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biophysics - Coggle Diagram
biophysics
L9 Fluorescence 2
Quenching
dynamic f7
static f8
Stern-volmer relation f9
FRET quenching f10
Excitation f11
Anisotropy f12-13
Time dependent stokes shift f14
cholesterol f15
FRAP f16-17
Temperature jump fluorescence f18-end
L6 Absorption
Introduction f2-4
Light matter and spectroscopy basics f4-10
Beer lambert la2 f11-13
derivation f12
Spectrometry
diffraction gratings f14-16
spectrometer design f27
cerny-turner-monochromator
classic spectrometer f27
CCD-based miniaturized spectrometers f19
Photon detection methods f18
PMT
CCD
L4 observe in 2D
Light
basics f12
laser f14-15
polarisation f16
refraction and diffraction f19-21
limitations in light and
fluorescence microscopy f23-27
imaging techniques
Polarisation microscopy f17
Fluorescence Microscopy
confocal fluorescent microscopy f30
spinning disk confocal microscope f31
selective illumination
TIRF f35-37
TIRF-SIM f37
Two photon microscopy f39-40
localisation techniques
basics f42-45
FRET f47-48
Measure diffusion coefficients
FCS f51-55
L5 Manipulate
AFM
generating images f13-20
Escerting forces f22-24
MAgnetic Tweezers f25-33
Optical Tweezers f35-
how it works f36-59
how its built f60-72
biological applications
measuring entropic forces f78-87
studying material properties of
protein liquids f88-92
Studying eukaryotic transcription
one RNA polymerase II at a time f93-100
L7 Absorption 2
micro cuvettes f4
Absorption spectroscopy
different absorption coefficients f5
DNA and UV absorption
hypochromic effect f7
molecular cause for UV-vis absorption f8
orbital theory f19.end
L10 Infrared and Raman
vibrational modes f6 and IR
protein secondary
structure f7
Fingerprints f9
Fourier transform infrared
spectrometer f11-12
vibration scatter
Raman f16-22
ATR f13-14
L8 Absorption and Fluorescence
Absorption
Proteins and UV-vis spectroscopy f3-5
chirality and absorption f6-9
circular dichroism spectometer f8
Fluorescence
energy levels, vibrations
and stokes shift f10-13
Fluorescence vs phosphorescence f14
quantum yield f15
connection to beer lambert law
and harmonic oscillators f16-17
IR-radiation and nuclear vibration f18
vibrational vs electronic transitions f19-21
Born-oppenheimer and
Franck-codon principle f20
Fluorimeter f22
tryptophan emission and protein/
solvatochromic effect f23-end
L2 Molecular Driving Forces
fluctuations f5
Browning Motion f11
L1 Introduction