COURSE UNIT TITLE

: BASIC METHODS IN MOLECULAR BIOLOGY I

DEGREE PROGRAMMES

Description of Individual Course Units

Course Unit Code Course Unit Title Type Of Course D U L ECTS
TBG 5039 BASIC METHODS IN MOLECULAR BIOLOGY I ELECTIVE 3 2 0 8

Offered By

Medical Biology and Genetics

Level of Course Unit

Second Cycle Programmes (Master's Degree)

Course Coordinator

PROFESSOR DOCTOR HAKKI OGÜN SERCAN

Offered to

Biochemistry
Molecular Medicine
CLINICAL DRUG RESEARCH
Laboratory Medicine
Medical Biology and Genetics
Medical Parasitology

Course Objective

To get know about basic recombinant DNA technologies and bioinfirmatics; to be able to reach and analyse in silico DNA, RNA and protein data; to understand and apply basic DNA, RNA and protein techniques

Learning Outcomes of the Course Unit

1   To be able to discuss about human genome project and its outcomes; to explain HapMap and 1000Genomes projects
2   To be able to use bibliographic databases such as Pubmed ve OMIM; to be able to reach gDNA, cDNA, exon-intron sequences, protein sequence of a certain gene by using Entrez and Ensemble Genome Browsers.
3   To be able to align nucleic acid and protein sequences by using CLUSTAL W program; to know GEO, UniProt and KEGG tools
4   To be able to understand basis of gene cloning and recombinant DNA technologies
5   To be able to isolate gDNA, total RNA and total protein lysate from the cell and to make it quantify.
6   To be able to discuss basic properties of plasmid vectors and types of plasmids used in different cloning purposes; to be able to isolate plasmid from bacteria; to understand different forms of plasmid by using restriction enzymes
7   To be able to analyse gen expression at transcript level by using semi-quantitative RT-PCR and at protein level by using western blotting and immunostaining
8   To be able to optimize and apply conventional PCR reaction and design primers
9   To be able to analyse and present data

Mode of Delivery

Face -to- Face

Prerequisites and Co-requisites

None

Recomended Optional Programme Components

None

Course Contents

Week Subject Description
1 Course Description
2 Human Genome Projects and contributions to medicine
3 Bioinformatic Tools (Entrez, Ensemble, OMIM, GSEA, PDB, Blast, KEGG)
4 Structure and properties of DNA, chromosome and chromatin
5 DNA replication, gene expression (transcription and translation) and their role in disease
6 Types of chromosomal abnormalities
7 Mutation and polymorphism, Types of single gene mutation and single gene disorders
8 Mechanisms of DNA damage, DNA repair and related disease models
9 Midterm exam
10 Identification of disease and disease-related genes
11 Genetic and epigenetic control mechanisms
12 Cell- cell and cell-ECM interactions, microenvironment and their role on the disease progression
13 Molecular basis of cancer
14 Definition of Stem cell, types of stem cells and their usage in medicine

Recomended or Required Reading

Textbook(s): Lodish, Berk, Matsudaira, Kaiser, Krieger, Scott, Zipursky, Darnell , Molecular Cell Biology
Alberts, etal. Molecular Biology of the Cell , Fifth ed., Garland Sciences.
Supplementary Book(s):
References:
Materials:

Planned Learning Activities and Teaching Methods

Course will be performed by a series of presentations which include theoritical knowledge and related-examples with the subjects. It is accepted that students should read about presentation subjects before coming to classroom.
Methods: Interactive presentations

Assessment Methods

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


Further Notes About Assessment Methods

None

Assessment Criteria

Understanding, learning, analyse, compare, actively contribution

Language of Instruction

Turkish

Course Policies and Rules

Actively contribution in class

Contact Details for the Lecturer(s)

e-posta. esra.erdal@deu.edu.tr Telefon: 412 4609 GSM: + 5324474637

Office Hours

Monday 12.30-13:30

Work Placement(s)

None

Workload Calculation

Activities Number Time (hours) Total Work Load (hours)
Lectures 16 3 48
Tutorials 16 2 32
Preparations before/after weekly lectures 16 3 48
Preparation for final exam 1 10 10
Preparation for quiz etc. 3 4 12
Other (elongations wet laboratory applications,..) 12 2 24
Preparing individual assignments 16 1 16
Final 1 3 3
Quiz etc. 3 3 9
TOTAL WORKLOAD (hours) 202

Contribution of Learning Outcomes to Programme Outcomes

PO/LOPO.1PO.2PO.3PO.4PO.5PO.6
LO.1554444
LO.2555
LO.3454444
LO.4555455
LO.545
LO.6454444
LO.7454444
LO.8454444
LO.9454444

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

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