TR Dizin İndeksli Yayınlar Koleksiyonu / TR Dizin Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/20.500.14365/4
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Article Citation - WoS: 1Citation - Scopus: 1Myocardial Infarction in Young Adults: Diagnosis Begins Through Inspection(Kare Publ, 2024) Özpelit, Mehmet Emre; Kumral, Zeynep; Özpelit, Ebru; Çolak, AyseSpontan koroner arter diseksiyonu (SKAD), genellikle orta yaşlı kadınları etkileyen nadir bir akut koroner sendrom formudur. Genetik vaskülopatiler de dahil olmak üzere bağ dokusu hastalıkları SCAD’ye yol açan önemli predispozan durumlardan biridir. Bu yazıda, anterior miyokard enfarktüsü geçiren ve vasküler tip Ehler-Danlos sendromu tanısı alan 36 yaşında bir erkek hasta sunulmuş ve literatür gözden geçirilmiştir.Article Citation - WoS: 1Detection of Alzheimer's Dementia by Using Deep Time-Frequency Feature Extraction(AVES, 2024-01-30) Karabiber Cura, Özlem; Türe, H. Sabiha; Akan, Aydin; Cura, Ozlem KarabiberAlzheimer's disease (AD), a neurological condition connected with aging, causes cognitive deterioration and has a substantial influence on a patient's daily activities. One of the most widely used clinical methods for examining how AD affects the brain is the electroencephalogram (EEG). Handcraft calculating descriptive features for machine learning algorithms requires time and frequently increases computational complexity. Deep networks provide a practical solution to feature extraction compared to handcraft feature extraction. The proposed work employs a time-frequency (TF) representation and a deep feature extraction-based approach to detect EEG segments in control subjects (CS) and AD patients. To create EEG segments'TF representations, high-resolution synchrosqueezing transform (SST) and traditional short-time Fourier transform (STFT) approaches are utilized. For deep feature extraction, SST and STFT magnitudes are used. The collected features are classified using a variety of classifiers to determine the EEG segments of CS and AD patients. In comparison to the SST method, the STFT-based deep feature extraction strategy produced improved classification accuracy between 79.56% and 92.96%.Article Citation - WoS: 2Citation - Scopus: 2Analysis of Nucleotide Changes in Rt-Pcr Primer/Probe Binding Regions in Sars-Cov Isolates Reported From Turkey(Ankara Microbiology Soc, 2021-07-16) Demir, Ayse Banu; Bulgurcu, Alihan; Appak, Ozgur; Sayiner, Ayca ArzuThe SARS-CoV-2 virus, which caused the COVID-19 epidemic, caused more than 55 million cases and nearly 1.5 million deaths worldwide. For the microbiological diagnosis of the disease, the most valid method is detecting the presence of the viral genome by real-time reverse transcription polymerase chain reaction (rRT-PCR). However, due to the nature of the RNA viruses, frequent mutations may affect the sensitivity of the analyses made on the genetic material of the virus, such as PCR. In this study, we aimed to investigate the mutations in the primer-probe binding regions of the rRT-PCR panels used in COVID-19 diagnosis. SARS-CoV-2 whole genome sequence data (n= 194) isolated from COVID-19 cases in Turkey and uploaded on GISAID database from the centers in Istanbul (n= 78), Ankara (n= 58), Kars (n= 47), Bursa (n= 2), Adiyaman (n= 2), Erciyes (n= 1) and Kocaeli (n= 1) between March 17-September 14, 2020 were analyzed. In order to determine the nucleotide changes, SARS-CoV-2 sequences from Turkey were compared to the reference genome sequence (NC_045512.1) present in GenBank website. The constructed data set was aligned using the MAFFT program and was checked manually if the sequences were in the same frame by using the AliView program. Primer-probe binding sites of the thirteen SARS-CoV-2 rRT-PCR panels from seven different institutes (US CDC, China CDC, Charite CDC, Pasteur, HKU, Thailand, NIID) that are being used in COVID-19 diagnosis were evaluated in terms of nucleotide changes within the corresponding regions compared to the reference genome. Sequence diversities in the viral genomes were determined via positional nucleotide numerical calculator and entropy calculator modules and nucleotide and entropy changes in primer-probe binding regions for each rRT-PCR panel were examined. Among thirteen different primer-probe panels, nucleotide changes in the target regions of the seven primer-probe panels were determined. When viral sequences with nucleotide changes in the primer-probe binding regions were examined, the most common changes were observed in the China CDC N-forward primer and US CDC N3-forward primer binding regions. It is important that the kits to be used as diagnostic tests are designed specific to the regions with less nucleotide changes. Nucleotide changes may not be critical for DNA amplification for most PCR panels, but should be carefully monitored as they may affect the sensitivity of the assay. If the risk of alteration of the designed region is high, the primer - probe binding sites should be checked frequently and updated when necessary.Article Citation - WoS: 7Citation - Scopus: 8Solid Pseudopapillary Neoplasms of the Pancreas: Case Series With a Review of the Literature(Aves, 2020-12-15) Uguz, Alper; Unalp, Omer Vedat; Akpinar, Goksever; Karaca, Can Avni; Oruc, Nevin; Nart, Deniz; Yilmaz, Funda; Aydın, Ahmet; Coker, AhmetBackground/Aims: The solid pseudopapillary neoplasms are quite rare tumors of the pancreas, comprising roughly 1-2% of all pancreatic neoplasms. It has a low malignant potential and usually affects young females. Despite increasing number of articles in the last decade, there is still debate on the pathogenesis, malignant potential and optimal surgical strategy for the solid pseudopapillary neoplasms. Materials and Methods: Medical recordings of 326 patients who were operated due to pancreatic mass were retrospectively analyzed. Patient demographics, presenting symptoms, surgical and pathologic characteristics of the tumor, postsurgical course, long-term survival, and other relevant data were extracted from patients' charts. Results: Majority of the patients were female in consistency with the classic data in the literature. All the patients underwent curative intent resections. Tumors were commonly localized in the tail of the pancreas making distal pancreatectomy the most commonly performed surgical procedure. Mean tumor diameter was 5.8 centimeters with tumor sizes ranging from 1 to 19 cm. Conclusion: The solid pseudopapillary neoplasms of the pancreas is a rare tumor with low malignant potential, which is more common in females of reproductive age, with abdominal pain being their most common presentation. The short-term outcomes in patients following surgical R0 resection are excellent. However, proximal placement of the tumor and female gender may have slightly worse prognosis. We hope that our findings from a series of patients represent a contribution to the existing literature on SPN, and authors declare their willingness to provide further details for future meta-analyses.Article Citation - WoS: 3Citation - Scopus: 6Effects of Bevacizumab Administration on the Hypoxia- Induced Pulmonary Hypertension Rat Model(Tubitak Scientific & Technical Research Council Turkey, 2021-10-21) Demir, Canan; Karaman, Meral; Ucan, Eyup Sabri; Gokmen, Ali Necati; Gurel, Duygu; Coker, Sadiye Canan; Adali, Yasemen; Yilmaz, Osman; Gokmen, Necati; Coker, CananBackground/aim: Bevacizumab is a chemotherapeutic drug, which selectively binds to vascular endothelial growth factor (VEGF) and mainly inhibits angiogenesis and neovascularization. We aimed to study the possible effects of bevacizumab on right ventricular pressure (RVP), right ventricular hypertrophy, and VEGF, in hypoxia -induced pulmonary hypertension (PH) rat model. Materials and methods: 24 adult Wistar Albino rats were randomly divided into four groups: control group -saline; Bevacizumab Group; PH Group; PH + Bevacizumab Group. In hypoxia -induced model, 10% oxygen and 90% nitrogen were applied in a plexiglas box for eight days to PH Group and PH + Bevacizumab Group. On day eight, RVPs were measured directly from the heart, and then animals were sacrificed. Heart and lung tissues were examined, and Fulton index was measured. Results: RVP, Fulton index, and tissue VEGF scores were significantly lower in PH + Bevacizumab group than PH group: median (ranges), RVP, mmHg, 37.8 (33.0-39.0) and 32.3 (28.0-35.0), p: 0.01; Fulton index: 0.30 (0.29-0.33) and 0.25 (0.24-0.26), p: 0.003; tissue VEGF scores: 5.1 (4.8-5.3) and 4.0 (3.8 4.1), p: 0.004, respectively. Conclusion: Bevacizumab, which is indeed an antineoplastic agent, might have a favorable effect on hypoxia -induced pulmonary hypertension.Article Citation - WoS: 1Determination of a Sample-To Ratio To Predict True-Positivity in Blood Donor Samples Screened for Syphilis by a Chemiluminescent Immunoassay(Aves Press Ltd, 2018) Akcakanat, I. Ebru; Ozbek, Ozgen Alpay; Dogan, Yavuz; Abacioglu, Yusuf HakanPurpose: The use of Architect Syphilis TP (CMIA) in the blood bank raised the number of syphilis positive samples requiring confirmation. The aim of this study is to determine a sample-to-cutoff (s/co) ratio for CMIA predicting >= 95% of true-positive samples to reduce these samples. Methods: CMIA reactive samples (n=177) were evaluated by Western blot (WB) as the reference standard, as well as by Treponema pallidum hemagglutination (TPHA) and Rapid Plasma Reagin (RPR) tests. The s/co ratio predicting >= 95% of true-positive samples was defined as the threshold leaving >= 95% of WB confirmed samples greater than the particular value. The performances of TPHA and RPR tests were also evaluated with respect to s/co ratios of CMIA positive samples. Results: The s/co ratio 15.17 predicted a true-positive result for >= 95% of samples tested (95% confidence interval: 85.9-99.3) and reduced the number of samples requiring confirmation by 29.9%. Higher s/co ratios were correlated with the increasing number of bands on WB strips (p<0.0001, R=0.906). For the samples with s/co ratios between 3 and 15.17, the agreement of TPHA and WB test results were 90%. The lowest s/co ratio where TPHA was positive, was 3.1. Although RPR predicted > 95% of positive samples with s/co ratios > 15, its sensitivity was 47.7%. Conclusion: Higher s/co ratios can be used to define true-positivity and may indicate an active infection. TPHA may replace WB to confirm samples with s/co ratios between 3 and 15. RPR should not be used as a screening test in blood banks as it could miss almost half of the true-positive samples.