PhD Course Nov 09
From BioDIP
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 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 + DV oil box''||align="left" style="background:Moccasin;"|''1) Pete <br> 2) Silke <br> 3) Britta'' |
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 2'' |
|align="center" style="background:Moccasin;"|''Ray optics <br> Drawing ray diagrams''||align="left" style="background:Moccasin;"| | |align="center" style="background:Moccasin;"|''Ray optics <br> Drawing ray diagrams''||align="left" style="background:Moccasin;"| | ||
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 3 <br> (Group Rotation)'' |
|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:Moccasin;"|''17:00'' | | style="background:Moccasin;"|''17:00'' | ||
| style="background:Moccasin;"|''18:30'' | | style="background:Moccasin;"|''18:30'' | ||
− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 4'' |
− | |align="center" style="background:Moccasin;"|''Glass cube demo and practise <br> Koehler illumination''||align="center" style="background:Moccasin;"|''LMF TEAM'' | + | |align="center" style="background:Moccasin;"|''Glass cube demo and practise <br> Focusing; Depth of field / focus<br> Koehler illumination''||align="center" style="background:Moccasin;"|''LMF TEAM'' |
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 5'' |
|align="center" style="background:Moccasin;"|''Diffraction grids / gratings''||align="center" style="background:Moccasin;"| | |align="center" style="background:Moccasin;"|''Diffraction grids / gratings''||align="center" style="background:Moccasin;"| | ||
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 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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| style="background:DarkKhaki;"|'''11:00''' | | style="background:DarkKhaki;"|'''11:00''' | ||
− | | style="background:DarkKhaki;"|'''11: | + | | style="background:DarkKhaki;"|'''11:20''' |
|align="center" style="background:DarkKhaki;"|'''BREAK''' | |align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
|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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− | | | + | | style="background:Moccasin;"|''11:20'' |
+ | | style="background:Moccasin;"|''12:40'' | ||
+ | |align="center" style="background:Moccasin;"|''Practical 7'' | ||
+ | |align="left" style="background:Moccasin;"|''1) Apertures (Objectives and Condenser) - Cube <br> 2) NA Objectives - angle measurements <br> 3) Diffraction Exercise on microscope <br> 4) Fluorescent beads with variable NA''||align="left" style="background:Moccasin;"|1) Humberto <br> 2) Silke <br> 3) Dan <br> 4) Britta | ||
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− | | | + | | style="background:DarkKhaki;"|'''12:40''' |
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− | | style="background:DarkKhaki;"|'''13: | + | |
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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''' | |align="center" style="background:DarkKhaki;"|'''LUNCH'''||align="center" style="background:DarkKhaki;"|'''LUNCH''' | ||
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− | | | + | | 13:40||15:30||align="center"|Lecture 5|| align="center" |Contrasting techniques I <br> Dark field + Phase contrast||align="center" |Humberto |
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 8 <br> (4 groups)'' |
|align="center" style="background:Moccasin;"|''Dark field and Phase contrast''||align="center" style="background:Moccasin;"|''LMF TEAM'' | |align="center" style="background:Moccasin;"|''Dark field and Phase contrast''||align="center" style="background:Moccasin;"|''LMF TEAM'' | ||
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+ | | style="background:DarkKhaki;"|'''15:30''' | ||
| style="background:DarkKhaki;"|'''15:45''' | | style="background:DarkKhaki;"|'''15:45''' | ||
− | |||
|align="center" style="background:DarkKhaki;"|'''BREAK''' | |align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
|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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− | | | + | | 15:45||17:45||align="center"|Lecture 6|| align="center" |Contrasting techniques II <br> Polarization + DIC||align="center" |Humberto |
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 9 <br> (4 groups)'' |
|align="center" style="background:Moccasin;"|''Polarization foil <br> Polarization on microscope <br> DIC on microsocpe''||align="center" style="background:Moccasin;"|''LMF TEAM'' | |align="center" style="background:Moccasin;"|''Polarization foil <br> Polarization on microscope <br> DIC on microsocpe''||align="center" style="background:Moccasin;"|''LMF TEAM'' | ||
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| style="background:Moccasin;"|''11:00'' | | style="background:Moccasin;"|''11:00'' | ||
| style="background:Moccasin;"|''11:45'' | | style="background:Moccasin;"|''11:45'' | ||
− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 10'' |
− | |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 | + | |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 |
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 11'' |
|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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| style="background:Moccasin;"|''16:45'' | | style="background:Moccasin;"|''16:45'' | ||
| style="background:Moccasin;"|''18:30'' | | style="background:Moccasin;"|''18:30'' | ||
− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 12 (4 groups)'' |
|align="center" style="background:Moccasin;"|''Mercury lamp exchange and alignment <br> Wide field systems + CCD''||align="center" style="background:Moccasin;"|''LMF TEAM'' | |align="center" style="background:Moccasin;"|''Mercury lamp exchange and alignment <br> Wide field systems + CCD''||align="center" style="background:Moccasin;"|''LMF TEAM'' | ||
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− | | 9:45||10:15||align="center"|LECTURE 12a|| align="center" |Optical sectioning||align="center" | | + | | 9:45||10:15||align="center"|LECTURE 12a|| align="center" |Optical sectioning||align="center" |Dan |
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− | | 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" | | + | | 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" |Dan |
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| style="background:Moccasin;"|''13:00'' | | style="background:Moccasin;"|''13:00'' | ||
| style="background:Moccasin;"|''14:30'' | | style="background:Moccasin;"|''14:30'' | ||
− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 13a'' |
|align="center" style="background:Moccasin;"|''SYSTEM ROTATION <br> Leica confocal, Spinning disc, Delta Vision''||align="center" style="background:Moccasin;"|''Pete, Britta, Dan'' | |align="center" style="background:Moccasin;"|''SYSTEM ROTATION <br> Leica confocal, Spinning disc, Delta Vision''||align="center" style="background:Moccasin;"|''Pete, Britta, Dan'' | ||
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| style="background:Moccasin;"|''16:15'' | | style="background:Moccasin;"|''16:15'' | ||
− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 13b'' |
|align="center" style="background:Moccasin;"|''SYSTEM ROTATION <br> Leica confocal, Spinning disc, Delta Vision''||align="center" style="background:Moccasin;"|''Pete, Britta, Dan'' | |align="center" style="background:Moccasin;"|''SYSTEM ROTATION <br> Leica confocal, Spinning disc, Delta Vision''||align="center" style="background:Moccasin;"|''Pete, Britta, Dan'' | ||
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| style="background:Moccasin;"|''18:00'' | | style="background:Moccasin;"|''18:00'' | ||
− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 13c'' |
|align="center" style="background:Moccasin;"|''SYSTEM ROTATION <br> Leica confocal, Spinning disc, Delta Vision''||align="center" style="background:Moccasin;"|''Pete, Britta, Dan'' | |align="center" style="background:Moccasin;"|''SYSTEM ROTATION <br> Leica confocal, Spinning disc, Delta Vision''||align="center" style="background:Moccasin;"|''Pete, Britta, Dan'' | ||
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 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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|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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| 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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− | | align="center"|/||align="center" | Britta||align="center" |Dan||align="center" |Pete||align="center" | | + | | align="center"|/||align="center" | Britta||align="center" |Dan||align="center" |Pete||align="center" |Britta |
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Revision as of 18:27, 11 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 |
Practical 1 (Group Rotation) |
1) Capillary + oil and Coin in glass 2) Laser refraction + reflection 3) Different immersion objectives - Demo Tirf Obective + DV oil box |
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 |
Practical 2 | Ray optics Drawing ray diagrams |
|||
Practical 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 | Practical 4 | Glass cube demo and practise Focusing; Depth of field / focus 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 |
Practical 5 | Diffraction grids / gratings | |||
Practical 6 | Airy disk on the microscope on mirror | LMF TEAM | ||
11:00 | 11:20 | BREAK | BREAK | BREAK |
11:20 | 12:40 | Practical 7 | 1) Apertures (Objectives and Condenser) - Cube 2) NA Objectives - angle measurements 3) Diffraction Exercise on microscope 4) Fluorescent beads with variable NA |
1) Humberto 2) Silke 3) Dan 4) Britta |
12:40 | 13:40 | LUNCH | LUNCH | LUNCH |
13:40 | 15:30 | Lecture 5 | Contrasting techniques I Dark field + Phase contrast |
Humberto |
Practical 8 (4 groups) |
Dark field and Phase contrast | LMF TEAM | ||
15:30 | 15:45 | BREAK | BREAK | BREAK |
15:45 | 17:45 | Lecture 6 | Contrasting techniques II Polarization + DIC |
Humberto |
Practical 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 | Practical 10 | 1) Lens Abberration 2) Objective reading 3) Infinity optics on optical bench |
1) Humberto 2) Silke 3) Jan |
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 |
|
Practical 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 | Practical 12 (4 groups) | Mercury lamp exchange and alignment Wide field systems + CCD |
LMF TEAM |
Checklist for Widefield/CCD practical
- Exposure Time
- Gain
- Binning
- Saturation
- Histogram
- Gamma
- ROI
- Scale - ruler
- Pixel size
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 | Dan |
10:15 | 10:30 | BREAK | BREAK | BREAK |
10:30 | 12:00 | LECTURE 12b | Confocal Microscopy Multiphoton microscopy Spinning disc TIRF Project discussions |
Dan |
12:00 | 13:00 | LUNCH | LUNCH | LUNCH |
13:00 | 14:30 | Practical 13a | SYSTEM ROTATION Leica confocal, Spinning disc, Delta Vision |
Pete, Britta, Dan |
14:30 | 14:45 | BREAK | BREAK | BREAK |
14:45 | 16:15 | Practical 13b | SYSTEM ROTATION Leica confocal, Spinning disc, Delta Vision |
Pete, Britta, Dan |
16:15 | 16:30 | BREAK | BREAK | BREAK |
16:30 | 18:00 | Practical 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 |
Practical 14 | Fiji (... is just ImageJ) | |||
11:30 | 11:45 | BREAK | BREAK | BREAK |
11:45 | 13:00 | LECTURE 13b | Image processing | Dan |
Practical 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 | |
15:30 | 16:00 | Evaluation | LMF TEAM |
Office Duty
FROM | TO | MONDAY | TUESDAY | WEDNESDAY | THURSDAY | FRIDAY |
Morning | first break | / | Britta | Dan | Pete | Britta |
first break | lunch | Dan | Pete | Britta | Humberto | Silke |
lunch | break | Silke | Silke | Pete | Humberto Silke |
/ |
break | end | Pete | Dan | Humberto | Humberto Silke |
/ |