Illinois Physics 498: Introduction to Biological Physics
Lecture Number/Topic | Online Lecture | Video | Lecture Notes | Supplemental Material | Suggested Exercises |
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Lecture 1: Introduction to Biophysics | Notes (pdf) |
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Understanding biology using simple ideas from physics |
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Lecture 2: Central Dogma of Biology; Partition Function | Notes (pdf) |
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Nucleic Acids, DNA,RNA, Cell size, Nucleotides, Boltzman factor, Partition function |
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Lecture 3: Nucleic Acids, RNA, and Proteins | View Flash | Notes (pdf) |
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Nucleic Acids, Proteins, DNA Dimensions and Stability, How to make a nucleotide |
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Lecture 4 : Applications of DNA Technology: FISH, PCR, Forensics | View Flash | Notes (pdf) |
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FISH (Florescence In Situ Hybridization), Gene Arrays("Chips") can be made |
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Lecture 5: Magnetic Traps & DNA | View Flash | Notes (pdf) |
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Introduction I |
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Lecture 6: Magnetic Tweezers | View Flash | Notes (pdf) |
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Introduction II and Applications |
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Lecture 7: Single-Molecule of ATPase | Notes (pdf) |
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ATPase - How it produces ATP? |
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Lecture 8: Resolutions | View Flash | ||||
X-ray diffraction (atomic resolution)
Electron (Imaging) Microscopy (nm-scale)
Visible (Imaging) Microscopy (nm - µm) |
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Lecture 9: X-ray Structure and FIONA | View Flash | ||||
Accuracy vs. Resolution Measuring atomic distances Biomolecular Motors: Intra- AND Extra-Cellular Motion |
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Lecture 10: Mutagenesis | Notes (pdf) |
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Site-Directed Mutagenesis to Isolate and Mutate DNA (for FIONA) |
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Lecture 11: FIONA (Fluorescence Imaging with One Nanometer Accuracy) | View | Notes (pdf) Notes (ppt) |
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Fluorescence Imaging with One Nanometer Accuracy, Specificity to look at heads Nanometer spatial localization, Second temporal resolution, Single Molecule sensitivity Single Molecule Photostability |
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Lecture 12: Ultra-Resolution | View | Notes (pdf) Notes (ppt) |
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SHREC (Single molecule High Resolution Co localization), SHRIMP (Super-High Resolution Imaging with Photobleaching), DOPI (Defocused Orientation Position Imaging), PALM (PhotoActivated Localization... |
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Lecture 13: Enhancing Resolution - FIONA - SHREC - DOPI - PALM - STORM | Notes (pdf) Notes (ppt) |
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Current Methods of obtaining higher resolution using: FIONA : Flouresence Imaging with One Nanometer Accuracy SHREC : Single molecule High Resolution Co-localization DOPI : Defocused Orientation... |
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Lecture 14: FRET and Helicase Activity | View Flash | View | Notes (pdf) |
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FRET: measuring conformational changes of (single) biomolecules, Unzipping mystery of helicases |
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Lecture 15: Confocal and STED Microscopy | View Flash | Notes (pdf) |
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Confocal Detection, Energy Transfer, Confocal Microscopy, STED (Stimulated Emission Depletion),Improved resolution |
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Lecture 16: Optical Traps - Part 1 | View Flash | View | Notes (pdf) |
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First Optical Trap built, Reflection, Refraction, Brownian motionYann Chemla - Assistant Professor of Physics - University of Illinois at Champaign-Urbana |
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Lecture 17: Diffusion - Part 1 | View Flash | View | Notes (pdf) |
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Diffusion, Directed motors, Thermal motion, nerve synapse, Efficiency of Diffusion |
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Lecture 18: Magnetotaxis | Notes (pdf) |
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Biochemical Mechanisms for Magnetic Orientation in Animals, guest lecture Klaus Schulten. |
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Lecture 19: Optical Traps - Part2 | View | Notes (pdf) |
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Biological application of optical traps, High resolution optical trapping, Brownian noise |
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Lecture 20: Diffusion - Part2 | View Flash | View | Notes (pdf) |
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Diffusion and bacteria moving, power consumed by bacteria, Introduction to Reynolds number, Where Bacteria Live, How E. Coli move and swim, |
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Lecture 21: Nerves | View Flash | View | Notes (pdf) |
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Ion Channels,Ionic current, Gating current, Digital Ion Channels, Structural studies, X-ray Crystallography |
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Lecture 22: Conformational Changes in Ion Channels | View Flash | Notes (pdf) |
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Voltage dependence, Spontaneous shut-off, Nerve Impulse propagation, Structure Pore Domain, Voltage Sensor |
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Lecture 23: Vision | View Flash | View | Notes (pdf) |
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Summary of Ion Channels, Vision , Visual System, The Eye, Structure of the Eye, Signal Processing, Diffraction and Pupil |
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Lecture 24: The 4 Molecules of life | View Flash | View | Notes (pdf) |
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Atoms, Molecules, Macromolecules, you!
Amino Acids, Sugars used as signals, Fatty Acids/Lipids |