Projects
Name
Microscopic 3D imaging of intact tumors reveals intratumoral heterogeneity
University
Sweden (IFMSA-Sweden) - Karolinska Institutet, Stockholm
Domain
Biophysics and Medical Physics
Departement
Depatment of Medical Biochemistry and Biophysics
Head
Per Uhlen
Tutor
Per Uhlen
Languages
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?
Tumors are hererogenic. To get a better picture of the tumor's internal landscape, we must visualize them with microscopic 3D imaging. Microscopic 3D imaging is a method used to visualise and analyse three-dimensional microscopic images. It is widely used in modern biology studies to better understand data by scanning the depth of a sample. In order to detect individual cells and molecules, we must label proteins and RNA with fluorescent probes. We use all these techniques to increase our understanding of tumors.
What is the aim of the project?
To perform 3D imaging of tumor samples
What techniques and methods are used?
Tissue preparation: -Dehydration of tissue and clearing using iDISCO -Immunostaining (an antibody-based method to detect specific proteins) -In situ hybridization (hybridization to lable complementary nucleic acids and localise specific nucleic acid sequences on tissue). -Confocal and light-sheet microscopy (imaging sensitive samples and confocal microscopy is used to eliminate out-of-focus light), which is a part of the analysis. Data analysis: 3D rendering and segmentation with Imaris and Amira
What is the role of the student?
- The tasks of the student will be performed on his/her own
- The tasks will be done under supervision
What are the tasks expected to be accomplished by the student?
The student will help immunolabel and/or in situ hybridize tumor samples from patients with various type of cancer. We will assess different protocols and bio-probes targeting several genes of interest for cancer progression and drug resistance. The student will also use microscopes to study expression patterns of selected genes in tumor samples. The recorded data will thereafter be processed by advanced software tools that can detect structural features of tumors.
Will there be any theoretical teaching provided (preliminary readings, lectures, courses, seminars etc)
No
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?
Some experience doing lab work
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)
- Pre-Medical students from the American-British system
- Students in biomedical fields
Articles
- Whole-tissue biopsy phenotyping of three-dimensional tumours reveals patterns of cancer heterogeneity. Tanaka N; Kanatani S; Tomer R; Sahlgren C; Kronqvist P; Kaczynska D; Louhivuori L; Kis L; Lindh C; Mitura P; Stepulak A; Corvigno S; Hartman J; Micke P; Mezheyeuski A; Strell C; Carlson JW; Fernández Moro C; Dahlstrand H; Östman A; Matsumoto K; Wiklund P; Oya M; Miyakawa A; Deisseroth K; Uhlén P. Nat Biomed Eng. 2017 Oct;1(10):796-806. doi: 10.1038/s41551-017-0139-0. PMID: 31015588