COURSE UNIT TITLE

: MOLECULAR AND CELL BIOLOGY TECHIQUES II

DEGREE PROGRAMMES

Description of Individual Course Units

Course Unit Code Course Unit Title Type Of Course D U L ECTS
TBG 6101 MOLECULAR AND CELL BIOLOGY TECHIQUES II ELECTIVE 2 2 0 9

Offered By

Medical Biology and Genetics

Level of Course Unit

Third Cycle Programmes (Doctorate Degree)

Course Coordinator

PROFESSOR DOCTOR HAKKI OGÜN SERCAN

Offered to

Audiology
Laboratory Animal Science
Anatomy
Molecular Pathology
Exercise Physiology
Toxicology
Biochemistry
Biomechanics
Histology and Embryology
Medical Biology and Genetics
Biophysics
Physiology
Translational Oncology
Medical Parasitology
Microbiology
Pharmacology
Basic Neuroscience
Molecular Medicine
Translational Oncology
Molecular Medicine

Course Objective

1- To improve knowledge and skills of students on current techniques in cellular biology
2- To improve knowledge and skills of students on current techniques on protein levels, locations and function of proteins in eukaryotic cells

Learning Outcomes of the Course Unit

1   Know fundamentals of eukaryotic cells, tissues, and biological behaviors of cells in culture conditions
2   Know basic principles of cell separation techniques
3   Recognize intracellular structures of eukaryotic cells
4   Monitor cells and intracellular organelles in different levels by microscopic techniques
5   Conduct cell proliferation, differentiation, death and senescence assays and analysis related data in cultured cells
6   Perform end point and real time adhesion and motility assays,
7   Interpret and analyze of the related data
8   Know basic methods in protein analysis techniques
9   Demonstrate a working knowledge and technical skills on protein extraction and isolation techniques
10   Demonstrate a working knowledge and technical skills on protein-protein interaction methods
11   Demonstrate a working knowledge and technical skills on cellular localization analysis methods of proteins
12   Demonstrate a working knowledge and technical skills on gene expression analysis by immunostaining and western blotting
13   Know and practice the bioinformatics tools for protein sequence, structure and function analysis
14   Know and practice the bioinformatics tools for predicting protein function using bioinformatics tools

Mode of Delivery

Face -to- Face

Prerequisites and Co-requisites

None

Recomended Optional Programme Components

None

Course Contents

Week Subject Description
1 Basic cell culture methods (seeding, counting, cryopreservation, reviving)
2 Microscopy (light, DIG, Fluorescence, Phase contrast, Confocal, Electron)
3 Fractionation of cellular organelles
4 Viability, proliferation, senescence and apoptosis analysis
5 Adhesion, motility, invasion analysis
6 Cell sorting (FACS, magnetic separation)
7 Transfection
8 Gene expression analysis (Reporter Assays, Immunoblot, Immunostaining)
9 Protein isolation from cells, determining quantity and localization
10 Protein-protein interactions (Co-IP, pull-down assays, FRET, PLA)
11 Protein-protein interactions (Co-IP, pull-down assays, FRET, PLA)
12 Proximity ligation assay, in silico methods.
13 Proteomics
14 in silico analysis
15 Functional and quantitative analysis (Mass-spect., SILAC)

Recomended or Required Reading

Main Reference: "Current Protocols in Molecular Biology, Wiley, Online ISBN: 9780471142720", "Methods in Cell Biology"

Other references:

http://homepages.gac.edu/~cellab/contents.html
http://www.protocol-online.org/prot/Cell_Biology/

Scientific research papers published in Cell, Science, Nature, Nature Methods

Planned Learning Activities and Teaching Methods

Oral Presentation: Theoretical information will be given by course instructors.
Literature Discussion: Interpretation of the primary data in research papers
Laboratory Practices. Active participation in laboratory practices
Small Group Studies: Interpretation/discussion of the data in research papers on related cell biology techniques will be discussed.

Assessment Methods

SORTING NUMBER SHORT CODE LONG CODE FORMULA
1 MTE MIDTERM EXAM
2 FIN FINAL EXAM
3 FCG FINAL COURSE GRADE MTE * 0.40 + FIN* 0.60
4 RST RESIT
5 FCGR FINAL COURSE GRADE MTE * 0.40 + RST* 0.60


Further Notes About Assessment Methods

None

Assessment Criteria

To be announced.

Language of Instruction

Turkish

Course Policies and Rules

The maximum number of student is limited to 6.

Contact Details for the Lecturer(s)

(232) 412 65 54, hani.alotaibi@deu.edu.tr, nese.atabey@deu.edu.tr alper.bagriyanik@deu.edu.tr, devrim.pesen@iyte.edu.tr

Office Hours

To be announced.

Work Placement(s)

None

Workload Calculation

Activities Number Time (hours) Total Work Load (hours)
Lectures 14 2 28
Preparations before/after weekly lectures 15 3 45
Preparation for midterm exam 1 10 10
Preparation for final exam 1 9 9
Preparing Individual Assignments 4 10 40
Preparation of the Concept Map 5 10 50
Manuscript Preparation 5 10 50
Final 1 3 3
Midterm 1 2 2
TOTAL WORKLOAD (hours) 237

Contribution of Learning Outcomes to Programme Outcomes

PO/LOPO.1PO.2PO.3PO.4PO.5PO.6PO.7PO.8PO.9PO.10PO.11PO.12PO.13
LO.145
LO.245
LO.345
LO.4455
LO.555
LO.655
LO.75555
LO.85
LO.945
LO.1054445
LO.115
LO.1245
LO.134534
LO.1455

CONTACT INFORMATION
Dokuz Eylül Üniversitesi Cumhuriyet Bulvarı No: 144 35210 Alsancak / İZMİR
Phone: +90(232) 412 12 12 - Fax: +90 (232) 464 81 35

Copyright 2015 DEÜ. BİD

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