Browsing by Author "Özen, Mustafa"
Now showing items 1-20 of 33
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Alpha-B-crystallin expression in human laryngeal squamous cell carcinoma tissues
Yılmaz, Mehmet; Karataş, Ömer Faruk; Yücetürk, Betül; Dağ, Hüseyin; Yener, Murat; Özen, Mustafa (Wiley, 2015)BackgroundLaryngeal squamous cell carcinoma (SCC), being an aggressive malignancy, is one of the most commonly diagnosed malignant types of head and neck SCC worldwide. The recent studies suggested that B-crystallin might ... -
The altered promoter methylation of oxytocin receptor gene in autism
Yüksel, Mine Elagöz; Yücetürk, Betül; Karataş, Ömer Faruk; Özen, Mustafa; Doğangün, Burak (Taylor & Francis Ltd, 2016)Autism spectrum disorder (ASD) is one of the lifelong existing disorders. Abnormal methylation status of gene promoters of oxytonergic system has been implicated as among the etiologic factors of ASDs. We, therefore, ... -
An application of black hole algorithm and decision tree for medical problem
Pashaei, Elnaz; Özen, Mustafa; Aydın, Nizamettin (Institute of Electrical and Electronics Engineers Inc., 2015)In this study, we propose a novel method for medical data classification, it is the integration of new heuristic algorithm that get inspired the black hole phenomenon called as Black Hole Algorithm (BHA) and decision tree ... -
Biomarker discovery based on BBHA and adaboostM1 on microarray data for cancer classification
Pashaei, Elnaz; Özen, Mustafa; Aydın, Nizamettin (IEEE, 2016)In this paper, a new approach based on Binary Black Hole Algorithm (BBHA) and Adaptive Boosting version M1 (AdaboostM1) is proposed for finding genes that can classify the group of cancers correctly. In this approach, BBHA ... -
Circulating miR-21 and eNOS in subclinical atherosclerosis in patients with hypertension
Cengiz, Mahir; Yavuzer, Serap; Avcı, Burçak Kılıçkıran; Yürüyen, Mehmet; Yavuzer, Hakan; Dikici, Süleyman Atilla; Karataş, Ömer Faruk; Özen, Mustafa; Uzun, Hafize; Öngen, Zeki (Taylor & Francis Inc., 2015)Objectives: The aim of this study is to evaluate the relationship of miR-21, nitric oxide (NOx) and endothelial nitric oxide synthase (eNOS) with subclinical atherosclerosis in carotid arteries by measuring carotid intima ... -
Designing a gold nanoparticle-based nanocarrier for microRNA transfection into the prostate and breast cancer cells
Ekin, Aslı; Karataş, Ömer Faruk; Culha, Mustafa; Özen, Mustafa (Wiley-Blackwell, 2014)BackgroundCancer is one of the most common causes of human deaths worldwide. Nanotechnology has the potential to facilitate the detection, diagnosis, and treatment of cancer cases. Successful delivery of nucleic acids into ... -
Differential expression of hypertension-associated microRNAs in the plasma of patients with white coat hypertension
Cengiz, Mahir; Karataş, Ömer Faruk; Koparır, Erkan; Yavuzer, Serap; Ali, Chayar; Yavuzer, Hakan; Kırat, Emre; Karter, Yesari; Özen, Mustafa (Wolters Kluwer Health, 2015)White coat hypertension (WCH) is a high cardiovascular risk condition, and a fundamental understanding of the cause and pathophysiology of the disorder is still lacking. Recent studies demonstrated that microRNAs (miRNAs) ... -
Differential expression of LOXL4 in normal and tumour tissue samples of laryngeal squamous cell carcinoma
Yılmaz, Mustafa; Suer, İlknur; Karataş, Ömer Faruk; Cansız, Harun; Özen, Mustafa (Wiley-Blackwell, 2016)Objective: Head and neck cancer is the sixth most common cancer in worldwide with an increasing incidence rate in recent years. LOXL4 is expressed in several tissues, and its expression has been shown to display a significant ... -
Differential expression of stem cell markers and ABCG2 in recurrent prostate cancer
Güzel, Esra; Karataş, Ömer Faruk; Düz, Mehmet Buğrahan; Solak, Mustafa; Ittmann, Michael; Özen, Mustafa (Wiley-Blackwell, 2014)Background. Prostate cancer (PCa) is the second most common tumor type related to mortality in males in the developed countries. Studies have demonstrated that therapeutic tools mostly ineffective to give positive outcome ... -
Gene selection and classification approach for microarray data based on random forest ranking and BBHA
Pashaei, Elnaz; Özen, Mustafa; Aydın, Nizamettin (IEEE, 2016)In this paper, a novel approach based on Binary Black Hole Algorithm (BBHA) and Random Forest Ranking (RFR) is proposed for gene selection and classification of microarray data. In this approach, RFR and BBHA are used to ... -
Genes that affect brain structure and function identified by rare variant analyses of mendelian neurologic disease
Karaca, Ender; Harel, Tamar; Pehlivan, Davut; Jhangiani, Shalini N.; Gambin, Tomasz; Akdemir, Zeynep Çoban; Gonzaga-Jauregui, Claudia; Erdin, Serkan; Bayram, Yavuz; Campbell, Ian M.; Hunter, Jill V.; Atik, Mehmed M.; Van Esch, Hilde; Yuan, Bo; Wiszniewski, Wojciech; Işıkay, Sedat; Yeşil, Gözde; Yüregir, Özge Özallp; Bozdoğan, Sevcan Tuğ; Aslan, Hüseyin; Aydın, Hatip; Tos, Tülay; Aksoy, Ayşe; De Vivo, Darryl C.; Jain, Preti; Geçkinli, B. Bilge; Sezer, Özlem; Gül, Davut; Durmaz, Burak; Coğulu, Özgür; Özkınay, Ferda; Topçu, Vehap; Candan, Şükrü; Çebi, Alper Han; İkbal, Mevlit; Güleç, Elif Yılmaz; Gezdirici, Alper; Koparır, Erkan; Ekici, Fatma; Coşkun, Salih; Çiçek, Salih; Karaer, Kadri; Koparır, Asuman; Düz, Mehmet Buğrahan; Kırat, Emre; Fenercioğlu, Elif; Ulucan, Hakan; Seven, Mehmet; Güran, Tülay; Elçioğlu, Nursel; Yıldırım, Mahmut Selman; Aktaş, Dilek; Alikaşifoğlu, Mehmet; Türe, Mehmet; Yakut, Tahsin; Overton, John D.; Yüksel, Adnan; Özen, Mustafa; Muzny, Donna M.; Adams, David R.; Boerwinkle, Eric; Chung, Wendy K.; Gibbs, Richard A.; Lupski, James R. (Cell Press, 2015)Development of the human nervous system involves complex interactions among fundamental cellular processes and requires a multitude of genes, many of which remain to be associated with human disease. We applied whole exome ... -
Identification of microRNAs differentially expressed in prostatic secretions of patients with prostate cancer
Güzel, Esra; Karataş, Ömer Faruk; Semerciöz, Atilla; Ekici, Sinan; Aykan, Serdar; Yentur, Serhat; Creighton, Chad J.; Ittmann, Michael; Özen, Mustafa (Wiley-Blackwell, 2015)Prostate cancer (PCa) is one of the leading causes of cancer deaths in men. Since there are limited treatment options available for the advanced tumors, there is an urgent need for novel diagnostic tools for PCa. Prostate ... -
Identification of miR-139-5p as a saliva biomarker for tongue squamous cell carcinoma: A pilot study
Düz, Mehmet Buğrahan; Karataş, Ömer Faruk; Güzel, Esra; Turgut, Nesrettin Fatih; Yılmaz, Mehmet; Creighton, Chad J.; Özen, Mustafa (Springer, 2016)Of all human oral carcinomas, 41 % are localized to the tongue. Despite considerable improvements in both diagnosis and treatment, tongue squamous cell carcinoma (TSCC) has remained one of the most lethal types of cancer. ... -
Improving medical diagnosis reliability using Boosted C5.0 decision tree empowered by Particle Swarm Optimization
Pashaei, Elnaz; Özen, Mustafa; Aydın, Nizamettin (Institute of Electrical and Electronics Engineers Inc., 2015)Improving accuracy of supervised classification algorithms in biomedical applications is one of active area of research. In this study, we improve the performance of Particle Swarm Optimization (PSO) combined with C4.5 ... -
Kallikrein gene family as biomarkers for recurrent prostate cancer
Böyüközer, Fatma Büşra; Tanoğlu, Esra Güzel; Özen, Mustafa; Ittmann, Michael; Aslan, Elif Sibel (University of Zagreb, 01.2020)Aim To assess kallikrein (KLK) expression in recurrent and non-recurrent prostate tumors and adjacent healthy prostate tissues. Methods The expression levels of 15 KLK genes in 34 recurrent and 36 non-recurrent prostate ... -
A meta-analysis: identification of common mir-145 target Genes that have similar behavior in different GEO datasets
Pashaei, Elnaz; Güzel, Esra; Özgürses, Mete Emir; Demirel, Göksun; Aydın, Nizamettin; Özen, Mustafa (Public Library Science, 2016)Background MicroRNAs, which are small regulatory RNAs, post-transcriptionally regulate gene expression by binding 3'-UTR of their mRNA targets. Their deregulation has been shown to cause increased proliferation, migration, ... -
miR-1 and miR-133b are differentially expressed in patients with recurrent prostate cancer
Karataş, Ömer Faruk; Güzel, Esra; Süer, İlknur; Ekici, Işın D.; Çaşkurlu, Turhan; Creighton, Chad J.; Ittmann, Michael; Özen, Mustafa (Public Library Science, 2014)Prostate cancer (PCa) is currently the most frequently diagnosed malignancy in the western countries. It is more prevalent in older men with 75% of the incident cases above 65 years old. After radical prostatectomy, ... -
MiR-221 as a pre- and postoperative plasma biomarker for larynx cancer patients
Yılmaz, Seda Salman; Güzel, Esra; Karataş, Ömer Faruk; Yılmaz, Mehmet; Creighton, Chad J.; Özen, Mustafa (Wiley, 2015)Larynx cancer (LCa), known to be the most commontumor of the head and neck region, accounts for about1% to 2.5% of all human neoplasms, and approximately95% to 98% of LCa is originated from squamous cell car-cinoma.1–3The ... -
A novel gene selection algorithm for cancer identification based on random forest and particle swarm optimization
Pashaei, Elnaz; Özen, Mustafa; Aydın, Nizamettin (IEEE, 2015)In order to achieve informative gene from thousands of candidate genes contributing to the symptom of cancer, two novel gene selection approaches for classification of multiclass microarray datasets are proposed. In the ... -
Novel MASP1 mutations are associated with an expanded phenotype in 3MC1 syndrome
Atik, Tahir; Koparır, Asuman; Bademci, Güney; Foster, Joseph; Altunoğlu, Umut; Mutlu, Gül Yesiltepe; Bowdin, Sarah; Elçioğlu, Nursel; Tayfun, Gülşen A.; Atik, Sevinç Şahin; Özen, Mustafa; Özkınay, Ferda; Alanay, Yasemin; Kayserili, Hülya; Thiel, Steffen; Tekin, Mustafa (BioMed Central Ltd, 2015)Background: 3MC1 syndrome is a rare autosomal recessive disorder characterized by intellectual disability, short stature and distinct craniofacial, umbilical, and sacral anomalies. Five mutations in MASP1, encoding lectin ...
