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Code BIO 466
Term 201701
Title Biophysics: Molecules and Systems
Faculty Faculty of Engineering and Natural Sciences
Subject Mol.Bio.Genetic&Bioengin.(BIO)
SU Credit 3
ECTS Credit 6.00 / 6.00 ECTS (for students admitted in the 2013-14 Academic Year or following years)
Instructor(s) Deniz Sezer dsezer@sabanciuniv.edu,
Detailed Syllabus
Language of Instruction English
Level of Course Undergraduate
Type of Course Click here to view.
Prerequisites
(only for SU students)
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Mode of Delivery Formal lecture,Interactive lecture
Planned Learning Activities Interactive,Learner centered,Communicative,Task based learning
Content

Cells and organisms can be thought as self-replicating, -organizing and -regulating complex systems. The proper functioning these systems is dependent on networks of reactions involving macromolecules. This course focuses on physical principles governing behavior of biological macromolecules and their interactions, and investigates how concepts developed at macromolecular level can be applied to studies at systems level. Topics can be grouped under two main headings; introduction to molecular biophysics and understanding specific process of living systems through application of molecular biophysics principles. Topics of the introduction are molecular forces involved in the formation and interactions of acromolecules, reaction kinetics, molecular transport processes and energy generation and maintenance. Principles developed at molecular level will be used to analyze mechanisms two specific processes: movement and vision.

Objective

Refer to the course content

Learning Outcome

They will learn the basic math that will help them understand physics of diffusion and gradient forces in biological organisms.
Students will learn about state-of-the-art experimental approaches (electrophsiology, single molecule imaging) that tackle biological events happening at the nanometer scale.
They will be able to run simple simulations to explain biological events such as DNA folding and gene expression.

Programme Outcomes
 
Common Outcomes For All Programs
1 Understand the world, their country, their society, as well as themselves and have awareness of ethical problems, social rights, values and responsibility to the self and to others. 3
2 Understand different disciplines from natural and social sciences to mathematics and art, and develop interdisciplinary approaches in thinking and practice. 5
3 Think critically, follow innovations and developments in science and technology, demonstrate personal and organizational entrepreneurship and engage in life-long learning in various subjects. 4
4 Communicate effectively in Turkish and English by oral, written, graphical and technological means. 4
5 Take individual and team responsibility, function effectively and respectively as an individual and a member or a leader of a team; and have the skills to work effectively in multi-disciplinary teams. 4
1 Possess sufficient knowledge of mathematics, science and program-specific engineering topics; use theoretical and applied knowledge of these areas in complex engineering problems.
2 Identify, define, formulate and solve complex engineering problems; choose and apply suitable analysis and modeling methods for this purpose.
3 Develop, choose and use modern techniques and tools that are needed for analysis and solution of complex problems faced in engineering applications; possess knowledge of standards used in engineering applications; use information technologies effectively.
4 Ability to design a complex system, process, instrument or a product under realistic constraints and conditions, with the goal of fulfilling specified needs; apply modern design techniques for this purpose.
5 Design and conduct experiments, collect data, analyze and interpret the results to investigate complex engineering problems or program-specific research areas.
6 Knowledge of business practices such as project management, risk management and change management; awareness on innovation; knowledge of sustainable development.
7 Knowledge of impact of engineering solutions in a global, economic, environmental, health and societal context; knowledge of contemporary issues; awareness on legal outcomes of engineering solutions; understanding of professional and ethical responsibility.
1 Applying fundamental and advanced knowledge of natural sciences as well as engineering principles to develop and design new materials and establish the relation between internal structure and physical properties using experimental, computational and theoretical tools.
2 Merging the existing knowledge on physical properties, design limits and fabrication methods in materials selection for a particular application or to resolve material performance related problems.
3 Predicting and understanding the behavior of a material under use in a specific environment knowing the internal structure or vice versa.
1 Comprehend key concepts in biology and physiology, with emphasis on molecular genetics, biochemistry and molecular and cell biology as well as advanced mathematics and statistics.
2 Develop conceptual background for interfacing of biology with engineering for a professional awareness of contemporary biological research questions and the experimental and theoretical methods used to address them.
1 Familiarity with concepts in statistics and optimization, knowledge in basic differential and integral calculus, linear algebra, differential equations, complex variables, multi-variable calculus, as well as physics and computer science, and ability to use this knowledge in modeling, design and analysis of complex dynamical systems containing hardware and software components.
2 Ability to work in design, implementation and integration of engineering applications, such as electronic, mechanical, electromechanical, control and computer systems that contain software and hardware components, including sensors, actuators and controllers.
1 Use mathematics (including derivative and integral calculations, probability and statistics), basic sciences, computer and programming, and electronics engineering knowledge to design and analyze complex electronic circuits, instruments, software and electronics systems with hardware/software.
2 Analyze and design communication networks and systems, signal processing algorithms or software using advanced knowledge on differential equations, linear algebra, complex variables and discrete mathematics.
Assessment Methods and Criteria
  Percentage (%)
Final 35
Midterm 25
Written Report 13
Presentation 12
Homework 15
Recommended or Required Reading
Readings

Phillips, Kondev and Theriot, Physical Biology of the Cell, Garland Science, 2009.

Dill and Bromberg, Molecular Driving Forces Statistical Thermodynamics in Chemistry and Biology, Garland Science, 2003.