PubMed İndeksli Yayınlar Koleksiyonu / PubMed Indexed Publications Collection

Permanent URI for this collectionhttps://hdl.handle.net/20.500.14365/2

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Citation - WoS: 6
Citation - Scopus: 7
2db: a Proteomics Database for Storage, Analysis, Presentation, and Retrieval of Information From Mass Spectrometric Experiments
(Biomed Central Ltd, 2008) Allmer, Jens; Kuhlgert, Sebastian; Hippler, Michael
Background: The amount of information stemming from proteomics experiments involving (multi dimensional) separation techniques, mass spectrometric analysis, and computational analysis is ever-increasing. Data from such an experimental workflow needs to be captured, related and analyzed. Biological experiments within this scope produce heterogenic data ranging from pictures of one or two-dimensional protein maps and spectra recorded by tandem mass spectrometry to text-based identifications made by algorithms which analyze these spectra. Additionally, peptide and corresponding protein information needs to be displayed. Results: In order to handle the large amount of data from computational processing of mass spectrometric experiments, automatic import scripts are available and the necessity for manual input to the database has been minimized. Information is in a generic format which abstracts from specific software tools typically used in such an experimental workflow. The software is therefore capable of storing and cross analysing results from many algorithms. A novel feature and a focus of this database is to facilitate protein identification by using peptides identified from mass spectrometry and link this information directly to respective protein maps. Additionally, our application employs spectral counting for quantitative presentation of the data. All information can be linked to hot spots on images to place the results into an experimental context. A summary of identified proteins, containing all relevant information per hot spot, is automatically generated, usually upon either a change in the underlying protein models or due to newly imported identifications. The supporting information for this report can be accessed in multiple ways using the user interface provided by the application. Conclusion: We present a proteomics database which aims to greatly reduce evaluation time of results from mass spectrometric experiments and enhance result quality by allowing consistent data handling. Import functionality, automatic protein detection, and summary creation act together to facilitate data analysis. In addition, supporting information for these findings is readily accessible via the graphical user interface provided. The database schema and the implementation, which can easily be installed on virtually any server, can be downloaded in the form of a compressed file from our project webpage.
Citation - WoS: 1
Ablation of Atrioventricular Nodal Reentrant Tachycardia With Focal Cryoablation, Compared With Radiofrequency Ablation: Single-Center Experience
(Arquivos Brasileiros Cardiologia, 2024) Topaloğlu, Caner; Fici, Francesco; Van de Borne, Philippe; Taşkın, Uğur; Doğduş, Mustafa; Saygı, Serkan; Tengiz, İstemihan
Background: The ablation of atrioventricular nodal reentrant tachycardia (AVNRT) with cryoablation is an alternative to radiofrequency (RF) ablation in patients due to the low risk of total atrioventricular block. An increase in early-late recurrences after cryoablation is reported as an important disadvantage. Objectives: In this study, we aimed to compare the acute procedural success and the long-term recurrence rates of patients, with AVNRT who underwent methods. Methods: 73 patients with AVNRT were included in the study: 32 with cryoablation and 41 with RF ablation. There was no statistically significant difference between acute procedural success in methods. The ablation procedure was performed by an operator experienced in arrhythmology. The choice of RF or cryoablation was made in the electrophysiology laboratory based on the material already available during the procedure. After the procedure, the patients were evaluated every 3 months for 2 years in polyclinic control. The significance level adopted in the statistical analysis was 5%. Results: The 2 groups of patients were homogeneous. The fluoroscopy time (p<0.001) was shorter, but atrium-his (p=0.004) and his-ventricular (p=0.015) times were longer in the cryoablation group. There was no significant difference, in terms of acute procedural success, post-procedure jump without a single echo, and presence of echo and jump. Conclusions: Cryoablation requires less fluoroscopy time and is a safe non-inferior alternative to RF ablation in patients with AVNRT. The risk of AV block is a significant problem with the use of RF energy, making it less suitable for use in young and physically active patients.
Citation - Scopus: 1
Ablation of Atrioventricular Nodal Reentrant Tachycardia With Focal Cryoablation, Compared With Radiofrequency Ablation: Single-Center Experience
(2024) Topaloğlu, C.; Fici, F.; Borne, P.V.; Taşkin, U.; Dogdus, M.; Saygi, S.; Tengiz, I.
BACKGROUND: The ablation of atrioventricular nodal reentrant tachycardia (AVNRT) with cryoablation is an alternative to radiofrequency (RF) ablation in patients due to the low risk of total atrioventricular block. An increase in early-late recurrences after cryoablation is reported as an important disadvantage. OBJECTIVES: In this study, we aimed to compare the acute procedural success and the long-term recurrence rates of patients, with AVNRT who underwent methods. METHODS: 73 patients with AVNRT were included in the study: 32 with cryoablation and 41 with RF ablation. There was no statistically significant difference between acute procedural success in methods. The ablation procedure was performed by an operator experienced in arrhythmology. The choice of RF or cryoablation was made in the electrophysiology laboratory based on the material already available during the procedure. After the procedure, the patients were evaluated every 3 months for 2 years in polyclinic control. The significance level adopted in the statistical analysis was 5%. RESULTS: The 2 groups of patients were homogeneous.
Citation - WoS: 9
Citation - Scopus: 8
Abnormal Cross Frequency Coupling of Brain Electroencephalographic Oscillations Related To Visual Oddball Task in Parkinson's Disease With Mild Cognitive Impairment
(Sage Publications Inc, 2023) Bayraktaroglu, Zubeyir; Akturk, Tuba; Yener, Görsev; de Graaf, Tom A.; Hanoglu, Lutfu; Yildirim, Ebru; Gunduz, Duygu Hunerli
Parkinson's disease (PD) is a movement disorder caused by degeneration in dopaminergic neurons. During the disease course, most of PD patients develop mild cognitive impairment (PDMCI) and dementia, especially affecting frontal executive functions. In this study, we tested the hypothesis that PDMCI patients may be characterized by abnormal neurophysiological oscillatory mechanisms coupling frontal and posterior cortical areas during cognitive information processing. To test this hypothesis, event-related EEG oscillations (EROs) during counting visual target (rare) stimuli in an oddball task were recorded in healthy controls (HC; N = 51), cognitively unimpaired PD patients (N = 48), and PDMCI patients (N = 53). Hilbert transform served to estimate instantaneous phase and amplitude of EROs from delta to gamma frequency bands, while modulation index computed ERO phase-amplitude coupling (PAC) at electrode pairs. As compared to the HC and PD groups, the PDMCI group was characterized by (1) more posterior topography of the delta-theta PAC and (2) reversed delta-low frequency alpha PAC direction, ie, posterior-to-anterior rather than anterior-to-posterior. These results suggest that during cognitive demands, PDMCI patients are characterized by abnormal neurophysiological oscillatory mechanisms mainly led by delta frequencies underpinning functional connectivity from frontal to parietal cortical areas.
Citation - WoS: 1
Citation - Scopus: 1
Abstinence-Related Motivational Engagement Scale: Validity and Reliability in Turkish People
(Bilimsel Tip Publishing House, 2018) Yavan, Tulay; Gulesen, Asli; Bebis, Hatice
OBJECTIVES: This research aimed to conduct a validity and reliability study of the Turkish version of the abstinence-related motivational engagement (ARME) scale. MATERIALS AND METHODS: This study included 122 people and was administered in a smoking cessation clinic. The sociodemographic-smoking status characteristics questionnaire and the ARME scale were used for data collection. A psycholinguistic language adaptation was performed. In the validity, analyses, content, construct, and criterion-related validities were used. For content validity, expert evaluation was performed. For construct validity, principal component analyses (exploratory factor analyses) were performed. Orthogonal (Varimax) rotation was used to explore multiple factors. The Kaiser-Meyer-Olkin test was used to assess the adequacy of the sample size. For criterion-related validity, we compared the ARME scale points of people who were abstinent and had relapse for smoking at the end of the sixth month. In the reliability analysis, standard deviation (SD) and item analysis, internal consistency, and test-retest methods were used. RESULTS: The four factors explain 58% of the total variance. Items have factor loading between 0.409 and 0.805. When the factor structure of the scale was assessed, the items in each factor group have a factor load of at least 0.40. Due to one-dimensional use of the original scale, it has been decided to maintain this scale in its original form. The ARME scale points of people who quit smoking were statistically higher than the points of people who had relapse at the end of the sixth month. Cronbach's alpha coefficients were between 0.846 and 0.763. Significant and positive correlation was found between the test-retest scale scores. CONCLUSION: The Turkish adaptation of the ARME scale, which was developed for adults who quitted smoking, is an adequately valid and reliable measurement instrument. It is considered that the scale might be used reliably in different cultures as well.
Citation - WoS: 2
Citation - Scopus: 2
Adjuvant Action of Needle-Shaped Bc Microfibrils
(Springer, 2023) Sür, Özge; Gül, Aytul; Hames, Elif Esin
Bacterial cellulose (BC) is an unbranched biopolymer produced by microorganisms and composed of glucopyranose units linked by beta-1,4 bonds. This study investigates the adjuvant action of needle-shaped BC microfibrils (BCmFs) in vitro using bovine serum albumin (BSA) as a model antigen. BC produced by the static culture of Komagataibacter xylinus was then microparticled (1-5 mu m) by acid hydrolysis and characterized using Dynamic Light Scattering and Scanning Electron Microscopy. Subsequently, Attenuated Total Reflectance-Fourier-Transform Infrared Spectroscopy, cytotoxicity, TNF-alpha (tumour necrosis factor-alpha) and IL-6 (interleukin-6) cytokine secretion, and cellular uptake of the BCmFs-BSA conjugate on the human monocyte cell line (U937) differentiated into macrophages were performed. The microfibrils were determined to be 1-5 mu m in size, needle-shaped, with a zeta potential of - 32 mV. Their conjugation with the model antigen, BSA, was demonstrated by FTIR analysis. In the cytotoxicity assay, BCmFs-BSA in macrophage cells showed high viability (over 70%). Although the highest TNF-alpha cytokine level (113 pg/ml) was obtained with BCmFs-BSA (Bovine serum albumin) conjugate (500 mu g/ml) and was statistically significant (p = 0.0001) compared to the positive control group (BSA-aluminium hydroxide), IL-6 cytokine levels were not statistically different from those in the control group as desired. It has been shown in macrophage-differentiated U937 cells that microbially synthesized BC in the form of needle-shaped microfibrils (BCmFs) has a high cellular uptake capacity and increases the immunogenicity of the antigen. These results demonstrate for the first time that BCmFs have the potential to serve as a vaccine adjuvant.
Citation - WoS: 2
Citation - Scopus: 1
Adjuvant Effects of Chemotherapeutics and Metformin on Mfe-319 Endometrial Carcinoma Cell Line
(Editura Acad Romane, 2020) Aydemir, Isil; Uluer, Elgin Turkoz; Korkmaz, Oya; Tuglu, Mehmet Ibrahim; Inan, Sevinc
We aimed to investigate the cytotoxicity of Metformin, Cisplatin, and Paclitaxel on MFE-319 endometrial carcinoma cell line using 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) and immunocytochemistry assays. Half maximal inhibitory concentration (IC50) doses of three drugs alone and in the dual combinations were applied to the cells. Immunocytochemical method was performed for the cell survival and for phosphatidylinositol 3-kinase (PI3K), phosphorylated extracellular regulated kinases (pErk)-1/2, Akt-1, phosphorylated Akt (pAkt)-1/2/3 cell growth markers and angiogenic vascular endothelial growth factor (VEGF). Immunoreactivities were evaluated using H-score and analyzed using the one-way analysis of variance (ANOVA) test for statistics. It was found that these drugs caused a decrease in the immunoreactivities of these markers. Particularly, dual combination of Paclitaxel and Cisplatin decreased the immunoreactivities of PI3K, pErk-1/2, Akt-1, and pAkt-1/2/3. Cisplatin and Paclitaxel were more effective than Metformin; on the other hand, Metformin has been shown to enhance the efficacy of these two drugs. In vitro or in vivo further studies are needed to investigate the efficacy of these three drugs via PI3K/Akt signal pathway.
Citation - WoS: 2
Citation - Scopus: 2
Adrenomedullin Has No Effect on Segmental Bone Defect Healing but Increases Bone Mineral Density in Rat Model
(AVES, 2023) Kaymakoğlu, Mehmet; Ciftci, E.; Korkusuz, P.; Ozdemir, E.; Erden, M.E.; Turhan, E.
Objective: This study aimed to investigate the effect of adrenomedullin on the healing of the segmental bone defect in a rat model. Methods: Thirty-six Wistar rats were randomly divided into 6 groups based on follow-up periods and administered a dose of adreno-medullin hormone. In each group, bilaterally, a 2-mm bone defect was created at the diaphysis of the radius. Sodium chloride solution was administered to sham groups 3 times a week for 4 and 8 weeks intraperitoneally. Adrenomedullin was administered to the study groups 3 times a week: 15 μg—4 weeks, 15 μg—8 weeks, 30 μg—4 weeks, and 30 μg—8 weeks, respectively. After euthanasia, the segmental defects were evaluated by histomorphometric [new bone area (NBA)] and microtomographic [bone volume (BV), bone surface (BS), and bone mineral density (BMD)] analyses. Results: Although the 4-and 8-week 15 μg administered study groups had higher NBA values than the other study and control groups, the histomorphometric analysis did not reveal any statistical difference between the control and study groups regarding NBA (P >.05). In microtomographic analysis, BV was higher in the 15 μg 4-week group than 30 μg 4-week group (296.9 vs. 208.5, P =.003), and BS was lower in the 30 μg 4-week group than in the 4-week control group (695.5 vs. 1334.7, P =.005), but overall, no significant difference was found between the control and study groups (P >.05). Despite these minor differences in histomorphometric and microtomographic criteria indicating new bone formation, the BMD values of the 15 μg 8-week study group showed a significant increase compared with the control group (P =.001, respectively). Conclusion: Adrenomedullin positively affected BMD at 15 μg, but this study could not show healing in the segmental defect site at different dose regimens. Further studies are needed to assess its effects on bone tissue trauma. © 2023, AVES. All rights reserved.
Citation - WoS: 94
Citation - Scopus: 103
Affective Interpersonal Touch in Close Relationships: a Cross-Cultural Perspective
(Sage Publications Inc, 2021) Sorokowska, Agnieszka; Saluja, Supreet; Sorokowski, Piotr; Frackowiak, Tomasz; Karwowski, Maciej; Aavik, Toivo; Akello, Grace; Can, Seda
Interpersonal touch behavior differs across cultures, yet no study to date has systematically tested for cultural variation in affective touch, nor examined the factors that might account for this variability. Here, over 14,000 individuals from 45 countries were asked whether they embraced, stroked, kissed, or hugged their partner, friends, and youngest child during the week preceding the study. We then examined a range of hypothesized individual-level factors (sex, age, parasitic history, conservatism, religiosity, and preferred interpersonal distance) and cultural-level factors (regional temperature, parasite stress, regional conservatism, collectivism, and religiosity) in predicting these affective-touching behaviors. Our results indicate that affective touch was most prevalent in relationships with partners and children, and its diversity was relatively higher in warmer, less conservative, and religious countries, and among younger, female, and liberal people. This research allows for a broad and integrated view of the bases of cross-cultural variability in affective touch.
Citation - WoS: 2
Citation - Scopus: 2
Age-Related Aspects of Sex Differences in Event-Related Brain Oscillatory Responses: a Turkish Study
(Mdpi, 2024) Yener, Görsev; Kıyı, İlayda; Düzenli-Öztürk, Seren; Yerlikaya, Deniz
Earlier research has suggested gender differences in event-related potentials/oscillations (ERPs/EROs). Yet, the alteration in event-related oscillations (EROs) in the delta and theta frequency bands have not been explored between genders across the three age groups of adulthood, i.e., 18-50, 51-65, and >65 years. Data from 155 healthy elderly participants who underwent a neurological examination, comprehensive neuropsychological assessment (including attention, memory, executive function, language, and visuospatial skills), and magnetic resonance imaging (MRI) from past studies were used. The delta and theta ERO powers across the age groups and between genders were compared and correlational analyses among the ERO power, age, and neuropsychological tests were performed. The results indicated that females displayed higher theta ERO responses than males in the frontal, central, and parietal regions but not in the occipital location between 18 and 50 years of adulthood. The declining theta power of EROs in women reached that of men after the age of 50 while the theta ERO power was more stable across the age groups in men. Our results imply that the cohorts must be recruited at specified age ranges across genders, and clinical trials using neurophysiological biomarkers as an intervention endpoint should take gender into account in the future.
Citation - WoS: 6
Citation - Scopus: 6
Agreement Between Tele-Assessment and Face-To Assessment of 30-S Sit-To Test in Patients With Type 2 Diabetes Mellitus
(Springer London Ltd, 2023) Aktan, Ridvan; Yilmaz, Hayriye; Demir, Ismail; Ozalevli, Sevgi
Background The globalization of healthcare systems, and the aim to lower healthcare costs have all contributed to the growth of telehealth technology in recent years. However, before these systems are put into use, their efficacy should be verified. To the best of our knowledge, this is the first study focusing on the evaluation of functional exercise capacity using the 30-s sit-to-stand (30-s STS) test as a tele-assessment method in patients with type 2 diabetes mellitus (T2DM). Aims The purpose of the study is to investigate the level of agreement between tele-assessment and face-to-face assessment of 30-s STS test in patients with T2DM. Methods Fifty participants performed two times 30-s STS tests separated by 1 h: a face-to-face and an Internet-connected video call examination (tele-assessment). Two physiotherapists conduct these evaluations; each was blinded to the other. The order of the evaluations was designated at random for each participant and physiotherapist. Results There was a good level of agreement between tele-assessment and face-to-face assessment of the 30-s STS test (mean differences = 0.20 +/- 0.88, limits of agreement =1.93 to - 1.53). Excellent interrater reliability was found for scores of the 30-s STS test [ICC = 0.93 (95% CI: 0.88; 0.96)]. In addition, all before and after test parameters show that there was a very good interrater reliability (rho >= 0.75). Conclusions This study shows a good level of agreement between tele-assessment and face-to-face assessment of the 30-s STS test. Our study's findings indicate that tele-assessment is a potential application to determine the level of physical capacity remotely in patients with T2DM.
Citation - WoS: 1
Citation - Scopus: 1
Alterations of Store-Operated Calcium Entry and Cyclopiazonic Acid-Induced Endothelium-Derived Relaxations in Aging Rat Thoracic Aorta
(Akademiai Kiado Zrt, 2016) Erac, Y.; Selli, C.; Tosun, Metiner
The purpose of our study was to investigate whether endothelium-derived relaxations induced by store depletion are altered in aging rat thoracic aorta. Vascular responses were measured in aortic segments isolated from young (2-4 month) and old (20-24 month) male Sprague-Dawley rats. In phenylephrine-contracted intact tissues, receptor-mediated and receptor-independent endothelium-derived relaxations were induced by acetylcholine (ACh) and sarcoplasmic/endoplasmic reticulum Ca2+ ATPase (SERCA) blocker cyclopiazonic acid (CPA), respectively. In addition, CPA-induced changes in intracellular calcium levels were monitored in fura-2-loaded endothelium-denuded tissues. Real-time quantitative reverse transcription polymerase chain reaction and western blot analysis were performed to determine the transient receptor potential canonical (TRPC) 4 mRNA and protein levels. Endothelial TRPC4 mRNA levels were apparently decreased in aging rats. Immunoblot analysis showed that TRPC4 protein levels significantly decreased in intact aorta from 20- to 24-month-old rats compared to that from 2- to 4-month-old rats. ACh- and CPA-induced endothelium-dependent relaxations decreased in old rat aorta without any change in direct vasodilation induced by sodium nitroprusside. Store-operated Ca2+ entry (SOCE) induced by CPA was significantly decreased, whereas sarcoplasmic reticulum Ca2+ release was unaffected in endothelium-denuded aging rat aorta. In conclusion, TRPC4 downregulation could be associated with decreased endothelium-dependent vasorelaxations. As endothelial nitric oxide synthase is activated by SOCE-induced caveolar internalization, tracking the expression levels of SERCA, ion channels, and/or associated proteins involved in SOCE would lead to the development of novel therapeutics for age-related vasospastic disorders with dysfunctional endothelium.
Citation - WoS: 10
Citation - Scopus: 11
Alzheimer's Disease Research Progress in the Mediterranean Region: the Alzheimer's Association International Conference Satellite Symposium
(Wiley, 2022) Sexton, Claire; Solis, Michele; Aharon-Peretz, Judith; Alexopoulos, Panagiotis; Yener, Görsev; Bayen, Eleonore; Birkenhager, Betty
As research and services in the Mediterranean region continue to increase, so do opportunities for global collaboration. To support such collaborations, the Alzheimer's Association was due to hold its seventh Alzheimer's Association International Conference Satellite Symposium in Athens, Greece in 2021. Due to the COVID-19 pandemic, the meeting was held virtually, which enabled attendees from around the world to hear about research efforts in Greece and the surrounding Mediterranean countries. Research updates spanned understanding the biology of, treatments for, and care of people with Alzheimer's disease (AD_ and other dementias. Researchers in the Mediterranean region have outlined the local epidemiology of AD and dementia, and have identified regional populations that may expedite genetic studies. Development of biomarkers is expected to aid early and accurate diagnosis. Numerous efforts have been made to develop culturally specific interventions to both reduce risk of dementia, and to improve quality of life for people living with dementia.
Alzheimer's Imaging Consortium
(2025) Gonzalez-Gomez, R.; Hernandez, H.; Migeot, J.; Cruzat, J.; Legaz, A.; Fittipaldi, S.; Ibáñez, A.
BACKGROUND: While education is crucial for brain health, evidence mainly relies on individual measures of years of education (YoE), neglecting educational quality (EQ). Whether YoE and EQ have complementary impacts on aging and dementia is unknown. METHODS: We assessed the impact of EQ and YoE on brain health in 7,533 subjects from 20 countries, including healthy controls (HCs), Alzheimer's disease (AD), and frontotemporal lobar degeneration (FTLD). EQ was based on country-level quality indicators. After applying neuroimage harmonization, we examined their effect on gray matter volume and functional connectivity. Regression models were adjusted for age, sex, and cognition, controlling for multiple comparisons. The impact of image quality was controlled through sensitivity analysis. RESULTS: Less EQ and YoE were associated with greater brain burden across groups. However, EQ had a stronger impact, mainly targeting the vulnerable areas of each condition. At the whole-brain level, EQ influenced atrophy (HCs: ∆mean = 2.0 [1.9-2.0] CL95 × 10⁻², p < 10⁻⁵; AD: ∆mean = 0.1 [-0.0-0.3] CL95 × 10⁻², p = 0.18; FTLD: ∆mean = 3.5 [3.0-4.0] CL95 × 10⁻², p < 10⁻⁵) and networks (HCs: ∆mean = 13.5 [13.2-13.7] CL95 × 10⁻², p < 10⁻⁵; AD: ∆mean = 5.9 [5.2-6.7] CL95 × 10⁻², p < 10⁻⁵; FTLD: ∆mean = 13.2 [11.2-13.7] CL95 × 10⁻², p < 10⁻⁵), 1.3 to 7.0 times more than YoE. CONCLUSION: Results support the need to incorporate education quality to study and improve brain health, underscoring the importance of country-level measures. © 2025 The Alzheimer's Association. Alzheimer's & Dementia published by Wiley Periodicals LLC on behalf of Alzheimer's Association.
Citation - WoS: 2
Citation - Scopus: 2
Analysis of Nucleotide Changes in Rt-Pcr Primer/Probe Binding Regions in Sars-Cov Isolates Reported From Turkey
(Ankara Microbiology Soc, 2021) Demir, Ayse Banu; Bulgurcu, Alihan; Appak, Ozgur; Sayiner, Ayca Arzu
The 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.
Citation - WoS: 14
Citation - Scopus: 12
Analysis of Risk Factors Affecting Mortality in Elderly Patients Operated on for Hip Fractures: a Retrospective Comparative Study
(Turkish Assoc Orthopaedics Traumatology, 2021) Biçen, Ahmet Çağdaş; Akdemir, Mehmet; Turken, Mehmet Aykut; Cekok, Kubra; Ekin, Ahmet; Turan, Ahmet Cemil
Objective: The aims of this study were (1) to investigate the effects of different demographic and perioperative modalities on mortality rates and (2) to compare mortality rates between different implants in elderly patients operated on for hip fractures. Methods: In this retrospective study, a total of 314 patients who were operated on for hip fractures were included study. Patients were then divided into four groups based in their implant types: long-stem cementless bipolar hemiarthroplasty (n = 124; 102 female, 22 male; mean age = 84.2 +/- 6.4 years), standard-stem cementless bipolar hemiarthroplasty (n = 74; 48 female, 26 male; mean age = 83.5 +/- 6.9 years), antegrade intertrochanteric nail (n = 61; 35 female, 26 male; mean age = 78.5 +/- 6.8 years), and total hip arthroplasty (n = 55; 34 female, 21 male; mean age = 72.5 +/- 4.3 years). Data including gender, age, duration from injury to surgery, American Society of Anesthesiologists (ASA) score, comorbidities, use of antiplatelet agents, Barthel Index of Activities of Daily Living, type of anesthesia, operation time, preoperative hemoglobin values, blood transfusions given, duration of hospital stay, complications, and type of fracture were recorded. Results: Overall, the mean follow-up was 36.5 (range = 0 - 107) months. The overall mortality rate was 53.2%. The median survival duration was 44.2 +/- 5 months (range = 34.3 - 54). Survival rates were found significantly different among the groups (P = 0.001). In the first three years postoperatively, the mortality rate was higher in the standard-stem bipolar hemiarthroplasty group, but in the long-term follow-up, the long-stem bipolar hemiarthroplasty group exhibited the higher mortality rates. It was observed that some parameters had statistically significant effects on the mortality rates. Male gender, higher age, lower hemoglobin values, increased number of blood transfusions, ASA scores >= 3, the existence of >= 3 comorbidities were found as main predictors of increased mortality rates. Conclusion: The results of this study have shown that age, gender, preoperative hemoglobin levels, ASA scores, and comorbidities are significant factors affecting mortality in elderly patients operated on for hip fractures. Long-stem cementless bipolar hemiarthroplasty appears to show similar rates of mortality with standard-stem cementless bipolar hemiarthroplasty.
Citation - WoS: 1
Citation - Scopus: 3
Analysis of the Highest Altmetrics-Scored Articles in Emergency Medicine Journals
(Westjem, 2025) Bayram, Basak; Cetin, Murot; Limon, Onder; Long, Brit; Gottlieb, Michael
Introduction: Alternative metrics (altmetrics) have emerged as invaluable tools for assessing the influence of scholarly articles. In this study we aimed to evaluate correlations between Altmetric Attention Scores (AAS), and sources and actual citations in articles displaying the highest AAS within emergency medicine (EM) journals. Methods: We conducted an analysis of EM journals listed in the Science Citation Index Expanded (SCIE) using the Altmetric Explorer tool. We analyzed the journals that received the highest number of mentions, the sources of AAS, the regions most frequently mentioned, and the geographical distribution of mentions. In the subsequent stage of our analysis, we conducted an examination of the 200 top- ranked articles that had received high AAS and were published in SCIE EM journals from January 1, 2013-January 1, 2023. We sought to determine the correlations between the AAS and the citation counts of articles on Google Scholar and the Web of Science (WOS). Results: Of 40,840 research outputs evaluated, there were 510,047 shares across multiple platforms. The AAS were present for 36,719 articles (89.9%), while 10.1% had no score. In the review of the top 200 articles with the highest AAS, the median score was 382.5 (interquartile range 301.3-510.8). Of the research output evaluated, 38% were observational studies, 13% case reports, and 13% reviews/metaanalyses. The most common research topics were emergency department (ED) management and COVID-19. There was no correlation between AAS and WOS citation numbers (r(s) = -0.041, P = 0.563, 95% confidence interval [CI] -0.175-0.087). There was a weak correlation identified between WOS citations and mentions on X, and a moderate correlation observed for WOS citations and blog mentions (r(s) = 0.330, P < .001, 95% CI 0.174 to 0.458; r(s)(2) = 0.109, and r(s) = 0.452, P < .001, 95% CI 0.320-0.566; and r(s)(2) = 0.204, respectively). However, we found a strong positive correlation between WOS citations and the number of Mendeley readers (r(s) = 0.873, P < .001, 95% CI 0.82-0.911, r(s)(2) = 0.762). Conclusion: While most articles in EM journals received an AAS, we found no correlation with traditional citation metrics. However, Mendeley readership numbers showed a strong positive correlation with citation counts, suggesting that academic platform engagement may better predict scholarly impact.
Citation - WoS: 4
Citation - Scopus: 5
Analysis of Three Mutations in Italian Strains of Sars-Cov Implications for Pathogenesis
(Karger, 2021) Benvenuto, Domenico; Benedetti, Francesca; Demir, Ayse Banu; Ciccozzi, Massimo; Zella, Davide
Background: Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is an enveloped virus initially detected in Wuhan in December 2019, responsible for coronavirus disease 2019 (COVID-19), a respiratory syndrome currently affecting >220 countries around the world, with >80 million cases registered and >1.8 million deaths. Objective: As several vaccines are still being developed and 2 have been approved, it is particularly important to perform evolutionary surveillance to identify mutations potentially affecting vaccine efficacy. Methods: DynaMut server has been used to evaluate the impact of the mutation found on SARS-CoV-2 isolates available on GISAID. Results: In this article, we analyze whole genomes sequenced from Italian patients, and we report the characterization of 3 mutations, one of which presents in the spike protein. Conclusion: The mutations analyzed in this article can be useful to evaluate the evolution of SARS-CoV-2.
The Anatomy of a Decision: Exploring the Push, Pull, and Personal Factors of Emigration Intent Among Turkish Medical Students
(BMC, 2025) Aydin, Mevlut Okan; Caliskan, S. Ayhan; Ozkaya, Guven; Kumtepe, A. Sila; Aydin, Birnur; Alper, Zuleyha
BackgroundThe migration intentions of medical students, often referred to as "brain drain," pose a significant challenge to healthcare systems worldwide. This study aims to investigate the motivations for emigration, career preferences, and preparatory actions among medical students in T & uuml;rkiye, a country experiencing significant physician outflow. Methods A cross-sectional online survey was distributed to medical students across T & uuml;rkiye. The final sample included 1134 participants from 20 different medical faculties. Data were collected on demographics, motivations for studying medicine, specialty preferences, language proficiency, international experience, and intentions and preparations for working abroad or domestically. Results Motivations for studying medicine and specialty preferences differed significantly by gender. Female students were more driven by altruism and preferred nonsurgical specialties, whereas male students prioritized financial prospects, prestige, and surgical fields. The key predictors for intending to work abroad included higher parental education, advanced foreign language proficiency (especially English), and prior international experience. A third of the students (33%) expressed a desire to work abroad after graduation, with Germany, the UK, and the US being the top destinations. The primary push factors for emigration were demanding working conditions (70.8%), violence against healthcare professionals (64.1%), and systemic problems within the healthcare system (55.8%). A striking finding was 74.2% of the students who planned to stay in T & uuml;rkiye were also making preparations to leave, indicating a deep-seated lack of confidence in the domestic healthcare environment. Conclusion A significant proportion of Turkish medical students intend to practice abroad, driven primarily by push factors related to working conditions and safety. The widespread preparatory activities, even among those stating an intention to stay, suggest that brain drain is a tangible risk. Retaining this future physician workforce requires urgent, systemic interventions addressing working conditions, safety from violence, and career opportunities, particularly in research and academic medicine.
Citation - WoS: 40
Citation - Scopus: 46
Animals as Mobile Biological Sensors for Forest Fire Detection
(Mdpi, 2007) Sahin, Yasar Guneri
This paper proposes a mobile biological sensor system that can assist in early detection of forest fires one of the most dreaded natural disasters on the earth. The main idea presented in this paper is to utilize animals with sensors as Mobile Biological Sensors (MBS). The devices used in this system are animals which are native animals living in forests, sensors (thermo and radiation sensors with GPS features) that measure the temperature and transmit the location of the MBS, access points for wireless communication and a central computer system which classifies of animal actions. The system offers two different methods, firstly: access points continuously receive data about animals' location using GPS at certain time intervals and the gathered data is then classified and checked to see if there is a sudden movement (panic) of the animal groups: this method is called animal behavior classification (ABC). The second method can be defined as thermal detection (TD): the access points get the temperature values from the MBS devices and send the data to a central computer to check for instant changes in the temperatures. This system may be used for many purposes other than fire detection, namely animal tracking, poaching prevention and detecting instantaneous animal death.

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