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Article ; Online: Treatment of Severe Acute Respiratory Syndrome Coronavirus 2: It Is Time to Produce Our Own Evidence Base.

Sayıner, Abdullah

Turkish thoracic journal

2020 Volume 21, Issue 4, Page(s) 283–284

Keywords	covid19
Language	English
Publishing date	2020-04-16
Publishing country	Turkey
Document type	Editorial
ISSN	2149-2530
ISSN (online)	2149-2530
DOI	10.5152/TurkThoracJ.2020.20.03
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Article ; Online: E-learning in clinical microbiology and infectious diseases.

Sayıner, A Arzu / Ergönül, Esin

Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases

2021 Volume 27, Issue 11, Page(s) 1589–1594

Abstract: Background: Becoming and staying competent is a challenge in clinical microbiology and infectious diseases because of dramatic increases in medical knowledge, discovery of new pathogens, emerging infections, new resistance mechanisms and laboratory ... ...

Abstract	Background: Becoming and staying competent is a challenge in clinical microbiology and infectious diseases because of dramatic increases in medical knowledge, discovery of new pathogens, emerging infections, new resistance mechanisms and laboratory techniques. E-learning is an effective way of meeting educational needs by providing more efficient and flexible training. E-learning resources have become more important to acquire new knowledge and skills, especially at a time of physical distancing. Objectives: This review aims to summarize the implementation of e-learning in clinical microbiology and infectious diseases with references to existing examples and resources. Sources: Literature and online resources for e-learning, online teaching/education in medical education, clinical microbiology and infectious diseases. Content: The principles and common methods of e-learning and frequently used digital tools are described. For all aspects of e-learning/distance learning, available resources and examples of applications in clinical microbiology and infectious diseases are presented. Implications: The techniques, tools and resources described in this article should be considered for the development and implementation of e-learning programmes in clinical microbiology and infectious disease training.
MeSH term(s)	Computer-Assisted Instruction ; Curriculum ; Education, Distance ; Humans ; Infectious Disease Medicine/education ; Learning ; Microbiology/education
Language	English
Publishing date	2021-05-28
Publishing country	England
Document type	Journal Article ; Review
ZDB-ID	1328418-6
ISSN	1469-0691 ; 1470-9465 ; 1198-743X
ISSN (online)	1469-0691
ISSN	1470-9465 ; 1198-743X
DOI	10.1016/j.cmi.2021.05.010
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Zs.A 4541: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (2.OG) ab Jg. 2022: Lesesaal (EG)
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Article: Treatment of Severe Acute Respiratory Syndrome Coronavirus 2: It Is Time to Produce Our Own Evidence Base

Sayiner, Abdullah

Keywords	covid19
Publisher	WHO
Document type	Article
Note	WHO #Covidence: #157975
Database	COVID19

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Article ; Online: Effectiveness of a Program to Raise Awareness About Pneumococcal Vaccination Among Physicians and Patients with Chronic Respiratory Diseases: A Multicenter Cohort Study.

Karakurt, Zühal / Yalnız, Enver / Altın, Sedat / Oruç, Özlem / Uslu, Özgür / Şimşek Veske, Nurdan / Kılınç, Oğuz / Kul, Seval / Sayıner, Abdullah

Thoracic research and practice

2024 Volume 25, Issue 2, Page(s) 75–81

Abstract: Objective: There is a need to increase patient and clinician awareness on the effectiveness of pneumococcal vaccination in at-risk groups. The aim of the study was to evaluate the effect of reminders for physicians and patients using the vaccination ... ...

Abstract	Objective: There is a need to increase patient and clinician awareness on the effectiveness of pneumococcal vaccination in at-risk groups. The aim of the study was to evaluate the effect of reminders for physicians and patients using the vaccination tracking system created in the hospital information management system (HIMS) on the vaccination rate, and the effect of pneumococcal vaccination on pneumonia-related hospitalization and mortality over a 12-month period. Material and methods: This prospective observational cohort study was undertaken during a 2-year period in 3 tertiary care centers. Patients were followed up for 12 months following vaccination, and hospital admissions and mortality were recorded via HIMS. During the campaign, HIMS transmitted pneumococcal immunization reminder messages in accordance with guideline recommendations to physicians' computers and patients' mobile phones. Educational posters on pneumococcal vaccination were posted in outpatient clinics. Regular seminars on the evidence for pneumococcal vaccination were organized. All patients who were hospitalized during the follow-up period for chronic obstructive pulmonary disease (COPD), asthma, lung cancer, or pneumonia were analyzed in relation to their vaccination history regarding clinical outcomes. Results: A total of 29530 patients were included in the study. During the study period, the annual vaccination rate increased by 74.4% and reached 4.8% in 3 hospitals (P = .001). The rates were 3.9% in patients older than 65 years without comorbidities and 5.2% in those with COPD and asthma (P = .002). In pneumococcal vaccine recipients, pneumonia-related hospital mortality was lower (relative risk (RR) = 0.19, CI 0.09-0.35, P < .001). Conclusion: It is possible to raise the rate of pneumococcal vaccination through awareness campaigns. Individuals with COPD and asthma are more willing to receive pneumococcal vaccination. Among patients hospitalized for pneumonia, prior pneumococcal vaccination is associated with lower mortalit.
Language	English
Publishing date	2024-03-07
Publishing country	Turkey
Document type	Journal Article
ISSN	2979-9139
ISSN (online)	2979-9139
DOI	10.5152/ThoracResPract.2024.23096
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Article ; Online: Effects of N-acetyl-L-cysteine against apical periodontitis in rats with adriamycin-induced cardiomyopathy and nephropathy.

Şehirli, Ahmet Özer / Aksoy, Umut / Sibai, Abdullah / Orhan, Kaan / Sayıner, Serkan

International endodontic journal

2023 Volume 57, Issue 2, Page(s) 195–207

Abstract: Aim: This study aimed to investigate the potential protective effects of N-acetyl-L-cysteine (NAC) against apical periodontitis (AP) in rats with adriamycin (ADR)-induced kidney and heart diseases.: Methodology: Fourty-eight Wistar albino rats were ... ...

Abstract	Aim: This study aimed to investigate the potential protective effects of N-acetyl-L-cysteine (NAC) against apical periodontitis (AP) in rats with adriamycin (ADR)-induced kidney and heart diseases. Methodology: Fourty-eight Wistar albino rats were divided into six groups: (1) Control group, (2) ADR group (1 mg/kg/day ip for 10 days), (3) AP Group (1st mandibular molar tooth), (4) AP + ADR Group, (5) AP + NAC group (150 mg/kg/day ip), and (6) AP + ADR + NAC group. After 3 weeks, the rats were decapitated and blood and tissue samples (heart, kidney, and jaw) were collected. Tissue samples were evaluated by biochemical (inflammatory cytokines and hemodynamic parameters) and radiological analyses. One-way anova with Tukey post hoc tests was used to compare data, considering p < .05 as statistically significant. Results: The serum levels of TNF-α, IL-1β, BUN, Creatinine, CK, and LDH were elevated in the test groups compared with the control group, and treatment with NAC reduced these levels (p < .05). Heart and kidney tissue analysis showed a higher heart-to-body weight ratio (HW/BW) and kidney-to-body weight ratio (KW/BW) in the test groups compared with the control group (p < .05). No significant differences in HW/BW and KW/BW were found between the control and AP + NAC groups. Volumetric apical bone resorption analysis showed an increase in periapical radiolucencies in AP-induced groups indicating apical periodontitis. NAC treatment reduced the total area and volume of resorption cavities (p < .05). Conclusions: The results suggest that NAC's antioxidant and anti-inflammatory effects can reduce adriamycin-mediated heart and kidney damage and may have a positive effect on apical periodontitis in individuals with nephropathy and cardiomyopathy.
MeSH term(s)	Rats ; Animals ; Rats, Wistar ; Acetylcysteine/pharmacology ; Acetylcysteine/therapeutic use ; Doxorubicin ; Periapical Periodontitis/chemically induced ; Periapical Periodontitis/drug therapy ; Cardiomyopathies/chemically induced ; Cardiomyopathies/drug therapy ; Body Weight
Chemical Substances	Acetylcysteine (WYQ7N0BPYC) ; Doxorubicin (80168379AG)
Language	English
Publishing date	2023-12-09
Publishing country	England
Document type	Journal Article
ZDB-ID	603734-3
ISSN	1365-2591 ; 0143-2885
ISSN (online)	1365-2591
ISSN	0143-2885
DOI	10.1111/iej.14010
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Zs.B 1508: Show issues

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Article ; Online: Effects of melatonin against experimentally induced apical periodontitis in rats.

Kırmızı, D / Sehirli, A Ö / Sayiner, S / Orhan, K / Sebai, A / Aksoy, U

Australian endodontic journal : the journal of the Australian Society of Endodontology Inc

2024

Abstract: Apical periodontitis is an inflammatory condition resulting from microbial invasion in the root canal system, causing periapical tissue destruction and bone resorption. This study investigated melatonin's effects, known for its antioxidant and anti- ... ...

Abstract	Apical periodontitis is an inflammatory condition resulting from microbial invasion in the root canal system, causing periapical tissue destruction and bone resorption. This study investigated melatonin's effects, known for its antioxidant and anti-inflammatory properties, on experimentally induced apical periodontitis in rats. Three groups of rats were studied: control, apical periodontitis and apical periodontitis with melatonin treatment. Proinflammatory cytokines and enzyme levels in blood serum were measured, and micro-CT analysis assessed bone resorption. Results showed significantly elevated cytokines and enzyme levels in the apical periodontitis group compared to the control. However, in the melatonin-treated group, these levels were significantly reduced (p < 0.01-0.001). Micro-CT analysis indicated decreased periapical resorption cavity volume and surface area with melatonin treatment. This suggests that systemic melatonin administration can mitigate inflammation and reduce bone resorption in experimentally induced apical periodontitis in rats, potentially holding promise for human endodontic disease treatment pending further research.
Language	English
Publishing date	2024-03-21
Publishing country	Australia
Document type	Journal Article
ZDB-ID	2146484-4
ISSN	1747-4477 ; 1329-1947
ISSN (online)	1747-4477
ISSN	1329-1947
DOI	10.1111/aej.12841
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Zs.A 5877: Show issues

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Article: Türkiye’den Bildirilen Sars-CoV-2 İzolatlarında RT-PCR Primer/Prob Bağlanma Bölgelerindeki Nükleotit Değişimlerinin Analizi.

Demir, Ayşe Banu / Bulgurcu, Alihan / Appak, Özgür / Sayıner, Ayça Arzu

Mikrobiyoloji bulteni

2021 Volume 55, Issue 3, Page(s) 311–326

Abstract: 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 ... ...

Title translation	Analysis of Nucleotide Changes in RT-PCR Primer/Probe Binding Regions in SARS-CoV-2 Isolates Reported from Turkey.
Abstract	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 İstanbul (n= 78), Ankara (n= 58), Kars (n= 47), Bursa (n= 2), Adıyaman (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.
MeSH term(s)	COVID-19 ; COVID-19 Testing ; Humans ; Nucleotides ; Reverse Transcriptase Polymerase Chain Reaction ; SARS-CoV-2 ; Sensitivity and Specificity ; Turkey
Chemical Substances	Nucleotides
Language	Turkish
Publishing date	2021-08-20
Publishing country	Turkey
Document type	Journal Article
ZDB-ID	985146-x
ISSN	0374-9096
ISSN	0374-9096
DOI	10.5578/mb.20219803
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Article ; Online: Clinical Outcome of PCR-Negative COVID-19 Patients: A Retrospective Study.

Sayıner, Abdullah / Tasbakan, Mehmet Sezai / Ergan, Begüm / Kılınç, Oğuz / Sayıner, Arzu / Sertoz, Ruchan / Ozuygur, Selin / Ercan, Selin / Savran, Yusuf / Korkmaz Ekren, Pervin / Başoğlu, Özen K / Özhan, Mustafa H

Turkish thoracic journal

2022 Volume 22, Issue 3, Page(s) 247–250

Abstract: Objective: To evaluate the clinical features and outcomes of patients who were admitted with a diagnosis of coronavirus disease 2019 (COVID-19) but who were not confirmed with polymerase chain reaction (PCR) positivity.: Material and methods: This is ...

Abstract	Objective: To evaluate the clinical features and outcomes of patients who were admitted with a diagnosis of coronavirus disease 2019 (COVID-19) but who were not confirmed with polymerase chain reaction (PCR) positivity. Material and methods: This is a retrospective analysis of all patients admitted to two tertiary care centers between March 15 and May 15, 2020, with a diagnosis of COVID-19. From a common database prepared for COVID-19, we retrieved the relevant data and compared the clinical findings and outcomes of PCR-positive patients with those of PCR-negative cases who had been diagnosed on the basis of typical clinical and radiographic findings. Results: A total of 349 patients were included in the analysis, of which 126 (36.1%) were PCR-negative. PCR-negative patients were younger (54.6 ± 20.8 vs. 60.8 ± 18.9 years, P = .009) but were similar to PCR-positive patients in terms of demographics, comorbidities, and presenting symptoms. They had higher lymphocyte counts (1519 ± 868 vs. 1331 ± 737/mm3, P = .02) and less frequently presented with bilateral radiographic findings (68.3% vs. 79.4%, P = .046) than PCR-positive patients. Besides, they had less severe disease and better clinical outcomes regarding admission to the intensive care unit (9.6% vs. 20.6%, P = .023), oxygen therapy (21.4% vs. 43.5%, P < .001), ventilatory support (3.2% vs. 11.2%, P = .03) and length of hospital stay (5.0 ± 5.0 vs. 9.7 ± 5.9 days, P < .001). Conclusion: This study confirms that about one-third of the COVID-19 patients are PCR-negative and diagnosed based on clinical and radiographic findings. These patients have a more favorable clinical course, shorter hospital stays, and are less frequently admitted to the intensive care unit.
Language	English
Publishing date	2022-01-30
Publishing country	Turkey
Document type	Journal Article
ISSN	2149-2530
ISSN (online)	2149-2530
DOI	10.5152/TurkThoracJ.2021.20284
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Article: Compare the efficacy and safety of long-acting anticholinergic and a combination of inhaled steroids and long-acting beta-2 agonist in moderate chronic obstructive pulmonary disease.

Saraç, Pınar / Sayıner, Abdullah

Tuberkuloz ve toraks

2016 Volume 64, Issue 2, Page(s) 112–118

Abstract: Introduction: The treatment of COPD (Chronic Obstructive Pulmonary Disease) aims to improve the patients's well-being and to reduce mortality, morbidity and the development of exacerbations. This study was thus designed to compare the efficacy and ... ...

Title translation	Orta evre kronik obstrüktif akciğer hastalığında uzun etkili antikolinerjik ile inhale steroid-uzun etkili beta agonistlerin etkinlik ve güvenliliklerinin karşılaştırılması.
Abstract	Introduction: The treatment of COPD (Chronic Obstructive Pulmonary Disease) aims to improve the patients's well-being and to reduce mortality, morbidity and the development of exacerbations. This study was thus designed to compare the efficacy and tolerability of salmeterol/fluticasone combination with tiotropium in patients with moderate COPD. Materials and methods: This was an open, prospective, randomized trial in COPD patients whose FEV1 (forced expiratory volume in 1 second) levels were between 80% and 50% predicted. A total of 44 patients who met the inclusion and exlusion criteria and who gave written informed consent were included in the study. At the end of the two week wash-out period, the patients were randomized to receive either salmeterol 50 µg/fluticasone 500 µg combination as dry powder inhaler twice daily (SF Group) or tiotropium dry powder inhaler 18 µg once daily (T Group) for one year. These were equally distributed in the two groups (22 patients in each study group). At follow-up, the patients were required to come to the outpatient clinic at the third, sixth, ninth and twelfth months. Result: There were no statistically significant difference between the two groups with regards to demographic features and baseline measurements. There were 1.2 ± 1.7 exacerbations in SF Group and 2.1 ± 2.2 exacerbations in T Group (p= 0.070). The time to the first exacerbation was 4.2 ± 4.0 and 4.2 ± 3.3 months, respectively (p= 0.697). The number of severe exacerbations that resulted in admission to the emergency department or hospital was 0.6 ± 1.0 and 1.1 ± 1.4, respectively (p= 0.245). Significant improvements were observed in CAT (CPOD Assessment Test) scores in both groups during the treatment period (p< 0.0001); but there was no difference between the two groups. Conclusions: This study has shown that in patients with moderate COPD, treatment with combined corticosteroid and long-acting beta-2 agonist provides similar improvements in pulmonary function tests, patient-reported outcomes and exercise capacity as compared a long-acting anticholinergics.
MeSH term(s)	Administration, Inhalation ; Adrenal Cortex Hormones/therapeutic use ; Adrenergic beta-2 Receptor Agonists/therapeutic use ; Adult ; Aged ; Bronchodilator Agents/therapeutic use ; Cholinergic Antagonists/therapeutic use ; Drug Administration Schedule ; Drug Therapy, Combination ; Dry Powder Inhalers ; Female ; Forced Expiratory Volume ; Humans ; Male ; Middle Aged ; Prospective Studies ; Pulmonary Disease, Chronic Obstructive/drug therapy ; Quality of Life ; Respiratory Function Tests
Chemical Substances	Adrenal Cortex Hormones ; Adrenergic beta-2 Receptor Agonists ; Bronchodilator Agents ; Cholinergic Antagonists
Language	English
Publishing date	2016-08-01
Publishing country	Turkey
Document type	Journal Article ; Randomized Controlled Trial
ZDB-ID	2468802-2
ISSN	0494-1373
ISSN	0494-1373
DOI	10.5578/tt.10778
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Zs.A 6702: Show issues

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Article ; Online: Investigation of Cytomegalovirus in Intestinal Tissue in a Country With High CMV Seroprevalence.

Hazır-Konya, Hande / Avkan-Oğuz, Vildan / Akpınar, Hale / Sağol, Özgül / Sayıner, Arzu

The Turkish journal of gastroenterology : the official journal of Turkish Society of Gastroenterology

2021 Volume 32, Issue 2, Page(s) 123–132

Abstract: Background: In Turkey, cytomegalovirus (CMV) seropositivity has been reported to be high, between 85 and 100%. CMV has been responsible for disease exacerbation in inflammatory bowel disease (IBD). We aimed to evaluate the presence of CMV in intestinal ... ...

Abstract	Background: In Turkey, cytomegalovirus (CMV) seropositivity has been reported to be high, between 85 and 100%. CMV has been responsible for disease exacerbation in inflammatory bowel disease (IBD). We aimed to evaluate the presence of CMV in intestinal tissue by immunohistochemical staining in IBD and non-IBD patient groups, in a country with high CMV seroprevalence. Methods: In this prospective cross-sectional study, the presence of intestinal CMV was investigated with tissue immunohistochemistry (IHC) staining, which is accepted as the gold standard method, and with polymerase chain reaction (PCR) in tissue and blood. Patients (≥18 years old, n = 189) who had a colonoscopic biopsy between January and May 2017 were included in the study at our hospital. Clinical, laboratory, endoscopic, and histopathological data of patients were assessed by dividing them into IBD (n = 34) and non-IBD (n = 155) groups. Results: In this study, 567 colonic biopsy samples from 189 patients were evaluated. Tissue IHC staining was positive for 3 (1.58%) non-IBD patients. One of them was diagnosed as CMV ileitis. CMV DNA was also detected in 14 plasma (7.40%, <80-469 copies/mL) and 20 tissue samples (10.69%, 7-15 289 copies/mL). Tissue IHC staining is accepted as the gold standard for CMV ileitis, and the sensitivity and specificity of tissue PCR was 33% and 89.67%, while the sensitivity and specificity of plasma PCR was 66.66% and 93.54%, respectively. Conclusion: Although CMV seroprevalence is high in Turkey, CMV ileitis was diagnosed in only one non-IBD patient (0.53%). Compared to tissue IHC staining, the sensitivity of tissue and blood CMV PCR was low while their specificity was higher.
MeSH term(s)	Adolescent ; Colitis ; Cross-Sectional Studies ; Cytomegalovirus/genetics ; Cytomegalovirus Infections/epidemiology ; DNA, Viral ; Humans ; Ileitis ; Inflammatory Bowel Diseases/epidemiology ; Prospective Studies ; Seroepidemiologic Studies
Chemical Substances	DNA, Viral
Language	English
Publishing date	2021-05-07
Publishing country	Turkey
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	1340275-4
ISSN	2148-5607 ; 1300-4948
ISSN (online)	2148-5607
ISSN	1300-4948
DOI	10.5152/tjg.2021.191008
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