PhD Course Nov 09
From BioDIP
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|align="center" style="background:Moccasin;"|''DEMO'' | |align="center" style="background:Moccasin;"|''DEMO'' | ||
|align="center" style="background:Moccasin;"|''Optical Bench''||align="center" style="background:Moccasin;"|''LMF TEAM'' | |align="center" style="background:Moccasin;"|''Optical Bench''||align="center" style="background:Moccasin;"|''LMF TEAM'' | ||
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|align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | |align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
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| 11:00||12:30||align="center"|LECTURE 1|| align="center" |Basics in Optics <br> Characteristics of light <br> Light sources <br> Reflection, Absorption, Refraction <br>Diffraction-Demo||align="center" |Humberto | | 11:00||12:30||align="center"|LECTURE 1|| align="center" |Basics in Optics <br> Characteristics of light <br> Light sources <br> Reflection, Absorption, Refraction <br>Diffraction-Demo||align="center" |Humberto | ||
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|align="center" style="background:Moccasin;"|''Activity 1 <br> (Group Rotation)'' | |align="center" style="background:Moccasin;"|''Activity 1 <br> (Group Rotation)'' | ||
|align="left" style="background:Moccasin;"|''1) Capillary + oil and Coin in glass <br> 2) Laser refraction + reflection <br> 3) Different immersion objectives - Demo Tirf Obective''||align="left" style="background:Moccasin;"|''1) Pete <br> 2) Silke <br> 3) Britta'' | |align="left" style="background:Moccasin;"|''1) Capillary + oil and Coin in glass <br> 2) Laser refraction + reflection <br> 3) Different immersion objectives - Demo Tirf Obective''||align="left" style="background:Moccasin;"|''1) Pete <br> 2) Silke <br> 3) Britta'' | ||
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|align="center" style="background:DarkKhaki;"|'''LUNCH'''||align="center" style="background:DarkKhaki;"|'''LUNCH''' | |align="center" style="background:DarkKhaki;"|'''LUNCH'''||align="center" style="background:DarkKhaki;"|'''LUNCH''' | ||
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| 13:30||15:30||align="center"|Lecture 2|| align="center" |Introduction to lenses <br> Lens abberration <br> Understanding Ray optics||align="center" |Humberto | | 13:30||15:30||align="center"|Lecture 2|| align="center" |Introduction to lenses <br> Lens abberration <br> Understanding Ray optics||align="center" |Humberto | ||
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|align="left" style="background:Moccasin;"|''1) Finding focal point of lenses + infinity + Colour fringes <br> 2) Virtual and real images. 25cm distance <br> 3) Image of Arrow in the microscope (upright and inverted)''||align="left" style="background:Moccasin;"|''1) Jan <br> 2) Humberto <br> 3) Pete + Britta'' | |align="left" style="background:Moccasin;"|''1) Finding focal point of lenses + infinity + Colour fringes <br> 2) Virtual and real images. 25cm distance <br> 3) Image of Arrow in the microscope (upright and inverted)''||align="left" style="background:Moccasin;"|''1) Jan <br> 2) Humberto <br> 3) Pete + Britta'' | ||
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| style="background:DarkKhaki;"|'''15:30''' | | style="background:DarkKhaki;"|'''15:30''' | ||
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|align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | |align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
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| 15:50||17:00||align="center"|Lecture 3|| align="center" |Microscope components <br> Focusing, Field of View, Depth of field, depth of focus <br> Planes (filament Demo) <br> Conjugated planes <br> Koehler illumination||align="center" |Humberto | | 15:50||17:00||align="center"|Lecture 3|| align="center" |Microscope components <br> Focusing, Field of View, Depth of field, depth of focus <br> Planes (filament Demo) <br> Conjugated planes <br> Koehler illumination||align="center" |Humberto | ||
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| 9:00||10:00||align="center"|INTRODUCTION <br> (groups of 3)||align="center" | Koehler Exercise <br> Questions||align="center" |LMF TEAM | | 9:00||10:00||align="center"|INTRODUCTION <br> (groups of 3)||align="center" | Koehler Exercise <br> Questions||align="center" |LMF TEAM | ||
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| 10:00||11:00||align="center"|LECTURE 4|| align="center" |The Eye <br> Numerical Aperture <br> Diffraction||align="center" |Humberto | | 10:00||11:00||align="center"|LECTURE 4|| align="center" |The Eye <br> Numerical Aperture <br> Diffraction||align="center" |Humberto | ||
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|align="center" style="background:Moccasin;"|''Activity 6'' | |align="center" style="background:Moccasin;"|''Activity 6'' | ||
|align="center" style="background:Moccasin;"|''Airy disk on the microscope on mirror''||align="center" style="background:Moccasin;"|''LMF TEAM'' | |align="center" style="background:Moccasin;"|''Airy disk on the microscope on mirror''||align="center" style="background:Moccasin;"|''LMF TEAM'' | ||
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|align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | |align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
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| 11:15||11:30||align="center"|DEMO 1|| align="center" |Aperture (Objective and Condenser) - Cube||align="center" |Humberto | | 11:15||11:30||align="center"|DEMO 1|| align="center" |Aperture (Objective and Condenser) - Cube||align="center" |Humberto | ||
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|align="left" style="background:Moccasin;"|''1) Objective cleaning + NA reading + Coverslip thickness measurement <br> 2) Diffraction Exercise on microscope <br> 3) Fluorescent beads with variable NA''||align="left" style="background:Moccasin;"|1) Pete <br> 2) Dan <br> 3) Britta | |align="left" style="background:Moccasin;"|''1) Objective cleaning + NA reading + Coverslip thickness measurement <br> 2) Diffraction Exercise on microscope <br> 3) Fluorescent beads with variable NA''||align="left" style="background:Moccasin;"|1) Pete <br> 2) Dan <br> 3) Britta | ||
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| style="background:DarkKhaki;"|'''13:00''' | | style="background:DarkKhaki;"|'''13:00''' | ||
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|align="center" style="background:DarkKhaki;"|'''LUNCH'''||align="center" style="background:DarkKhaki;"|'''LUNCH''' | |align="center" style="background:DarkKhaki;"|'''LUNCH'''||align="center" style="background:DarkKhaki;"|'''LUNCH''' | ||
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| 14:00||15:45||align="center"|Lecture 5|| align="center" |Contrasting techniques I (Dark field + Phase contrast)||align="center" |Humberto | | 14:00||15:45||align="center"|Lecture 5|| align="center" |Contrasting techniques I (Dark field + Phase contrast)||align="center" |Humberto | ||
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|align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | |align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
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| 16:00||18:00||align="center"|Lecture 6|| align="center" |Contrasting techniques II (Polarization + DIC)||align="center" |Humberto | | 16:00||18:00||align="center"|Lecture 6|| align="center" |Contrasting techniques II (Polarization + DIC)||align="center" |Humberto | ||
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| 9:00||9:45||align="center"|INTRODUCTION <br> (groups of 3)||align="center" |Questions||align="center" |LMF TEAM | | 9:00||9:45||align="center"|INTRODUCTION <br> (groups of 3)||align="center" |Questions||align="center" |LMF TEAM | ||
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| 9:45||10:45||align="center"|LECTURE 7|| align="center" |Objectives <br> Objective correction <br> Infinity optics||align="center" |Humberto | | 9:45||10:45||align="center"|LECTURE 7|| align="center" |Objectives <br> Objective correction <br> Infinity optics||align="center" |Humberto | ||
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|align="center" style="background:Moccasin;"|''1) Lens Abberration <br> 2) Objective reading <br> 3) Infinity optics on optical bench''||align="center" style="background:Moccasin;"|1) Humberto <br> 2) Silke <br> 3) Jan + Dan | |align="center" style="background:Moccasin;"|''1) Lens Abberration <br> 2) Objective reading <br> 3) Infinity optics on optical bench''||align="center" style="background:Moccasin;"|1) Humberto <br> 2) Silke <br> 3) Jan + Dan | ||
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| 11:45||12:15||align="center"|LECTURE 8|| align="center" |Basics of Fluorescence <br> Fluorochromes||align="center" |Dan | | 11:45||12:15||align="center"|LECTURE 8|| align="center" |Basics of Fluorescence <br> Fluorochromes||align="center" |Dan | ||
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|align="center" style="background:DarkKhaki;"|'''LUNCH'''||align="center" style="background:DarkKhaki;"|'''LUNCH''' | |align="center" style="background:DarkKhaki;"|'''LUNCH'''||align="center" style="background:DarkKhaki;"|'''LUNCH''' | ||
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| 13:15||15:00||align="center"|LECTURE 9 (interactive)|| align="center" |Fluorescence Microscopy <br> Filters||align="center" | | | 13:15||15:00||align="center"|LECTURE 9 (interactive)|| align="center" |Fluorescence Microscopy <br> Filters||align="center" | | ||
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|align="center" style="background:Moccasin;"|''Fluorescence imaging''||align="center" style="background:Moccasin;"|''LMF TEAM'' | |align="center" style="background:Moccasin;"|''Fluorescence imaging''||align="center" style="background:Moccasin;"|''LMF TEAM'' | ||
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| 15:00||15:45||align="center"|Lecture 10|| align="center" |CCD||align="center" |Britta | | 15:00||15:45||align="center"|Lecture 10|| align="center" |CCD||align="center" |Britta | ||
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| 16:00||16:45||align="center"|Lecture 11|| align="center" |Digital Imaging||align="center" |Dan | | 16:00||16:45||align="center"|Lecture 11|| align="center" |Digital Imaging||align="center" |Dan | ||
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| 9:00||9:45||align="center"|INTRODUCTION <br> (groups of 3)||align="center" |Questions <br> Filter reading||align="center" |LMF TEAM | | 9:00||9:45||align="center"|INTRODUCTION <br> (groups of 3)||align="center" |Questions <br> Filter reading||align="center" |LMF TEAM | ||
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− | | 9:45||10:15||align="center"|LECTURE | + | | 9:45||10:15||align="center"|LECTURE 12a|| align="center" |Optical sectioning||align="center" |Jan |
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|align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | |align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
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− | | 10:30||12:00||align="center"|LECTURE | + | | 10:30||12:00||align="center"|LECTURE 12b|| align="center" |Confocal Microscopy <br> Multiphoton microscopy <br> Spinning disc <br> TIRF <br> Project discussions||align="center" |Jan |
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| 9:00||10:00||align="center"|INTRODUCTION <br> (groups of 3)||align="center" |Questions||align="center" |LMF TEAM | | 9:00||10:00||align="center"|INTRODUCTION <br> (groups of 3)||align="center" |Questions||align="center" |LMF TEAM | ||
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− | | 10:00||11:30||align="center"|LECTURE | + | | 10:00||11:30||align="center"|LECTURE 13a|| align="center" |Digital Images <br> What is image processing||align="center" |Dan |
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|align="center" style="background:Moccasin;"|''Activity 14'' | |align="center" style="background:Moccasin;"|''Activity 14'' | ||
|align="center" style="background:Moccasin;"|''Fiji (... is just ImageJ)''||align="center" style="background:Moccasin;"| | |align="center" style="background:Moccasin;"|''Fiji (... is just ImageJ)''||align="center" style="background:Moccasin;"| | ||
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− | | 11:45||13:00||align="center"|LECTURE | + | | 11:45||13:00||align="center"|LECTURE 13b|| align="center" |Image processing||align="center" |Dan |
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| 14:00||15:30|||| align="center" |LMF booking database <br> IFN concept, members and Wiki <br> Final discussion ||align="center" |IFN | | 14:00||15:30|||| align="center" |LMF booking database <br> IFN concept, members and Wiki <br> Final discussion ||align="center" |IFN | ||
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Revision as of 16:46, 6 November 2009
Contents |
PhD Course Nov 09
Friday 13th Nov
Setup - all lmf staff move stuff to galleria Equipment needed
- Microscopes
- Optical bench
- Spinning disk gadget
- Polarazing sheets
- Diffraction Grids
- Fluorescent samples
- Fluorescent Beads (Prepare slides)
- First day Handout for students
- Light torches
DAY ONE (Monday)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 10:30 | INTRODUCTION | GROUP PRESENTATION Wishes for the course The ideal microsocpe |
LMF TEAM |
DEMO | Optical Bench | LMF TEAM | ||
10:30 | 11:00 | BREAK | BREAK | BREAK |
11:00 | 12:30 | LECTURE 1 | Basics in Optics Characteristics of light Light sources Reflection, Absorption, Refraction Diffraction-Demo |
Humberto |
Activity 1 (Group Rotation) |
1) Capillary + oil and Coin in glass 2) Laser refraction + reflection 3) Different immersion objectives - Demo Tirf Obective |
1) Pete 2) Silke 3) Britta | ||
12:30 | 13:30 | LUNCH | LUNCH | LUNCH |
13:30 | 15:30 | Lecture 2 | Introduction to lenses Lens abberration Understanding Ray optics |
Humberto |
Activity 2 | Ray optics Drawing ray diagrams |
|||
Activity 3 (Group Rotation) |
1) Finding focal point of lenses + infinity + Colour fringes 2) Virtual and real images. 25cm distance 3) Image of Arrow in the microscope (upright and inverted) |
1) Jan 2) Humberto 3) Pete + Britta | ||
15:30 | 15:50 | BREAK | BREAK | BREAK |
15:50 | 17:00 | Lecture 3 | Microscope components Focusing, Field of View, Depth of field, depth of focus Planes (filament Demo) Conjugated planes Koehler illumination |
Humberto |
17:00 | 18:30 | Activity 4 | Glass cube demo and practise Koehler illumination |
LMF TEAM |
DAY TWO (TUESDAY)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 10:00 | INTRODUCTION (groups of 3) |
Koehler Exercise Questions |
LMF TEAM |
10:00 | 11:00 | LECTURE 4 | The Eye Numerical Aperture Diffraction |
Humberto |
Activity 5 | Diffraction grids / gratings | |||
Activity 6 | Airy disk on the microscope on mirror | LMF TEAM | ||
11:00 | 11:15 | BREAK | BREAK | BREAK |
11:15 | 11:30 | DEMO 1 | Aperture (Objective and Condenser) - Cube | Humberto |
Activity 7 | 1) Objective cleaning + NA reading + Coverslip thickness measurement 2) Diffraction Exercise on microscope 3) Fluorescent beads with variable NA |
1) Pete 2) Dan 3) Britta | ||
13:00 | 14:00 | LUNCH | LUNCH | LUNCH |
14:00 | 15:45 | Lecture 5 | Contrasting techniques I (Dark field + Phase contrast) | Humberto |
Activity 8 (4 groups) |
Dark field and Phase contrast | LMF TEAM | ||
15:45 | 16:00 | BREAK | BREAK | BREAK |
16:00 | 18:00 | Lecture 6 | Contrasting techniques II (Polarization + DIC) | Humberto |
Activity 9 (4 groups) |
Polarization foil Polarization on microscope DIC on microsocpe |
LMF TEAM |
DAY THREE (Wednesday)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 9:45 | INTRODUCTION (groups of 3) |
Questions | LMF TEAM |
9:45 | 10:45 | LECTURE 7 | Objectives Objective correction Infinity optics |
Humberto |
10:45 | 11:00 | BREAK | BREAK | BREAK |
11:00 | 11:45 | Activity 10 | 1) Lens Abberration 2) Objective reading 3) Infinity optics on optical bench |
1) Humberto 2) Silke 3) Jan + Dan |
11:45 | 12:15 | LECTURE 8 | Basics of Fluorescence Fluorochromes |
Dan |
12:15 | 13:15 | LUNCH | LUNCH | LUNCH |
13:15 | 15:00 | LECTURE 9 (interactive) | Fluorescence Microscopy Filters |
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Activity 11 | Fluorescence imaging | LMF TEAM | ||
15:00 | 15:45 | Lecture 10 | CCD | Britta |
15:45 | 16:00 | BREAK | BREAK | BREAK |
16:00 | 16:45 | Lecture 11 | Digital Imaging | Dan |
16:45 | 18:30 | Activity 12 | Mercury lamp exchange and alignment Wide field systems + CCD |
LMF TEAM |
DAY FOUR (Thursday)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 9:45 | INTRODUCTION (groups of 3) |
Questions Filter reading |
LMF TEAM |
9:45 | 10:15 | LECTURE 12a | Optical sectioning | Jan |
10:15 | 10:30 | BREAK | BREAK | BREAK |
10:30 | 12:00 | LECTURE 12b | Confocal Microscopy Multiphoton microscopy Spinning disc TIRF Project discussions |
Jan |
12:00 | 13:00 | LUNCH | LUNCH | LUNCH |
13:00 | 14:30 | Activity 13a | SYSTEM ROTATION Leica confocal, Spinning disc, Delta Vision |
Pete, Britta, Dan |
14:30 | 14:45 | BREAK | BREAK | BREAK |
14:45 | 16:15 | Activity 13b | SYSTEM ROTATION Leica confocal, Spinning disc, Delta Vision |
Pete, Britta, Dan |
16:15 | 16:30 | BREAK | BREAK | BREAK |
16:30 | 18:00 | Activity 13c | SYSTEM ROTATION Leica confocal, Spinning disc, Delta Vision |
Pete, Britta, Dan |
DAY Five (Friday)
Please bring your own laptop and preinstall Fiji!!!
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 10:00 | INTRODUCTION (groups of 3) |
Questions | LMF TEAM |
10:00 | 11:30 | LECTURE 13a | Digital Images What is image processing |
Dan |
Activity 14 | Fiji (... is just ImageJ) | |||
11:30 | 11:45 | BREAK | BREAK | BREAK |
11:45 | 13:00 | LECTURE 13b | Image processing | Dan |
Activity 14 | Fiji (... is just ImageJ) | |||
13:00 | 14:00 | LUNCH | LUNCH | LUNCH |
14:00 | 15:30 | LMF booking database IFN concept, members and Wiki Final discussion |
IFN |