Browsing by Author "Kivanc, Demet"

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Citation - WoS: 3
Citation - Scopus: 3
Distribution of HLA epitope frequencies in Turkish population
(Walter De Gruyter Gmbh, 2022) Oguz, Fatma Savran; Oguz, Suleyman Rustu; Ogret, Yeliz; Karadeniz, Tanju Sedat; Ciftci, Hayriye Senturk; Karatas, Sule; Kivanc, Demet
Objectives The antibodies interact with the Human Leukocyte Antigen (HLA) antigens at specific epitopes. Epitopes are present on a single HLA or shared by multiple antigens. In this study, we aim to determine the frequency of prevalent epitopes common in the Turkish population. Methods Non-related 644 healthy volunteers were recruited, and The HLA-A, -B, -C, -DR -DQ's were typed using the Next Generation Sequencing. The provisional and confirmed epitopes were identified using the HLA Epitope Registry databases, HLA Epitopia Maps and Immucor Epitope databases dated 07.02.2018. Epitope frequencies were calculated by counting the shared epitopes in the total number of shared HLA Class epitopes in our sample database. Results Class I HLA's had 298 epitopes that repeated a total of 158,117 times with frequencies ranging between 0.0006 and 2.03%, and the most frequent epitope was 170RY found on 119 different alleles. Class II HLA's had 193 epitopes that repeated a total of 93,082 times with frequencies ranging between 0.002 and 1.36%, and the most frequent epitope was 108P found on 42 different alleles. Conclusions Our findings summarize both the provisional, and confirmed epitope frequencies in the Turkish population and may help clinicians and immunogeneticists develop a better understanding of HLA epitope mismatches.
Investigation of the Potential Effect of Complement 5 on Transplantation Outcome by Bioinformatics Tools
(Iranian Soc Nephrolgy, 2025) Oguz, Suleyman Rustu; Kivanc, Demet; Ozdilli, Kursat; Karadeniz, Sedat; Kluge, Ekin Ece Gurer; Ciftci, Hayriye Senturk
Introduction. Activation of the complement system following transplantation may result in allograft rejection. Our study aimed to evaluate the potential relationship between factors affecting kidney transplant success and complement 5 (C5) using bioinformatic tools. Methods. GenCards and Genemania were used to provide the genetic functional information belonging to the C5 gene, and genomic browsers of STRING, UCSC, KEGG were used to reveal interactions with other genes and various pathways. MiRDB was used to specify the miRNAs that were associated with the C5 gene. The UniProt database was used to determine the tissues that expressed the C5 gene using protein-protein interactions. Results. In the bioinformatic analyses performed, high levels of C5 gene expression were found in the naiive kidney. Twenty-five genes were found to be strongly associated with C5. Fifty-four miRNAs targeting the C5 gene were specified. The C5 gene was found to be involved in biologic processes such as complement activation (FDR = 6.46e-22), complement binding (FDR = 2.20e-06), cytolysis (FDR = 4.82e-14), regulation of complement activation (FDR = 4.08e24), positive regulation of vascular endothelial growth factor production (FDR = 0.0430), regulation of macrophage chemotaxis (FDR = 0.0447), activation of the immune response (FDR = 1.26e13), leukocyte-mediated immunity (FDR = 1.41e-09), innate immune response (FDR = 3.05e-09), allograft rejection (FDR = 2.40e-12), oxidative injury response (FDR = 0.00016), and trigerring of the beginning of the complement cascade (FDR = 0.0244). Conclusions. The data obtained in this study will be used to guide future experimental investigations in the field of transplantation, and these data will give physicians with insight into allograft status following transplantation.