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Article ; Online: Author`s Reply.

Özel, Erdem

2017 Volume 17, Issue 1, Page(s) 75–76

Language	English
Publishing date	2017-01-31
Publishing country	Turkey
Document type	Letter ; Comment
ZDB-ID	2278670-3
ISSN	2149-2271 ; 2149-2263
ISSN (online)	2149-2271
ISSN	2149-2263
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Article ; Online: Achieving pan-microbiome biological insights via the dbBact knowledge base.

Amir, Amnon / Ozel, Eitan / Haberman, Yael / Shental, Noam

Nucleic acids research

2023 Volume 51, Issue 13, Page(s) 6593–6608

Abstract: 16S rRNA amplicon sequencing provides a relatively inexpensive culture-independent method for studying microbial communities. Although thousands of such studies have examined diverse habitats, it is difficult for researchers to use this vast trove of ... ...

Abstract	16S rRNA amplicon sequencing provides a relatively inexpensive culture-independent method for studying microbial communities. Although thousands of such studies have examined diverse habitats, it is difficult for researchers to use this vast trove of experiments when interpreting their own findings in a broader context. To bridge this gap, we introduce dbBact - a novel pan-microbiome resource. dbBact combines manually curated information from studies across diverse habitats, creating a collaborative central repository of 16S rRNA amplicon sequence variants (ASVs), which are assigned multiple ontology-based terms. To date dbBact contains information from more than 1000 studies, which include 1500000 associations between 360000 ASVs and 6500 ontology terms. Importantly, dbBact offers a set of computational tools allowing users to easily query their own datasets against the database. To demonstrate how dbBact augments standard microbiome analysis we selected 16 published papers, and reanalyzed their data via dbBact. We uncovered novel inter-host similarities, potential intra-host sources of bacteria, commonalities across different diseases and lower host-specificity in disease-associated bacteria. We also demonstrate the ability to detect environmental sources, reagent-borne contaminants, and identify potential cross-sample contaminations. These analyses demonstrate how combining information across multiple studies and over diverse habitats leads to better understanding of underlying biological processes.
MeSH term(s)	Bacteria/genetics ; DNA, Bacterial/genetics ; Microbiota/genetics ; RNA, Ribosomal, 16S/genetics ; Sequence Analysis, DNA/methods ; Knowledge Bases
Chemical Substances	DNA, Bacterial ; RNA, Ribosomal, 16S
Language	English
Publishing date	2023-06-15
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	186809-3
ISSN	1362-4962 ; 1362-4954 ; 0301-5610 ; 0305-1048
ISSN (online)	1362-4962 ; 1362-4954
ISSN	0301-5610 ; 0305-1048
DOI	10.1093/nar/gkad527
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Zs.A 1067: Show issues

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Article ; Online: The Missing STEMIs and Lifestyle Changes During the COVID-19 Pandemic.

Bilgin Dogan, Nazile / Ozel, Erdem

Asia-Pacific journal of public health

2021 Volume 33, Issue 2-3, Page(s) 296–298

Language	English
Publishing date	2021-02-25
Publishing country	China
Document type	Journal Article
ZDB-ID	1025444-4
ISSN	1941-2479 ; 1010-5395
ISSN (online)	1941-2479
ISSN	1010-5395
DOI	10.1177/1010539521996617
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Zs.A 2802: Show issues

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Book ; Online: Modeling the Small-World Phenomenon with Road Networks

Goodrich, Michael T. / Ozel, Evrim

2022

Abstract: Dating back to two famous experiments by the social-psychologist, Stanley Milgram, in the 1960s, the small-world phenomenon is the idea that all people are connected through a short chain of acquaintances that can be used to route messages. Many ... ...

Abstract	Dating back to two famous experiments by the social-psychologist, Stanley Milgram, in the 1960s, the small-world phenomenon is the idea that all people are connected through a short chain of acquaintances that can be used to route messages. Many subsequent papers have attempted to model this phenomenon, with most concentrating on the "short chain" of acquaintances rather than their ability to efficiently route messages. In this paper, we study the small-world navigability of the U.S. road network, with the goal of providing a model that explains how messages in the original small-world experiments could be routed along short paths using U.S. roads. To this end, we introduce the Neighborhood Preferential Attachment model, which combines elements from Kleinberg's model and the Barab\'asi-Albert model, such that long-range links are chosen according to both the degrees and (road-network) distances of vertices in the network. We empirically evaluate all three models by running a decentralized routing algorithm, where each vertex only has knowledge of its own neighbors, and find that our model outperforms both of these models in terms of the average hop length. Moreover, our experiments indicate that similar to the Barab\'asi-Albert model, networks generated by our model are scale-free, which could be a more realistic representation of acquaintanceship links in the original small-world experiment.
Keywords	Computer Science - Data Structures and Algorithms
Subject code	000
Publishing date	2022-09-20
Publishing country	us
Document type	Book ; Online
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Article ; Online: Right Ventricular Blood Cyst in an Adult Autosomal Dominant Polycystic Kidney Disease Patient:<br /> An Unusual Association.

Simsek, Ersin Cagri / Oncel, Dilek / Ozel, Erdem

Journal of the College of Physicians and Surgeons--Pakistan : JCPSP

2021 Volume 31, Issue 12, Page(s) 1500–1502

Abstract: Blood cysts of the heart are unusual primary cardiac tumor-like masses, which are usually located on the cardiac valves. These are very rare in adults, especially in a non-valvular location. Autosomal-dominant polycystic kidney disease (ADPKD) typically ... ...

Abstract	Blood cysts of the heart are unusual primary cardiac tumor-like masses, which are usually located on the cardiac valves. These are very rare in adults, especially in a non-valvular location. Autosomal-dominant polycystic kidney disease (ADPKD) typically presents with multiple bilateral renal cysts, resulting in chronic kidney disease. Whilst many of the extra-renal manifestations of ADPKD are well-documented, associated cardiac masses are extremely rare: and cardiac blood cyst has not been reported in a patient with APKD to date. We present a 57-year man with a history of ADPKD and end-stage renal disease with a 2-cm-diameter right ventricular blood cyst, which was detected on multimodality imaging. Key words: Autosomal dominant polycystic kidney disease, Cardiac blood cyst, Extra-renal manifestations.
MeSH term(s)	Adult ; Cysts/diagnostic imaging ; Female ; Humans ; Kidney ; Kidney Failure, Chronic ; Male ; Polycystic Kidney, Autosomal Dominant/complications ; Polycystic Kidney, Autosomal Dominant/diagnostic imaging ; Vascular Diseases
Language	English
Publishing date	2021-11-15
Publishing country	Pakistan
Document type	Case Reports
ZDB-ID	2276646-7
ISSN	1681-7168 ; 1022-386X
ISSN (online)	1681-7168
ISSN	1022-386X
DOI	10.29271/jcpsp.2021.12.1500
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Article: Myocardial Protection in Cardiac Surgery: Exploring the Influence of Anesthetic Agents.

Dost, Burhan / Turunc, Esra / Sarikaya Ozel, Elif / Aydın, Muhammed Enes / Karapinar, Yunus Emre / Beldagli, Muzeyyen / De Cassai, Alessandro

The Eurasian journal of medicine

2024 Volume 55, Issue 1, Page(s) 138–141

Abstract: This review assesses the efficacy of inhalation anesthetics and propofol in cardiac surgery, primarily focusing on their impact on myocardial protection and subsequent clinical outcomes. The review provides a concise summary of the current scientific ... ...

Abstract	This review assesses the efficacy of inhalation anesthetics and propofol in cardiac surgery, primarily focusing on their impact on myocardial protection and subsequent clinical outcomes. The review provides a concise summary of the current scientific information regarding the protective efects of inhalation anesthetics and propofol, particularly in the context of ischemia-reperfusion injury during cardiac surgery. The review delves into the mechanisms of action and discusses clinical studies comparing the 2 anesthetic strategies regarding mortality, complication rates, and length of hospital stay. Inhalation anesthetics exhibit cardioprotective properties through many mechanisms, such as preconditioning, scavenging of free radicals, and stabilizing mitochondria. Propofol demonstrates certain protective benefits but does not possess the preconditioning capability of inhalation medications. Clinical investigations yield contradictory findings, as several studies indicate enhanced outcomes with inhalation anesthetics, while others observe no substantial disparity between the 2 approaches. The cardioprotective efcacy of propofol against ischemia-reperfusion injury remains limited. While its inherent antioxidant properties ofer direct myocardial protection, propofol demonstrably lacks the preconditioning-mediated signaling pathways triggered by inhalation anesthetics. As a result, propofol's protective efect may be slightly inferior to preconditioning strategies, and its potential to inhibit organ-protective impact of other interventions needs further investigation. The question of which anesthetic approach ofers superior myocardial protection remains debatable. Current evidence is inconclusive, potentially due to patient heterogeneity, surgical complexity, and methodological limitations of existing studies. Future research, including pharmacogenetic studies and large, welldesigned, randomized controlled trials, are necessary to provide definitive guidance on anesthetic selection for optimal myocardial protection in cardiac surgery.
Language	English
Publishing date	2024-05-17
Publishing country	Turkey
Document type	Journal Article
ZDB-ID	2577670-8
ISSN	1308-8742 ; 1308-8734
ISSN (online)	1308-8742
ISSN	1308-8734
DOI	10.5152/eurasianjmed.2023.23376
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Article ; Online: Vitamin D Knowledge, Attitudes, and Behaviors in Young Danish Women with a Non-Western Ethnic Minority Background-A Questionnaire Survey.

Özel, Erdinc / Cantarero-Arevalo, Lourdes / Jacobsen, Ramune

International journal of environmental research and public health

2020 Volume 17, Issue 21

Abstract: The prevalence of vitamin D deficiency in women with a non-Western ethnic minority background in Nordic countries is high. The aim of this study was to assess vitamin D knowledge, attitudes, and behaviors in women with a non-Western ethic minority ... ...

Abstract	The prevalence of vitamin D deficiency in women with a non-Western ethnic minority background in Nordic countries is high. The aim of this study was to assess vitamin D knowledge, attitudes, and behaviors in women with a non-Western ethic minority background living in Denmark. A validated vitamin D knowledge, attitudes, and behaviors' questionnaire was translated into Danish, piloted, and distributed via relevant Facebook groups. The responses were analyzed using parametric and non-parametric tests for descriptive and bivariate analyses. In total, 254 women who considered themselves having a non-Western ethnic minority background responded to the questionnaire. The median age (IQR) was 25 (23-33) years old; 32% had a professional bachelor's, 28% had high school, and 22% had a master's or higher university education. Participants scored higher on vitamin D general knowledge (scores above 80 on the scale 0-100) compared to vitamin D nutrition knowledge or vitamin D attitudes and behaviors (scores around 60 on the scale 0-100). In conclusion, the vitamin D knowledge among study participants-i.e., young well-educated non-Western ethnic minority women in Denmark-was pretty good. The further examination of vitamin D knowledge, attitudes, and behaviors should explore specifics related to nationality and religion and focus on less-educated non-Western ethnic minority women in Denmark and other Nordic countries.
MeSH term(s)	Adolescent ; Adult ; Denmark ; Ethnic Groups/statistics & numerical data ; Female ; Health Knowledge, Attitudes, Practice ; Humans ; Middle Aged ; Minority Groups/statistics & numerical data ; Surveys and Questionnaires ; Vitamin D ; Vitamin D Deficiency/ethnology ; Young Adult
Chemical Substances	Vitamin D (1406-16-2)
Language	English
Publishing date	2020-11-01
Publishing country	Switzerland
Document type	Journal Article
ISSN	1660-4601
ISSN (online)	1660-4601
DOI	10.3390/ijerph17218053
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Book ; Online: Diamonds are Forever in the Blockchain

Barequet, Gill / Fukuzawa, Shion / Goodrich, Michael T. / Mount, David M. / Osegueda, Martha C. / Ozel, Evrim

Geometric Polyhedral Point-Set Pattern Matching

2022

Abstract: Motivated by blockchain technology for supply-chain tracing of ethically sourced diamonds, we study geometric polyhedral point-set pattern matching as minimum-width polyhedral annulus problems under translations and rotations. We provide two $(1 + \ ... ...

Abstract	Motivated by blockchain technology for supply-chain tracing of ethically sourced diamonds, we study geometric polyhedral point-set pattern matching as minimum-width polyhedral annulus problems under translations and rotations. We provide two $(1 + \varepsilon)$-approximation schemes under translations with $O(\varepsilon^{-d} n)$-time for $d$ dimensions and $O(n\log \varepsilon^{-1} + \varepsilon^{-2})$-time for two dimensions, and we give an $O(f^{d-1}\varepsilon^{1-2d}n)$-time algorithm when also allowing for rotations, parameterized on $f$, which we define as the slimness of the point set. Comment: 8 pages, 5 figures, To appear in 34th Canadian Conference on Computational Geometry
Keywords	Computer Science - Computational Geometry
Publishing date	2022-08-10
Publishing country	us
Document type	Book ; Online
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Article ; Online: Factors affecting sports-related orofacial injuries and the importance of mouthguards.

Tuna, Elif Bahar / Ozel, Emre

Sports medicine (Auckland, N.Z.)

2014 Volume 44, Issue 6, Page(s) 777–783

Abstract: Sports dentistry is one of the most recent and upcoming fields in dentistry. It includes mainly the prevention and management of sports-related orofacial injuries and associated oral diseases or traumas. The dentist can play a critical role in informing ... ...

Abstract	Sports dentistry is one of the most recent and upcoming fields in dentistry. It includes mainly the prevention and management of sports-related orofacial injuries and associated oral diseases or traumas. The dentist can play a critical role in informing athletes, coaches, and patients and their parents about the importance of prevention, treatment, and diagnosis for orofacial injuries in sports. The most significant aspect in preventing sports-related orofacial injuries is wearing basic protective devices such as properly fitting helmets, face masks, and/or mouthguards. A properly fitted mouthguard prevents violent contact between the upper and lower dentition. According to the American Society for Testing and Materials, there are three types of mouthguards: custom-fabricated mouthguards, mouth-formed guards, and stock mouthguards. Essential properties of the various materials used in the manufacture of mouthguards include water absorption, density, and thickness as well as temperature transmission, energy absorption, and drawing strength (tensile strength) of custom-made mouthguards. Currently, a variety of materials is being used for mouthguards, most commonly polyvinyl acetate-polyethylene copolymer or ethylene vinyl acetate copolymer and polyvinyl chloride. Mouthguard use is significant for athletes, since dentists play an important role in the design and application of these in clinical practice. The purpose of this article is to review the importance of mouthguard use, the incidence and location of orofacial sports injuries, the risk factors for such injuries, and the types of mouthguards and their roles in the prevention of sports-related orofacial injuries.
MeSH term(s)	Age Factors ; Athletic Injuries/epidemiology ; Athletic Injuries/prevention & control ; Equipment Design ; Facial Injuries/epidemiology ; Facial Injuries/prevention & control ; Humans ; Incidence ; Mouth/injuries ; Mouth Protectors ; Risk Factors
Language	English
Publishing date	2014-03-20
Publishing country	New Zealand
Document type	Journal Article ; Review
ZDB-ID	605911-9
ISSN	1179-2035 ; 0112-1642
ISSN (online)	1179-2035
ISSN	0112-1642
DOI	10.1007/s40279-014-0167-9
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Article ; Online: The treatment of chromium containing wastewater using electrocoagulation and the production of ceramic pigments from the resulting sludge.

Tezcan Un, Umran / Onpeker, Suzan Eroglu / Ozel, Emel

Journal of environmental management

2017 Volume 200, Page(s) 196–203

Abstract: This research experimentally investigates the treatment of authentic electroplating wastewater with high Cr(VI) content by electrocoagulation with the obtained sludge being reused as a raw material to produce inorganic pigments. A zero waste process is ... ...

Abstract	This research experimentally investigates the treatment of authentic electroplating wastewater with high Cr(VI) content by electrocoagulation with the obtained sludge being reused as a raw material to produce inorganic pigments. A zero waste process is introduced to help conserve resources and to minimize environmental effects. The effects of operational parameters on electrocoagulation are determined in a batch stirred reactor using an iron electrode. The best performance was observed when a current density 20 mA/cm
Language	English
Publishing date	2017-09-15
Publishing country	England
Document type	Journal Article
ZDB-ID	184882-3
ISSN	1095-8630 ; 0301-4797
ISSN (online)	1095-8630
ISSN	0301-4797
DOI	10.1016/j.jenvman.2017.05.075
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