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    Computer-Based Intelligent Solutions for the Diagnosis of Gastroesophageal Reflux Disease Phenotypes and Chicago Classification 3.0
    (MDPI, 2023) Dogan, Yunus; Bor, Serhat
    Gastroesophageal reflux disease (GERD) is a multidisciplinary disease; therefore, when treating GERD, a large amount of data needs to be monitored and managed.The aim of our study was to develop a novel automation and decision support system for GERD, primarily to automatically determine GERD and its Chicago Classification 3.0 (CC 3.0) phenotypes. However, phenotyping is prone to errors and is not a strategy widely known by physicians, yet it is very important in patient treatment. In our study, the GERD phenotype algorithm was tested on a dataset with 2052 patients and the CC 3.0 algorithm was tested on a dataset with 133 patients. Based on these two algorithms, a system was developed with an artificial intelligence model for distinguishing four phenotypes per patient. When a physician makes a wrong phenotyping decision, the system warns them and provides the correct phenotype. An accuracy of 100% was obtained for both GERD phenotyping and CC 3.0 in these tests. Finally, since the transition to using this developed system in 2017, the annual number of cured patients, around 400 before, has increased to 800. Automatic phenotyping provides convenience in patient care, diagnosis, and treatment management. Thus, the developed system can substantially improve the performance of physicians.
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    Designing of Refiux and Motility Database in Ege University Faculty of Medicine, Department of Gastroenterology and Making Analysis Based on Data Mining
    (Ieee, 2015) Dogan, Yunus; Yildirmaz, Gozde; Cansabuncu, Sena Goksu; Kut, Alp; Yilmaz, Reyat; Bor, Serhat; Alev, Yasemin; Ergin, Ali Murat
    The group of Ege Reflux has been had records of reflux patients and file system since 2000. However it hasn't database systems for patient files. In this study will provide to web based construct 6893 patient records which are tracking by Ege University faculty of medicine, group of study of reflux. There is no determined reflux software anywhere that is planned software. Therefore this software has a potential that may be used national or international units. The data can be transform interpretable data and transport to designed database that has come from patient tracking system. A data warehouse can be construct for web based decision support system that will develop by acquired data. With data mining algorithms will provide a decision support system that can give their analysis results to the physician. And it will provide a mechanism to perform data analysis. All kept in the archives of patient demographic information, lab results and tests in accordance with the patient information with security rules will be collected in a common database. This system will allow personnel of health to easily access the system by using different platforms. It also provides for entry of up-to-date information and rapid queries of patient information while the treatment process. This software will provide academic, operational, technological and economical a lots of benefits.
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    Eco - physiological behaviour of two woody oak species to combat desertification in the east Mediterranean-a case study from Lebanon
    (Elsevier Science Bv, 2011) Karam, Fadi; Doulis, Andreas; Ozturk, Munir; Dogan, Yunus; Sakcali, Serdal; Efe, R; Ozturk, M
    The Millennium Ecosystem Assessment scenarios as well as other global assessments have revealed that factors like climate change, land use changes, biotic interferences and atmospheric CO2 will be the major drivers of future biodiversity loss. This loss is important because it will lead to a loss of valuable genetic diversity as well, which is of paramount importance for well being of humans. The local species losses and extinctions are expected to take place at an even faster rate, which will directly affect local ecosystem functioning. However, the land-use change may play a more dominating role in the species loss at the global level during next 5 decades. This loss can vary between 7-25 percent depending on different biomes. Due to her existence in the Mediterranean Basin Lebanon is among one of the countires which has been severely suffering from changes in the land use and desertification, and will be affected much in future. Attempts should thus be made for obtaining detailed projections for the country. One of the ways to be followed is monitoring the efficiency of water use. Therefore in this study adaptation strategies of two typical woody oak species Quercus infectoria; a deciduous species; and Q. calliprinos; an evergreen species; to drought prone environments was studied in two different sites in Lebanon with high and low rainfall, during spring and autumn seasons. The water relations and photosynthetic behaviour of these species were investigated by conducting experiments in the field in order to assess their ecophysiological responses to water stress caused by increased drought. The leaves of Q. infectoria were bright green and larger than leaves of Q. calliprinos, allowing higher rates of photosynthesis and transpiration, but also resulting in low water use efficiency, regardless of site and season. Water stress reduced the rates of photosynthesis and transpiration in the course of the drying period in correspondence with an increase in vapour pressure deficit. The recovery of these two parameters in the autumn was correlated with a lowering of the air temperature and the saturation deficit of the atmosphere, for the same range of intercepted PAR. In all seasons, a mid-day depression in the photosynthesis and transpiration curves was due to stomata closure in response to water stress during the hottest hours of the day. These results are expected to enlighten the possibilities for future reclamation of degraded areas in the country. (C) 2011 Published by Elsevier Ltd. Selection and/or peer-review under responsibility of Recep Efe and Munir Ozturk
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    An ethnobotanical study in Midyat (Turkey), a city on the silk road where cultures meet
    (Bmc, 2018) Akgul, Ali; Akgul, Ayfer; Senol, Serdar G.; Yildirim, Hasan; Secmen, Ozcan; Dogan, Yunus
    Background: Studies of ethnobotanical usages in south-eastern Turkey are rare. To widen this field of knowledge, we conducted an ethnobotanical study in Midyat (Mardin Province), Turkey. Methods: The field study was completed during three years (2007-2010). Our aim was to document the ethnobotanical uses of local plants and to make an ethnobotanical inventory of uncommon plants using qualitative interviews. Results: During field studies, 368 voucher specimens were collected in the investigated area. Ninety-two traditionally used plant species were reported from Midyat and surrounding vicinities in Turkey. Among the 92 taxa (129 usages), 35% were used for medical purposes, 22% for food, 13% for animal fodder, 7% as ornamental plants and dyes, 6% as brooms, 4% for latex and as fragrance, 4% for herbal tea, molasses and wine preparation, 3% for agricultural purposes, and 6% for other purposes. Comparative assessment showed that Teucrium polium (0.51), Matricaria aurea (0.26), Alcea setosa (0.21), and Malva neglecta (0.21) have the highest recorded UVs, and the following taxa had UVs between 0.10-0.20: Anthemis cotula (0.12), Allium cepa (0.13), Alcea striata subsp. striata (0.14), Crupina crupinastrum (0.12), Papaver rhoeas (0.13), Salvia multicaulis (0.14), Thymbra spicata (0.11), and Vicia pannonica subsp. striata (0.15). We reported the ethnobotanical usages of 21 taxa for the first time, in addition to indicating usages previously recorded in the literature. We also recorded four endemic plant usages in the area: Alkanna trichophila var. mardinensis, Centaurea kurdica, Centaurea stapfiana, and Sideritis libanotica subsp. linearis. They have variable leaf and flower morphology that are used traditionally. They are present as well-developed populations and thus their conservation status is not compromised. Additionally, Thymbra sintenisii is a recorded species that is classified as a rare and extensively used species in the region. Conclusions: These results contribute to the fundamental knowledge of ethnobotanical usages in Midyat. To date, ethnobotanical studies have not been carried out in this region. This investigation uncovered usages of endemic medicinal plant species and traditional knowledge of Midyat communities living in a mixed culture. The people of Midyat, Batman, and Sirnak are Turkish citizens from various ethnic backgrounds, such as Kurdish, Arabic, and Syriac. We compared our data with results from other studies conducted in Turkey, particularly in south-eastern and eastern regions, as well as with studies from bordering countries, Iraq, Jordan, Syria, and Iran. Nonetheless, more work needs to be conducted to extend the present knowledge for locals to contribute to and evaluate economic potential in the region.