Test-Teaching
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= Light Microscopy = | = Light Microscopy = | ||
| − | == Principles of | + | == Principles of Light Microscopy == |
| − | '''Peter Evennett Course'''<br> | + | The materials presented here contain basic information about the physics of light, the optics of lenses and the components of a microscope. |
| − | + | ||
| − | * [[media:Evennett_oct2008_01_principles-of-microscopy.pdf|Principles of Light Microscopy]] | + | '''Materials from the Peter Evennett Course'''<br> |
| + | * [[media:Evennett_oct2008_01_principles-of-microscopy-part-1.pdf|Principles of Light Microscopy]] | ||
* [[media:Evennett_oct2008_02_lens-aberrations.pdf|Lens Aberrations ]] | * [[media:Evennett_oct2008_02_lens-aberrations.pdf|Lens Aberrations ]] | ||
| − | ''' | + | '''Materials from the BioDIP Course (2008)'''<br> |
| − | + | * [[media:Microscopy_principles_guide-part-1.pdf|Basics of Microscopy (2008)]] | |
| − | == | + | == Illumination == |
| − | * [[media:Ibarra_how-to-set-koehler-illumination.pdf|Köhler Illumination (2008)]] | + | This section contains information about proper illumination of your sample in the microscope and details on one method termed "Köhler Illumination". |
| − | == Image Formation == | + | |
| − | * [[media:Evennett_oct2008_03_diffraction.pdf|Diffraction ]] | + | '''Materials from the Peter Evennett Course'''<br> |
| − | + | * [[media:Evennett_oct2008_01_principles-of-microscopy-part-2.pdf|Microscope Illumination]] | |
| − | == Contrast | + | '''Materials from the BioDIP Course (2008)'''<br> |
| − | * [[media: | + | * [[media:Microscopy_principles_guide-part-2.pdf|Microscope Illumination (2008)]] |
| − | * [[media: | + | * [[media:Ibarra_how-to-set-koehler-illumination.pdf|How to set Köhler Illumination (2008)]] |
| − | === Dark | + | |
| − | === Phase contrast microscopy=== | + | == Theory of Image Formation == |
| + | |||
| + | This section describes how the microscopical image is formed by diffraction and what consequences (like resolution) arise from that. | ||
| + | |||
| + | '''Materials from the Peter Evennett Course'''<br> | ||
| + | * [[media:Evennett_oct2008_03_diffraction.pdf|Diffraction and the Microscope Image]] | ||
| + | |||
| + | A video by Peter Evennett showing Abbes diffraction experiments can be found [[Peter_Evennett_-_Abbe_Diffraction_Experiments|here]] or on [http://vimeo.com/user795818/videos/sort:oldest Vimeo (in HD)]. | ||
| + | |||
| + | '''Materials from the BioDIP Course (2008)'''<br> | ||
| + | * [[media:Contrasting techniques-1.pdf|Diffraction ]] | ||
| + | |||
| + | == Contrast Techniques for Transmitted Light Microscopy== | ||
| + | Different techniques exist to enhance the contrast in your sample. In this section these contrasting techniques are described. | ||
| + | |||
| + | '''Materials from the Peter Evennett Course'''<br> | ||
| + | * [[media:Evennett oct2008 04 contrast-1.pdf|Contrast]] | ||
| + | '''Materials from the BioDIP Course (2008)'''<br> | ||
| + | * [[media:Contrasting_techniques-2.pdf|Contrasting Techniques]] | ||
| + | === Dark Field Microscopy=== | ||
| + | '''Materials from the Peter Evennett Course'''<br> | ||
| + | * [[media:Evennett oct2008 04 contrast-2-dark-field.pdf|Dark Field Microscopy]] | ||
| + | '''Materials from the BioDIP Course (2008)'''<br> | ||
| + | * [[media:Contrasting_techniques-3-dark-field.pdf|Dark Field Microscopy]] | ||
| + | === Phase Contrast Microscopy=== | ||
| + | '''Materials from the Peter Evennett Course'''<br> | ||
| + | * [[media:Evennett oct2008 04 contrast-3-phase-contrast.pdf|Phase Contrast Microscopy]] | ||
| + | '''Materials from the BioDIP Course (2008)'''<br> | ||
| + | * [[media:Contrasting_techniques-4-phase contrast.pdf|Phase Contrast Microscopy]] | ||
| + | === Polarized Light microscopy=== | ||
| + | '''Materials from the Peter Evennett Course'''<br> | ||
| + | * [[media:Evennett_oct2008_05_polarised-light.pdf|Polarized Light Microscopy]] | ||
| + | '''Materials from the BioDIP Course (2008)'''<br> | ||
| + | * [[media:Contrasting_techniques-5-polarized light.pdf|Polarized Light Microscopy]] | ||
=== Differential Interference Contrast (DIC) microscopy=== | === Differential Interference Contrast (DIC) microscopy=== | ||
| − | * [[media:Evennett_oct2008_06_interference-contrast.pdf| | + | '''Materials from the Peter Evennett Course'''<br> |
| − | + | * [[media:Evennett_oct2008_06_interference-contrast.pdf|DIC Microscopy]] | |
| − | * [[media: | + | '''Materials from the BioDIP Course (2008)'''<br> |
| + | * [[media:Contrasting_techniques-6-DIC.pdf|DIC Microscopy]] | ||
| + | |||
== Stereomicroscopy == | == Stereomicroscopy == | ||
| + | '''Peter Evennett Course'''<br> | ||
* [[media:Stereomicroscopes_notes.pdf|Stereomicroscopes]] | * [[media:Stereomicroscopes_notes.pdf|Stereomicroscopes]] | ||
| − | == Fluorescence | + | '''BioDIP Course (2008)'''<br> |
| + | |||
| + | == Fluorescence Microscopy == | ||
| + | '''Peter Evennett Course'''<br> | ||
* [[media:Fluorescence_notes.pdf|Fluorescence Microscopy]] | * [[media:Fluorescence_notes.pdf|Fluorescence Microscopy]] | ||
* [[media:Fluorescence_basics.pdf| Basics of fluorescence Microscopy]] | * [[media:Fluorescence_basics.pdf| Basics of fluorescence Microscopy]] | ||
| + | '''BioDIP Course (2008)'''<br> | ||
* [[media:Fluorescence_Imaging.pdf|Fluorescence Imaging (2008)]] | * [[media:Fluorescence_Imaging.pdf|Fluorescence Imaging (2008)]] | ||
| − | + | '''External Resources'''<br> | |
| − | + | ||
| − | + | ||
* [[media:OpticalFilters_EssentialTools_08-12-09.pdf| Optical Filters - Essential Tools by Dr. Michael Sommerauer (AHF)]] | * [[media:OpticalFilters_EssentialTools_08-12-09.pdf| Optical Filters - Essential Tools by Dr. Michael Sommerauer (AHF)]] | ||
* [[media:OpticalFilters_SpecifyingFilters_08-12-09.pdf| Optical Filters - Specifying Filters by Dr. Michael Sommerauer (AHF)]] | * [[media:OpticalFilters_SpecifyingFilters_08-12-09.pdf| Optical Filters - Specifying Filters by Dr. Michael Sommerauer (AHF)]] | ||
= Advanced Microscopy = | = Advanced Microscopy = | ||
| − | + | '''Materials from the Peter Evennett Course'''<br> | |
| − | + | ||
| − | + | ||
| − | + | ||
| − | + | ||
* [[media:Confocal_notes.pdf|Confocal Microscopy]] | * [[media:Confocal_notes.pdf|Confocal Microscopy]] | ||
* [[media:Optical_Sectioning_ProsAndCons10-2009.pdf|Optical Sectioning Methods - pros and cons (LMF)]] | * [[media:Optical_Sectioning_ProsAndCons10-2009.pdf|Optical Sectioning Methods - pros and cons (LMF)]] | ||
* [[media:DeconvolutionAndOpticalSectioning-prosandcons-11-2010.pdf|Deconvolution and Optical Sectioning - pros and cons-11-2010]] | * [[media:DeconvolutionAndOpticalSectioning-prosandcons-11-2010.pdf|Deconvolution and Optical Sectioning - pros and cons-11-2010]] | ||
| + | At [http://vimeo.com/user795818/videos/sort:oldest Vimeo(in HD)] we deposited some videos showing cool SPIM 3D reconstructions and the effects of the confocal pinhole etc.<br> | ||
| − | + | '''Materials from the BioDIP Course (2008)'''<br> | |
* [[media:CCD_intro_2008_oct.pdf|CCD Imaging (2008)]] | * [[media:CCD_intro_2008_oct.pdf|CCD Imaging (2008)]] | ||
* [[media:Digital_imaging_oct_2008.pdf|Digital Imaging (2008)]] | * [[media:Digital_imaging_oct_2008.pdf|Digital Imaging (2008)]] | ||
| − | + | * [[media:FRET.pdf|FRET by Mike Lorenz (2009)]] | |
| − | [ | + | * [[media:FLIM.pdf|FLIM by Mike Lorenz (2009)]] |
| − | + | * [[media:How_to_do_FRET.pdf|How to do FRET by Mike Lorenz (2009)]] | |
| − | + | * [[media:FLIM-FRET_data_examples.pdf|FLIM-FRET data examples by Mike Lorenz (2009)]] | |
= Image Processing = | = Image Processing = | ||
Latest revision as of 17:37, 16 January 2014
delete gallery page and integrate it here
Contents |
[edit] Light Microscopy
[edit] Principles of Light Microscopy
The materials presented here contain basic information about the physics of light, the optics of lenses and the components of a microscope.
Materials from the Peter Evennett Course
Materials from the BioDIP Course (2008)
[edit] Illumination
This section contains information about proper illumination of your sample in the microscope and details on one method termed "Köhler Illumination".
Materials from the Peter Evennett Course
Materials from the BioDIP Course (2008)
[edit] Theory of Image Formation
This section describes how the microscopical image is formed by diffraction and what consequences (like resolution) arise from that.
Materials from the Peter Evennett Course
A video by Peter Evennett showing Abbes diffraction experiments can be found here or on Vimeo (in HD).
Materials from the BioDIP Course (2008)
[edit] Contrast Techniques for Transmitted Light Microscopy
Different techniques exist to enhance the contrast in your sample. In this section these contrasting techniques are described.
Materials from the Peter Evennett Course
Materials from the BioDIP Course (2008)
[edit] Dark Field Microscopy
Materials from the Peter Evennett Course
Materials from the BioDIP Course (2008)
[edit] Phase Contrast Microscopy
Materials from the Peter Evennett Course
Materials from the BioDIP Course (2008)
[edit] Polarized Light microscopy
Materials from the Peter Evennett Course
Materials from the BioDIP Course (2008)
[edit] Differential Interference Contrast (DIC) microscopy
Materials from the Peter Evennett Course
Materials from the BioDIP Course (2008)
[edit] Stereomicroscopy
Peter Evennett Course
BioDIP Course (2008)
[edit] Fluorescence Microscopy
Peter Evennett Course
BioDIP Course (2008)
External Resources
- Optical Filters - Essential Tools by Dr. Michael Sommerauer (AHF)
- Optical Filters - Specifying Filters by Dr. Michael Sommerauer (AHF)
[edit] Advanced Microscopy
Materials from the Peter Evennett Course
- Confocal Microscopy
- Optical Sectioning Methods - pros and cons (LMF)
- Deconvolution and Optical Sectioning - pros and cons-11-2010
At Vimeo(in HD) we deposited some videos showing cool SPIM 3D reconstructions and the effects of the confocal pinhole etc.
Materials from the BioDIP Course (2008)
- CCD Imaging (2008)
- Digital Imaging (2008)
- FRET by Mike Lorenz (2009)
- FLIM by Mike Lorenz (2009)
- How to do FRET by Mike Lorenz (2009)
- FLIM-FRET data examples by Mike Lorenz (2009)
[edit] Image Processing
[edit] IPF Image Processing Courses
- What you need to know about Image Analysis - updated Oct 2011
- Quantitative Imaging for Colocalization Analysis (updated Oct 2011)
- Introduction to Fiji and Macro Programming (updated Jul 2011)
- Quantitative Imaging and Image Processing/Analysis 10-2009 (IPF)
- Quantitative Imaging and Basic Image Processing (2008)
[edit] General Image Processing reading material
[edit] DIPP course from the TDS of the MPI-CBG
[edit] Matlab
See also the handouts of the Matlab for biologists course at the Light Microscopy Centre of the ETH Zürich and the materials of the Matlab programming course for Biophysicists at Universidad Autónoma de Madrid.
[edit] Courses
[edit] Peter Evennett Course
Twice a year the BioDIP team together with Peter Evennett organizes a basic course about microscopy.
[edit] Schedules/Content
[edit] Impression from the Peter Evennett course 2007
course announcement
Peter Evennett and Humberto at the optical bench
room overview - 2nd floor galeria
Peter at his demo microscope
it's all about lenses
Jan
the optical bench
Peter at the condenser
demonstration of refractive index with a cup, a coin and water
Peter Evennett
Peter & Peter, setting up the demo microscope
Tim Cross, finally at the pipette
