COURSE UNIT TITLE

: LIQUID BIOPSIES

Description of Individual Course Units

Course Unit Code Course Unit Title Type Of Course D U L ECTS
ONK 6106 LIQUID BIOPSIES ELECTIVE 1 0 0 3

Offered By

Basic Oncology

Level of Course Unit

Third Cycle Programmes (Doctorate Degree)

Course Coordinator

PROFESSOR DOCTOR ZEKIYE SULTAN ALTUN

Offered to

Basic Oncology

Course Objective

In the light of new developments in the field of oncology, it is possible to gain basic information about liquid biopsies and their areas of use and to continue the projects and scientific studies on the subject.

Learning Outcomes of the Course Unit

1   1. Can express the relationship between liquid biopsies and cancer with current basic knowledge
2   2. Have knowledge of liquid biopsies and the biology of their relationship with cancer and the biology of cancer and comprehend these issues in general terms.
3   3. Gains knowledge of liquid biopsies and their relationship with cancer their use in the laboratory, and the analysis steps of these biopsies, and comprehends these issues in general terms.
4   4. To be able to use liquid biopsies and their relationship with cancer for the diagnosis, treatment or prevention of cancer-related problems, to research, question and/or apply related studies.
5   5. To have the ability to determine the needs of liquid biopsies and cancer and to create projects in this direction, to take a role as a researcher in national / international projects, to question studies and to conduct interdisciplinary research.

Mode of Delivery

Face -to- Face

Prerequisites and Co-requisites

None

Recomended Optional Programme Components

None

Course Contents

Week Subject Description
1 Introduction of Liquid biopsies Prof. Dr. Zekiye S. Altun
2 Sources of Liquid biopsies and contents Prof. Dr. Zekiye S. Altun
3 Circulating tumor cells and molecular features Prof. Dr. Hilal Koçdor
4 Extracellular vesicles and molecular features Prof. Dr. Zekiye S. Altun
5 Free tumor DNA and cancer Prof. Dr. Safiye Aktaş
6 Free tumor RNA and cancer Prof. Dr. Zekiye S. Altun
7 Free noncoding Tumor related RNA and cancer Prof. Dr. Zekiye S. Altun
8 Liquid biopsy analysis methods Prof. Dr. Zekiye S. Altun
9 Detection of ultrasensitive mutation with Sequencing in Liquid Biopsies Prof. Dr. Safiye Aktaş
10 PCR-based applications in liquid biopsy studies Prof. Dr. Zekiye S. Altun
11 Protein-based applications in liquid biopsy studies Prof. Dr. Hilal Koçdor
12 Transcriptomic analysis in liquid biopsy studies Prof. Dr. Zekiye S. Altun
13 Data analysis and interpretation associated with liquid biopsy Prof. Dr. Zekiye S. Altun
14 The clinical use of liquid biopsies in cancer Dr. Öğr. üyesi Gökçen Şimşek
15 Liquid biopsy-based therapies in cancer Dr. Öğr. üyesi Gökçen Şimşek

Recomended or Required Reading

Cancer: Principles and Practice of oncology, 12th Edition, DE vita
Altun ZS. Rna dan Ve Proteoformlara Temel Araştirma Yöntemleri. Klinisyenler Için Temel Onkoloji. 1. Baskı
Ankara: Türkiye Klinikleri; 2021. p.102- 5. 2021 e-Isbn: 978-625-401-395-9. Alix-Panabieres, C., and Pantel, K. (2014). Technologies for detection of circulating tumor cells: facts and vision. Lab on a chip 14, 57-62.
Ashworth, T.R. (1869). A case of cancer in which cells similar to those in the tumours were seen in the blood after death. Australian Medical Journal, 146-147.
Banys, M., Neubauer, H., Ruckhaeberle, E., and Fehm, T. (2014). Expression of Stem Cell and Epithelial-Mesenchymal Transition Markers in Circulating Tumor Cells of Breast Cancer Patients. BioMed research international.
Butler, T.P., and Gullino, P.M. (1975). Quantitation of cell shedding into efferent blood of mammary adenocarcinoma. Cancer research 35, 512-516.
Coumans, F.A., Siesling, S., and Terstappen, L.W. (2013). Detection of cancer before distant metastasis. BMC cancer 13, 283.
Fidler, I.J. (1970). Metastasis: guantitative analysis of distribution and fate of tumor embolilabeled with 125 I-5-iodo-2'-deoxyuridine. Journal of the National Cancer Institute 45, 773-782.
Fidler, I.J. (1973). The relationship of embolic homogeneity, number, size and viability to the incidence of experimental metastasis. European journal of cancer 9, 223-227.
Friberg, S., and Mattson, S. (1997). On the growth rates of human malignant tumors: implications for medical decision making. J Surg Oncol 65, 284-297.
Husemann, Y., Geigl, J.B., Schubert, F., Musiani, P., Meyer, M., Burghart, E., Forni, G., Eils, R., Fehm, T., Riethmuller, G., et al. (2008). Systemic spread is an early step in breast cancer. Cancer cell 13, 58-68.
Jin, C., McFaul, S.M., Duffy, S.P., Deng, X., Tavassoli, P., Black, P.C., and Ma, H. (2014). Technologies for label-free separation of circulating tumor cells: from historical foundations to recent developments. Lab on a chip 14, 32-44.

Tai YL, Chen KC, Hsieh JT, Shen TL. Exosomes in cancer development and clinical applications. Cancer Sci. 2018 Aug;109(8):2364-2374. doi: 10.1111/cas.13697. Wong, I.Y., Javaid, S., Wong, E.A., Perk, S., Haber, D.A., Toner, M., and Irimia, D. (2014). Collective and individual migration following the epithelial-mesenchymal transition. Nature materials.
Yu, M., Bardia, A., Aceto, N., Bersani, F., Madden, M.W., Donaldson, M.C., Desai, R., Zhu, H., Comaills, V., Zheng, Z., et al. (2014). Ex vivo culture of circulating breast tumor cells for individualized testing of drug susceptibility. Science 345, 216-220.Zhu L, Sun HT, Wang S, Huang SL, Zheng Y, Wang CQ, Hu BY, Qin W, Zou TT, Fu Y, Shen XT, Zhu WW, Geng Y, Lu L, Jia HL, Qin LX, Dong QZ. Isolation and characterization of exosomes for cancer research. J Hematol Oncol. 2020 Nov 10;13(1):152. doi: 10.1186/s13045-020-00987-

Planned Learning Activities and Teaching Methods

Theoretical lectures, reinforcement and discussion of the subjects with in-class activities, scientific literature, presentations and assignments. Students are also required to prepare and present a research proposal on liquid biopsies and cancer.

Assessment Methods

SORTING NUMBER SHORT CODE LONG CODE FORMULA
1 MTE MIDTERM EXAM
2 PRJ PROJECT
3 FIN FINAL EXAM
4 FCG FINAL COURSE GRADE MTE * 0.30 + PRJ* 0.30 +FIN* 0.40
5 RST RESIT
6 FCGR FINAL COURSE GRADE (RESIT) MTE * 0.30 + PRJ* 0.30 +RST* 0.40


Further Notes About Assessment Methods

Students should actively participate in lectures and literature etc discussions about liquid biopsy. He/she should prepare a review or research article that includes current changes with the subject. Each student should create and present self-written and actually applicable research that covers current issues related to liquid biopsies and cancer.

Assessment Criteria

Students should actively participate in lectures and literature vs. discussions about liquid biopsy. Students should evaluate their knowledge about the subject as an exam about liquid biopsies and their usage area. He/she should prepare a homework presentation that includes current changes with the subject.

Language of Instruction

Turkish

Course Policies and Rules

To be announced.

Contact Details for the Lecturer(s)

zekiye.altun@deu.edu.tr, Tel: +90(232)4128204

Office Hours

on Tuesday at: Tuesday hours: 13.00-13.30

Work Placement(s)

None

Workload Calculation

Activities Number Time (hours) Total Work Load (hours)
Lectures 15 1 15
Preparations before/after weekly lectures 15 3 45
Preparation for midterm exam 1 4 4
Preparing assignments 1 5 5
Preparing presentations 1 5 5
Midterm 1 1 1
TOTAL WORKLOAD (hours) 75

Contribution of Learning Outcomes to Programme Outcomes

PO/LOPO.1PO.2PO.3PO.4PO.5PO.6PO.7PO.8PO.9PO.10PO.11
LO.154455554
LO.245455545
LO.35554555
LO.455554
LO.55445554