Projects
Name
Precision medical treatment of cancer patients based on cancer genomics
University
Korea (KMSA) - Korea university, Seoul
Domain
Biochemistry
Departement
Department of Biomedical Sciences, 73 Goryeodae-ro, Seongbuk-gu, Seoul 02841
Head
Jae-Young Seong
Tutor
Jason Kyungha Sa
Languages
English, Korean
Duration
4 weeks
Availability
Cities/Months Jan Feb Mar Apr May Jun Jul Augt Sep Oct Nov Dec
No No No No No No No Yes No No No No
Type of Research Project
- Basic science
What is the background of the project?
Outcomes of cancer treatment vary dramatically among patients due to diverse genetic and molecular backgrounds. The fundamental principle of precision medical treatment in cancer proposes that genomic characterization of the tumors can enable patient-tailored therapy. However, such proposition is often confounded and complicated by extensive spatiotemporal, genomic and transcriptional heterogeneity. Towards this goal, we have established a library of patient-derived cancer models that are genomically annotated, including somatic copy number alterations, mutaitons, structure variations and etc.
What is the aim of the project?
Through integrating multi-omics based datasets, having rooted in cancer genomics, we hope to identify molecular determinants that could aid in design of effective treatment for individual cancer patients.
What techniques and methods are used?
We often employ next-generation sequencing-based technologices, including whole-exome or targeted-exome sequencing to identify somatic mutations, copy number alterations, and whole-transcriptome sequencing to curate gene expression profiles and capture oncogenic structure variations. Using different computational approach, we use different computing languages such as python and R to integrate and explore different varieities of datasets.
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
What are the tasks expected to be accomplished by the student?
To have in-depth comprehension behind next-generaiton sequencing-based technologies and the output informaiton it can provide. The students are also expected to understand the computational pipeline process and development to handle large sets of datasets and how they are aligned or mapped onto human genome reference and how they are subjected to duplication removal, distinguishment of somatic variations from germline mutations and etc. The studnets will also given opportunities to analyze cancer genomics data with different phenoytpic results such as drug response data as well.
Will there be any theoretical teaching provided (preliminary readings, lectures, courses, seminars etc)
Studenst are expected to read and understand at least two high-profile journals including those published in Nature, Cell and Science per week.
What is expected from the student at the end of the research exchange? What will be the general outcome of the student?
- No specific outcome is expected
What skills are required of the student? Is there any special knowledge or a certain level of studies needed?
Those who have some form of experience in coding or computational analysis will be preferred such R or python.
Are there any legal limitations in the student’s involvement
No
Hours
8
Type of students accepted
This project accepts:
- Medical students
- Graduated students (less than 6 months)
Articles
- Lee; J.K.; Liu; Z.; Sa; J.K.; Shin; S.; Wang J.; Bordyuh; M.; Cho; H.J.; Elliott; O.; Chu; T.; Choi; S.W.; et al. (2018) Pharmacogenomic landscape of patient-derived tumor cells informs precision oncology therapy. Nat. Genet. 50; 1399-1411