Browsing by Author "Erdoğan, İpek"

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Identification of microRNAs involved in camptothecin-induced apoptosis in Jurkat T cell line
(Izmir Institute of Technology, 2008) Erdoğan, İpek; Akgül, Bünyamin
MicroRNAs which are non-coding RNAs 19-25 nt in length regulate gene expression at post-transcriptional and translational stages. Although it is known that they play a role in critical processes such as development and differentiation of T cells a major component of the immune system, the function of miRNAs in T cell apoptosis is unknown. This study has aimed to identify miRNAs. involvement in camptothecininduced T cell apoptosis in the Jurkat T cell leukemia cell line model. Following the enrichment of the apoptotic population by magnetic seperation, the negative and apoptotic fractions were profilled and compared according to the expression levels of microRNAs. Out of the 866 miRNAs in the miRBASE, 37 and 58 of them were downand up-regulated in the apoptotic fraction, respectively. 7 miRNAs were members of the clusters that have predicted targets as anti-apoptotic genes and tumour suppressor proteins. 66 miRNAs have no known function. Candidate miRNAs, selected based on their higher differential expression levels with predicted apoptotic/antiapoptotic targets, will be verified by qPCR. These candidate then will be further characterized by overxpression and knock-down studies.
Preparation and characterization of wound dressing contact layer
(Izmir Institute of Technology, 2015-07) Erdoğan, İpek; Bayraktar, Oğuz; Atabey, Atay; Başal Bayraktar, Güldemet
Wound dressings provide therapeutic and protective features and promotes natural healing process when applied to a wound area. Being non-toxic and immunologically inert, natural biopolymers have potential in fabrication of wound dressings. Growth factors and antibiotics can also be used in functionalization of wound dressings as well as plant extracts. Olive leaf extract has gained attraction due to its dual antimicrobial and antioxidant effect. By clearing pathogenic microorganisms and scavenging against increased amount of reactive oxygen species in the wound area, it has high potential in wound healing. In this study, olive leaf extract incorporated zein fibers were prepared as a model of wound dressing contact layer. In this regard, crude olive leaf extract was fractionated and characterized in terms of antioxidant capacity, total phenol content and antimicrobial activity. Crude extract and its fractions were also subjected to wound scratch assay in the presence of hydrogen peroxide. Oleuropein, as the most abundant component in crude extract, was found to promote cell migration better and close the wound area at a higher rate than other components. On the other hand, crude olive leaf extract exhibited higher percentage of wound closure than its fractions within the same time period, which may be attributed to synergistic effect of unidentified phenolics. Crude olive leaf extract also provided crosslinking effect when incorporated into zein fibers, as well as promoting cell spreading behaviour.
Small RNA data set that includes tRNA-derived fragments from Jurkat cells treated with camptothecin
(Elsevier Ltd., 2018-04) Coşacak, Mehmet İlyas; Akgül, Bünyamin; Erdoğan, İpek; Nalbant, Ayten; Akgül, Bünyamin
In this article, we report a small RNA data set obtained from human T cell acute leukemia Jurkat cells, which were treated with the universal apoptotic agent camptothecin. Based on the Annexin-V labeling pattern, we sorted two Jurkat subpopulations in treated cells: one that is sensitive to the drug and the other being relatively more resistant. We report new original data that include the frequency of tRNA-derived fragments (tRF) in drug-sensitive and resistant cells. We also present partially analyzed data to show the origin of reads on tRNAs as well as the borders of the fragments. We believe that this data can benefit the science community working in the field of tRF and/or apoptosis.
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Small RNA data set that includes tRNA-derived fragments from Jurkat cells treated with camptothecin
(Elsevier Ltd., 2018-04) Coşacak, Mehmet İlyas; Akgül, Bünyamin; Erdoğan, İpek; Nalbant, Ayten; Akgül, Bünyamin
In this article, we report a small RNA data set obtained from human T cell acute leukemia Jurkat cells, which were treated with the universal apoptotic agent camptothecin. Based on the Annexin-V labeling pattern, we sorted two Jurkat subpopulations in treated cells: one that is sensitive to the drug and the other being relatively more resistant. We report new original data that include the frequency of tRNA-derived fragments (tRF) in drug-sensitive and resistant cells. We also present partially analyzed data to show the origin of reads on tRNAs as well as the borders of the fragments. We believe that this data can benefit the science community working in the field of tRF and/or apoptosis.