Projects
Name
Analysis of methylation of SOX15 gene and its interaction with Wnt/B-catenin pathway in patients with thyroid cancer
University
Turkey (TurkMSIC) - Istanbul University Cerrahpasa Medical Faculty, Istanbul
Domain
Biology
Departement
Cerrahpasa Faculty of Medicine Department of Medical Biology Cerrahpasa, Koca Mustafapasa Cd. No:53 34096 Fatih/Istanbul
Head
Prof. Dr. Ayse Nur Buyru
Tutor
Prof. Dr. Ayse Nur Buyru
Languages
Turkish, English
Duration
4 weeks
Availability
Cities/Months Jan Feb Mar Apr May Jun Jul Augt Sep Oct Nov Dec
No No No No No No Yes No No No No No
Type of Research Project
- Basic science
What is the background of the project?
Please, provide the background of the project (Provide information about the project; min. 10 lines, max. 25 lines) In a post-graduate thesis that was done previously, it has been shown that the reduction of SOX15 (Sry-related high mobility group box) gene expression in tissues with thyroid cancer works as a tumor suppressive in thyroid cancer. In this study, it has been planned to research the promotor methylation level of SOX15 gene whose expression is suppressed via the methylation of promotor region in various cancer types in order to locate the mechanism that causes reduction in mRNA (messenger RNA) levels in thyroid cancer. Also, the expression level of CCND1 (cyclin D1) and c-MYC (cellular myelocytomatosis) genes which is known to increase with the activation of Wnt (wingless-related integration site)/B-catenin pathway which is theorized to be activated by SOX15 protein in other types of cancers. Turkish Cancer Society, established in 1964, is one of Turkey's most established civil society organizations. T. C. The Turkish Cancer Society, which gained the status of Public Benefit Associations with the decision of the Council of Ministers with the resolution no. Since its establishment, the Turkish Cancer Society has provided millions of cancer patients with limited opportunities; Supported and will continue to be on screening, treatment, follow-up, psychological support, nutrition counseling oncology coaching.
What is the aim of the project?
The aim of this project is to both figure out the possible functions and effect mechanisms of the SOX15 gene in thyroid cancer and figure out the mechanisms that cause it to go silent in this cancer.
What techniques and methods are used?
-The expression analyses of related genes: Isolation of DNA from tissue, cDNA (complementary DNA) synthesis and real-time polymerase chain reactions to the related genes. It is performed to figure out if the genes are expressed in the tissue or not. -Methylation specific polymerase chain reactions, done to discern DNA’s bisulfhitation and whether the related gene has promotor methylation or not. -mRNA (MessengerRNA) essay study, to figure out if the mRNAs that are thought to bind the 3^UTR (untranslated region) of the related gene are expressed with the real-time polymerase chain reaction method or not. -The raw data from the experiments will be entered on Microsoft Excel for processing, and will be transferred to Statistical Package for Social Sciences 26th edition (SPSS26) for application of biostatistics.
What is the role of the student?
- The student will observe the practical experiments but will be highly involved in the analysis of the results
- If the project includes “lab work”
- the student will take active part in the practical aspect of the project
- The tasks will be done under supervision
What are the tasks expected to be accomplished by the student?
What are the tasks expected to be accomplished by the student? (Minimum 10 lines, provide detailed explanation) The students will mainly observe the daily routine of this project. But the student will also take part in some of the key processes under supervision, including: - Preparing the substrates and running the Polymerase Chain Reactions (PCR’s). - Isolating DNA from tissue samples and cell cultures. Training to do these will be provided by the staff. - Inputting the data to Excel and processing it to prepare for analysis on SPSS26. they will participate in the final phase of this project as well.
Will there be any theoretical teaching provided (preliminary readings, lectures, courses, seminars etc)
Will there be any theoretical teaching provided for the student (preliminary readings, lectures, courses, seminars)? Please describe how much teaching and by whom. The students will participate in weekly seminars that will be given by some of the professors of our department. If they want, they can also participate in doctorate level classes. They can also be informed about subjects outside of the scope of this project. (Prof.Dr.Turgut Ulutin, Prof. Dr. Ayse Nur Buyru) Subjects: -Cell cycle -DNA,RNA structure and dublication -Isolation of DNA protocols
What is expected from the student at the end of the research exchange? What will be the general outcome of the student?
- The student will prepare a scientific report
What skills are required of the student? Is there any special knowledge or a certain level of studies needed?
No spesific skills are required. Previous experience with: Molecular Genetics, Medical Biology.
Are there any legal limitations in the student’s involvement
No
Hours
6
Type of students accepted
This project accepts:
- Medical students
- Graduated students (less than 6 months)
- Pre-Medical students from the American-British system
Articles
- Castillo S.D. and Sanchez-Cespedes M. The SOX family of genes in cancer development: biological revelance and opportunities for threpy. Expert Opin Their Targets; 2012; 16(9): 903-919
- Dong; C.; Wilhelm; D.; & Koopman; P. (2004). Sox genes and cancer. Cytogenetic and genome research; 105(2-4); 442-447. DOI: 10.1159/000078217
- Zhu; Y.; Li; Y.; Wei; J.; Wei; J.; & Liu; X. (2012). The role of Sox genes in lung morphogenesis and cancer. International journal of molecular sciences; 13(12); 15767-15783. DOI: 10.3390/ijms131215767