoclips were included in the final analysis. The overall weighted Cohen’s kappa values ranged from 0.706 to 0.912 for the 14 lung zones. There were only seven instances of major disagreement (>1 point) in the evaluation of 14 lung zones of 52 patients (n=728). The overall agreement between the radiologist and obstetricians for the still images (Krippendorff's α=0.856, 95% confidence interval [CI], 0.797 to 0.915) and videoclips (Krippendorff's α=0.785; 95% CI, 0.709 to 0.861) was good. Conclusion: The interobserver agreement between obstetricians with different levels of experience on still images and videoclips of LUS was good. Following a brief theoretical course, obstetricians' performance of LUS in pregnant women and interpretation of pre-acquired LUS images can be considered consistent.

Temperament in Adulthood Attention Deficit-Hyperactivity Disorder without Bipolar Disorder

Filiz Ozdemiroglu,Kadir Karakus,Cagdas Oyku Memis,Levent Sevincok,Sanem Mersin 대한신경정신의학회 2018 PSYCHIATRY INVESTIGATION Vol.15 No.3

Objective-We examined whether some temperamental traits would be associated with persistence of attention deficit-hyperacitivty disorder (ADHD) in adulthood independent from bipolar disorder (BD). Methods-Eighty-one ADHD patients without a comorbid diagnosis of BD were divided into two groups, those with childhood ADHD (n=46), and those with Adulthood ADHD (n=35). The severity of childhood and adulthood ADHD were assessed by using the Wender Utah Rating Scale (WURS-25) and Turgay’s Adult ADD/ADHD Diagnosis and Evaluation Scale (DES). Subjects’ temperamental characteristics were examined using the Temperament Evaluation of Memphis, Pisa, Paris and San Diego-auto questionnaire (TEMPS-A). Results-The mean scores of WURS-25 were higher in adult ADHD group than in childhood ADHD group (p<0.001). Adult ADHD group had significantly higher scores on cyclothymic (p=0.002), irritable (p<0.0001), and anxious (p=0.042) subscales of TEMPS-A. The scores of WURS-25 in adulthood ADHD group were positively correlated with cyclothymia scores (r=0.366, p=0.033). Total scores of Turgay’s Adult ADD/ADHD DES were positively correlated with cyclothymic (r=0.354, p=0.040), hyperthymic (r=0.380, p=0.026), and irritable (r=0.380, p=0.026) subscale scores. Cychlothymic and irritable temperaments were significantly associated with the severity of adulthood symptoms of ADHD. Conclusion-We might suggest that cyclothymic and irritable temperaments would predict the diagnosis of adulthood ADHD independent from BD.

Evaluation of Biochemical Recurrence-free Survival after Radical Prostatectomy by Cancer of the Prostate Risk Assessment Post-Surgical (CAPRA-S) Score

Aktas, Binhan Kagan,Ozden, Cuneyt,Bulut, Suleyman,Tagci, Suleyman,Erbay, Guven,Gokkaya, Cevdet Serkan,Baykam, Mehmet Murat,Memis, Ali Asian Pacific Journal of Cancer Prevention 2015 Asian Pacific journal of cancer prevention Vol.16 No.6

Background: The cancer of the prostate risk assessment (CAPRA) score has been defined to predict prostate cancer recurrence based on the pre-clinical data, then pathological data have also been incorporated. Thus, CAPRA post-surgical (CAPRA-S) score has been developed based on six criteria (prostate specific antigen (PSA) at diagnosis, pathological Gleason score, and information on surgical margin, seminal vesicle invasion, extracapsular extension and lymph node involvement) for the prediction of post-surgical recurrences. In the present study, biochemical recurrence (BCR)-free probabilities after open retropubic radical prostatectomy (RP) were evaluated by the CAPRA-S scoring system and its three-risk level model. Materials and Methods: CAPRA-S scores (0-12) of our 240 radical prostatectomies performed between January 2000-May 2011 were calculated. Patients were distributed into CAPRA-S score groups and also into three-risk groups as low, intermediate and high. BCR-free probabilities were assessed and compared using Kaplan-Meier analysis and Cox proportional hazards regression. Ability of CAPRA-S in BCR detection was evaluated by concordance index (c-index). Results: BCR was present in 41 of total 240 patients (17.1%) and the mean follow-up time was $51.7{\pm}33.0$ months. Mean BCR-free survival time was 98.3 months (95% CI: 92.3-104.2). Of the patients in low, intermediate and high risk groups, 5.4%, 22.0% and 58.8% had BCR, respectively and the difference among the three groups was significant (P = 0.0001). C-indices of CAPRA-S score and three-risk groups for detecting BCR-free probabilities in 5-yr were 0.87 and 0.81, respectively. Conclusions: Both CAPRA-S score and its three-risk level model well predicted BCR after RP with high c-index levels in our center. Therefore, it is a clinically reliable post-operative risk stratifier and disease recurrence predictor for prostate cancer.

Metabolic Syndrome Prevalence in Renal Cell Cancer Patients

Bulut, Suleyman,Aktas, Binhan Kagan,Erkmen, Akif Ersoy,Ozden, Cuneyt,Gokkaya, Cevdet Serkan,Baykam, Mehmet Murat,Memis, Ali Asian Pacific Journal of Cancer Prevention 2014 Asian Pacific journal of cancer prevention Vol.15 No.18

Purpose: Renal cell carcinoma (RCC) is increasingly being recognized as a metabolic disease in recent studies. The aim of the present study was to identify the prevalence of metabolic syndrome (MetS) and its association with RCC among urologic patients. Materials and Methods: The study included a total of 355 participants (117 adult RCC patients and 238 age matched controls) divided into groups, with and without MetS diagnosed using the criteria of the American Heart Association/The National Heart Lung and Blood Institute. Groups were compared statistically and logistic regression analysis was performed to investigate the impact of MetS criteria on RCC risk. Results: Of the 117 RCC patients, 52 (44.4%) and of the 238 controls, 37 (15.5%) had MetS. A significant association (p<0.001) was found between the presence of MetS and RCC (OR: 4.35; 95% CI=2.62-7.21). As the number of MetS components accumulated from 3 to 5, RCC risk increased likewise from 4 to 6 times. Conclusions: MetS is more prevalent in RCC patients in Turkey compared to controls. Risk increases with the number of coexisting MetS components.

Developing critical thinking skills in the thinking-discussion-writing cycle: the argumentation-based inquiry approach

Kabataş Memiş Esra,Çakan Akkaş Büşra Nur 서울대학교 교육연구소 2020 Asia Pacific Education Review Vol.21 No.3

This study aimed to investigate the effects of the argumentation-based inquiry (ABI) approach on the critical thinking skills of fifth-grade students in a secondary school using a hybrid method. Using an experimental research model, the study had a semi-experimental design form with pre-test and post-test control groups. It was conducted in a middle school in Kastamonu with fifth-grade students from two classes during the fall semester of the 2016–2017 academic year. One of the groups was randomly assigned as the control group and the other as the experimental group. The science classes for the experimental group included activities fitting the ABI approach. In the control group, the lessons were carried out with frequently used teaching techniques such as lectures, question-and-answer and demonstrative experiments. The activities were implemented during the units “Measuring the Size of a Force” and “Matter and Change”. A Critical Thinking Test was used to measure the critical thinking skills of the groups at the beginning and the end of the study. T-test and ANCOVA analyses were applied to the quantitative data using the SPSS software. At the end of the study, semi-structured interviews were conducted with 12 students; six students from each group. The interviews were analysed using the Nvivo 11 software to obtain themes and codes. The evaluation of the quantitative and qualitative findings revealed that the ABI approach used in science lessons had improved the critical thinking skills of the experimental group students.

Evaluation of the effects of prolotherapy on condyles in temporomandibular joint hypermobility using fractal dimension analysis

Sadi Memiş 대한구강악안면외과학회 2022 대한구강악안면외과학회지 Vol.48 No.1

Objectives: Prolotherapy is a method that has gained popularity in recent years and has been reported to have positive short-term and long-term clini-cal results in maxillofacial surgery, especially temporomandibular joint (TMJ) hypermobility. This study aimed to evaluate the changes in the trabecu-lar structure of mandibular condyles in patients who underwent prolotherapy due to TMJ hypermobility using the fractal analysis method. Materials and Methods: Forty-five patients who received dextrose prolotherapy at a concentration of 20% and fifteen control patients were included in the study. All patients had panoramic radiographs just before (T0) and six months after treatment (T1). The patients who received treatment were di-vided into three groups according to the number of prolotherapy injections. The regions of interest were selected from bone areas close to the articular surfaces of the condyles. The fractal dimension (FD) values were calculated. Results: The main effect of time on the FD value was significant [F (1, 56)=86.176, P<0.001]. This effect was qualified by a significant time×group interaction effect [F (3, 56)=9.023, P<0.001]. The decreases in FD values in all treatment groups between T0 and T1 times were significant (P=0.004). However, changes in FD values were not significant in the control group (P=0.728). Conclusion: Dextrose prolotherapy without the effect of the number of injections caused a decrease in FD values in the mandibular condyles over time.

Evaluation of the Use of Antimicrobial Therapy for Treating Diabetic Foot Infections in an Indonesia Referral Hospital: A Retrospective Cohort Study

Aviatin Memy,Sauriasari Rani,Yunir Em,Risni Hindun Wilda 대한감염학회 2023 Infection and Chemotherapy Vol.55 No.1

Background: Diabetic foot infection (DFI) is a common complication of hyperglycemia and is related to prolongation of hospitalization, mortality, high hospitalization costs and decreased quality of life. Antibiotic therapy is one of the most critical factors in the eradication of infection. This study aims to determine the appropriateness of antibiotic use based on the local and international clinical guidelines and its short-term effect on patients’ clinical improvement. Materials and Methods: This retrospective cohort study was conducted using secondary data from DFI inpatients from 1 January 2018 to 31 May 2020, from Dr. Cipto Mangunkusumo Hospital (RSCM), the National Referral Hospital of Indonesia. The Gyssens algorithm was used to help assess the appropriateness of antibiotics. All subjects were type 2 Diabetes Mellitus (T2DM) adult patients diagnosed with DFI. The primary outcome was a clinical improvement of infection after 7 - 14 days of antibiotic use. The clinical improvement of infection was defined by a minimum of three of these criteria: reduced or no purulent secretions, no fever, the area around the wound did not feel warm, no or reduced local oedema, no local pain, reduced redness or erythema, and decreased leukocytes count. Results: A total of 113 (63.5%) eligible subjects from a total of 178 were recruited. Among the patients, 51.4% had a duration of T2DM for ≥10 years, 60.2% had uncontrolled hyperglycemia, 94.7% had a history of complications, 22.1% had a history of amputation, and 72.6% had ulcer grade ≥3. Based on the Gyssens algorithm, 54.0% of the subjects were given antibiotics appropriately, while the other 46.0% were not. The proportion of improved patients in the appropriate antibiotics group was higher but not statistically significant than those in the inappropriate group (60.7% vs. 42.3%, P = 0.079). However, the results of the multivariate analysis demonstrated that the appropriate use of antibiotics would increase clinical improvement by 2.6 times, compared to inappropriate use after controlling for the covariates (adjusted odds ratio: 2.616, 95% confidence interval: 1.117 - 6.126, P = 0.027). Conclusion: Only half of the patients with DFI received appropriate antibiotics, although an appropriate antibiotics usage was independently associated with better short-term clinical improvement in DFI. This suggests that we should effort to improve appropriateness in antibiotics usage in DFI.