PhD Course Nov 09
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==PhD Course Nov 09 == | ==PhD Course Nov 09 == | ||
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=== Friday 13th Nov === | === Friday 13th Nov === | ||
Setup - all lmf staff move stuff to galleria | Setup - all lmf staff move stuff to galleria | ||
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| align="center" style="background:#f0f0f0;width:140px"|'''Responsible person(s)''' | | align="center" style="background:#f0f0f0;width:140px"|'''Responsible person(s)''' | ||
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− | | 9: | + | | 9:00||10:30||align="center"|INTRODUCTION||align="center" | GROUP PRESENTATION <br> Wishes for the course <br> The ideal microsocpe||align="center" |LMF TEAM |
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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;"|'' | + | |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: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: | + | | 13:30||15:45||align="center"|Lecture 2|| align="center" |Introduction to lenses <br> Lens abberration <br> Understanding Ray optics||align="center" |Humberto |
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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:DarkKhaki;"|'''15: | + | | style="background:DarkKhaki;"|'''15:45''' |
− | | style="background:DarkKhaki;"|''' | + | | style="background:DarkKhaki;"|'''16:00''' |
|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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− | | | + | | 16:00||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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| 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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{| border="4" cellpadding="2" cellspacing="8" {| {{table}} | {| border="4" cellpadding="2" cellspacing="8" {| {{table}} | ||
|- style="; color:MidnightBlue;" | |- style="; color:MidnightBlue;" | ||
− | | align="center" style="background:#f0f0f0;"|'''FROM''' | + | | align="center" style="background:#f0f0f0;width:40px"|'''FROM''' |
− | | align="center" style="background:#f0f0f0;"|'''TO''' | + | | align="center" style="background:#f0f0f0;width:40px"|'''TO''' |
− | | align="center" style="background:#f0f0f0;"|'''ACTIVITY''' | + | | align="center" style="background:#f0f0f0;width:140px"|'''ACTIVITY''' |
− | | align="center" style="background:#f0f0f0;"|'''TOPICS''' | + | | align="center" style="background:#f0f0f0;width:400px"|'''TOPICS''' |
− | | align="center" style="background:#f0f0f0;"|'''Responsible person(s)''' | + | | align="center" style="background:#f0f0f0;width:140px"|'''Responsible person(s)''' |
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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: | + | | 10:00||11:25||align="center" style="background:Moccasin;"|''Practical 5'' |
+ | |align="center" style="background:Moccasin;"|''Diffraction grids / gratings''||align="center" style="background:Moccasin;"| | ||
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− | |align="center | + | |align="center"|LECTURE 4a|| align="center" |Diffraction <br> The Eye <br> Interference||align="center" |Humberto |
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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 | + | |align="center" style="background:Moccasin;"|''Airy disk on the microscope through mirror''||align="center" style="background:Moccasin;"|''LMF TEAM'' |
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+ | |align="center"|LECTURE 4b|| align="center" |Resolution <br> NA||align="center" |Humberto | ||
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− | | style="background:DarkKhaki;"|'''11: | + | |- |
− | | style="background:DarkKhaki;"|'''11: | + | | style="background:DarkKhaki;"|'''11:25''' |
+ | | style="background:DarkKhaki;"|'''11:40''' | ||
|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;"|''11:40'' |
+ | | style="background:Moccasin;"|''12:40'' | ||
+ | |align="center" style="background:Moccasin;"|''Practical 7'' | ||
+ | |align="left" style="background:Moccasin;"|''1) NA Objectives - angle measurements <br> 2) Diffraction Exercise on microscope <br> 3) Fluorescent beads with variable NA''||align="left" style="background:Moccasin;"|1) Silke <br> 2) Dan <br> 3) Britta | ||
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− | | | + | | style="background:DarkKhaki;"|'''12:40''' |
− | + | | style="background:DarkKhaki;"|'''13:40''' | |
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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 5a|| align="center" |Contrasting techniques I <br> Dark field ||align="center" |Humberto |
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 8a <br> (4 groups)'' |
− | |align="center" style="background:Moccasin;"|''Dark field | + | |align="center" style="background:Moccasin;"|''Dark field''||align="center" style="background:Moccasin;"|''LMF TEAM'' |
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+ | |align="center"|Lecture 5b|| align="center" |Contrasting techniques I <br> Phase contrast||align="center" |Humberto | ||
+ | |- | ||
+ | |- | ||
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+ | |align="center" style="background:Moccasin;"|''Practical 8b <br> (4 groups)'' | ||
+ | |align="center" style="background:Moccasin;"|''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''' | ||
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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''' | |align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
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− | | | + | | 15:45||17:45||align="center"|Lecture 6a|| align="center" |Contrasting techniques II <br> Polarization||align="center" |Humberto |
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− | |align="center" style="background:Moccasin;"|'' | + | |align="center" style="background:Moccasin;"|''Practical 9a <br> (4 groups)'' |
− | |align="center" style="background:Moccasin;"|''Polarization | + | |align="center" style="background:Moccasin;"|''Polarization''||align="center" style="background:Moccasin;"|''LMF TEAM'' |
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+ | |- | ||
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+ | |align="center"|Lecture 6b|| align="center" |Contrasting techniques II <br>Differential Interference Contrast||align="center" |Humberto | ||
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+ | |align="center" style="background:Moccasin;"|''Practical 9b <br> (4 groups)'' | ||
+ | |align="center" style="background:Moccasin;"|''DIC''||align="center" style="background:Moccasin;"|''LMF TEAM'' | ||
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{| border="4" cellpadding="2" cellspacing="8" {| {{table}} | {| border="4" cellpadding="2" cellspacing="8" {| {{table}} | ||
|- style="; color:MidnightBlue;" | |- style="; color:MidnightBlue;" | ||
− | | align="center" style="background:#f0f0f0;"|'''FROM''' | + | | align="center" style="background:#f0f0f0;width:40px"|'''FROM''' |
− | | align="center" style="background:#f0f0f0;"|'''TO''' | + | | align="center" style="background:#f0f0f0;width:40px"|'''TO''' |
− | | align="center" style="background:#f0f0f0;"|'''ACTIVITY''' | + | | align="center" style="background:#f0f0f0;width:140px"|'''ACTIVITY''' |
− | | align="center" style="background:#f0f0f0;"|'''TOPICS''' | + | | align="center" style="background:#f0f0f0;width:400px"|'''TOPICS''' |
− | | align="center" style="background:#f0f0f0;"|'''Responsible person(s)''' | + | | align="center" style="background:#f0f0f0;width:140px"|'''Responsible person(s)''' |
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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: | + | | 9:45||10:30||align="center"|LECTURE 7|| align="center" |Objectives <br> Objective correction <br> Infinity optics||align="center" |Humberto |
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+ | | style="background:DarkKhaki;"|'''10:30''' | ||
| style="background:DarkKhaki;"|'''10:45''' | | style="background:DarkKhaki;"|'''10:45''' | ||
− | |||
|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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− | | style="background:Moccasin;"|'' | + | | style="background:Moccasin;"|''10:45'' |
| 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 and cleaning <br> 3) Infinity optics on optical bench, coverslip thickness measurement''||align="center" style="background:Moccasin;"|1) Humberto <br> 2) Silke <br> 3) Jan |
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− | | 11:45||12: | + | | 11:45||12:30||align="center"|LECTURE 8|| align="center" |Basics of Fluorescence <br> Fluorochromes||align="center" |Dan |
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− | | style="background:DarkKhaki;"|'''12: | + | | style="background:DarkKhaki;"|'''12:30''' |
− | | style="background:DarkKhaki;"|'''13: | + | | style="background:DarkKhaki;"|'''13:30''' |
|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: | + | | 13:30||15:00||align="center"|LECTURE 9 (interactive)|| align="center" |Fluorescence Microscopy <br> Filters||align="center" |Silke |
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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;"|''Mercury lamp exchange and alignment <br> Fluorescence imaging''||align="center" style="background:Moccasin;"|''LMF TEAM'' |
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− | | 15:00||15:45||align="center"|Lecture | + | | 15:00||15:45||align="center"|Lecture 10|| align="center" |CCD||align="center" |Britta |
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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||16:45||align="center"|Lecture | + | | 16:00||16:45||align="center"|Lecture 11|| align="center" |Digital Imaging||align="center" |Dan |
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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;"|''Wide field systems + CCD''||align="center" style="background:Moccasin;"|''LMF TEAM'' | |align="center" style="background:Moccasin;"|''Wide field systems + CCD''||align="center" style="background:Moccasin;"|''LMF TEAM'' | ||
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|} | |} | ||
+ | |||
+ | |||
+ | ==== Checklist for Widefield/CCD practical ==== | ||
+ | |||
+ | * Exposure Time | ||
+ | ** Gain | ||
+ | ** Binning | ||
+ | ** ROI | ||
+ | ** Saturation | ||
+ | ** Histogram | ||
+ | ** Gamma<br> | ||
+ | * Mapping/LUTs <br> | ||
+ | * Images - Display <br> | ||
+ | * Scale - ruler <br> | ||
+ | * Pixel size | ||
+ | |||
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{| border="4" cellpadding="2" cellspacing="8" {| {{table}} | {| border="4" cellpadding="2" cellspacing="8" {| {{table}} | ||
|- style="; color:MidnightBlue;" | |- style="; color:MidnightBlue;" | ||
− | | align="center" style="background:#f0f0f0;"|'''FROM''' | + | | align="center" style="background:#f0f0f0;width:40px"|'''FROM''' |
− | | align="center" style="background:#f0f0f0;"|'''TO''' | + | | align="center" style="background:#f0f0f0;width:40px"|'''TO''' |
− | | align="center" style="background:#f0f0f0;"|'''ACTIVITY''' | + | | align="center" style="background:#f0f0f0;width:140px"|'''ACTIVITY''' |
− | | align="center" style="background:#f0f0f0;"|'''TOPICS''' | + | | align="center" style="background:#f0f0f0;width:400px"|'''TOPICS''' |
− | | align="center" style="background:#f0f0f0;"|'''Responsible person(s)''' | + | | align="center" style="background:#f0f0f0;width:140px"|'''Responsible person(s)''' |
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− | | 9:00||9: | + | | 9:00||9:30||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 | + | | 9:30||09:45||||align="center"|DEMO - CCD - Colour||align="center" |Britta |
+ | |- | ||
+ | |- | ||
+ | | 9:45||10:15||align="center"|LECTURE 12a|| align="center" |Optical sectioning||align="center" |Dan | ||
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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|| | + | | 10:30||11:45||align="center"|LECTURE 12b|| align="center" |Confocal Microscopy <br> Multiphoton microscopy <br> Spinning disc <br> TIRF||align="center" |Dan |
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− | | style="background:DarkKhaki;"|''' | + | | style="background:DarkKhaki;"|'''11:45''' |
− | | style="background:DarkKhaki;"|''' | + | | style="background:DarkKhaki;"|'''12:45''' |
|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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− | | style="background:Moccasin;"|'' | + | | style="background:Moccasin;"|''12:45'' |
− | | style="background:Moccasin;"|''14: | + | | style="background:Moccasin;"|''14:15'' |
− | |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'' | ||
|- | |- | ||
|- | |- | ||
+ | | style="background:DarkKhaki;"|'''14:15''' | ||
| style="background:DarkKhaki;"|'''14:30''' | | style="background:DarkKhaki;"|'''14:30''' | ||
− | |||
|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''' | ||
|- | |- | ||
|- | |- | ||
− | | style="background:Moccasin;"|''14: | + | | style="background:Moccasin;"|''14:30'' |
− | | style="background:Moccasin;"|''16: | + | | style="background:Moccasin;"|''16:00'' |
− | |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'' | ||
|- | |- | ||
|- | |- | ||
− | | style="background:DarkKhaki;"|'''16: | + | | style="background:DarkKhaki;"|'''16:00''' |
− | | style="background:DarkKhaki;"|'''16: | + | | style="background:DarkKhaki;"|'''<font color = red> 17:00 / <font color = black> 16:15''' |
|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;"|'''<font color = red> SEMINAR / <font color = black> BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' |
|- | |- | ||
|- | |- | ||
− | | style="background:Moccasin;"|''16: | + | | style="background:Moccasin;"|''<font color = red>17:00 / <font color = black>16:15'' |
− | | style="background:Moccasin;"|''18: | + | | style="background:Moccasin;"|''<font color = red>18:30 / <font color = black>17:45'' |
− | |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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{| border="4" cellpadding="2" cellspacing="8" {| {{table}} | {| border="4" cellpadding="2" cellspacing="8" {| {{table}} | ||
|- style="; color:MidnightBlue;" | |- style="; color:MidnightBlue;" | ||
− | | align="center" style="background:#f0f0f0;"|'''FROM''' | + | | align="center" style="background:#f0f0f0;width:40px"|'''FROM''' |
− | | align="center" style="background:#f0f0f0;"|'''TO''' | + | | align="center" style="background:#f0f0f0;width:40px"|'''TO''' |
− | | align="center" style="background:#f0f0f0;"|'''ACTIVITY''' | + | | align="center" style="background:#f0f0f0;width:140px"|'''ACTIVITY''' |
− | | align="center" style="background:#f0f0f0;"|'''TOPICS''' | + | | align="center" style="background:#f0f0f0;width:400px"|'''TOPICS''' |
− | | align="center" style="background:#f0f0f0;"|'''Responsible person(s)''' | + | | align="center" style="background:#f0f0f0;width:140px"|'''Responsible person(s)''' |
|- | |- | ||
| |||||||| | | |||||||| | ||
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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 | ||
|- | |- | ||
− | |||
|- | |- | ||
− | | 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 |
|- | |- | ||
|- | |- | ||
|| | || | ||
|| | || | ||
− | |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;"| | ||
− | |||
|- | |- | ||
|- | |- | ||
Line 359: | Line 370: | ||
|align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | |align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
|- | |- | ||
− | |||
|- | |- | ||
− | | 11:45||13:00||align="center"|LECTURE | + | | 11:45||13:00||align="center"|LECTURE 13b|| align="center" |Image processing||align="center" |Dan |
|- | |- | ||
|- | |- | ||
|| | || | ||
|| | || | ||
− | |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;"| | ||
|- | |- | ||
− | |||
|- | |- | ||
| 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''' | ||
|- | |- | ||
− | |||
|- | |- | ||
| 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 | ||
+ | |- | ||
+ | |- | ||
+ | | 15:30||16:00|||| align="center" |Evaluation ||align="center" |LMF TEAM | ||
+ | |- | ||
+ | |} | ||
+ | |||
+ | |||
+ | |||
+ | === Office Duty === | ||
+ | |||
+ | {| border="4" cellpadding="2" cellspacing="8" {| {{table}} | ||
+ | |- style="; color:MidnightBlue;" | ||
+ | | align="center" style="background:#f0f0f0;width:55px"|'''FROM''' | ||
+ | | align="center" style="background:#f0f0f0;width:55px"|'''TO''' | ||
+ | | align="center" style="background:Darkseagreen;width:125px"|'''MONDAY''' | ||
+ | | align="center" style="background:Darkseagreen;width:125px"|'''TUESDAY''' | ||
+ | | align="center" style="background:Darkseagreen;width:125px"|'''WEDNESDAY''' | ||
+ | | align="center" style="background:Darkseagreen;width:125px"|'''THURSDAY''' | ||
+ | | align="center" style="background:Darkseagreen;width:125px"|'''FRIDAY''' | ||
+ | |- | ||
+ | | align="center" style="background:Darkseagreen"|Morning | ||
+ | | align="center" style="background:Darkseagreen"|first break | ||
+ | | align="center"|/||align="center" | Britta||align="center" |Dan||align="center" |Pete||align="center" |Britta | ||
+ | |- | ||
+ | | align="center" style="background:Darkseagreen"|first break | ||
+ | | align="center" style="background:Darkseagreen"|lunch | ||
+ | | align="center"|Dan||align="center" | Pete||align="center" |Britta||align="center" |Humberto||align="center" |Silke | ||
+ | |- | ||
+ | | align="center" style="background:Darkseagreen"|lunch | ||
+ | | align="center" style="background:Darkseagreen"|break | ||
+ | | align="center"|Silke||align="center" |Silke||align="center" |Pete||align="center" |Humberto <br> Silke||align="center" |/ | ||
+ | |- | ||
+ | | align="center" style="background:Darkseagreen"|break | ||
+ | | align="center" style="background:Darkseagreen"|end | ||
+ | | align="center"|Pete||align="center" | Dan||align="center" |Humberto||align="center" |Humberto <br> Silke||align="center" |/ | ||
|- | |- | ||
|} | |} |
Latest revision as of 16:57, 19 November 2009
Contents |
[edit] PhD Course Nov 09
[edit] 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
[edit] 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 | 15:45 | 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 | ||
15:45 | 16:00 | BREAK | BREAK | BREAK |
16:00 | 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 |
[edit] 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 | 11:25 | Practical 5 | Diffraction grids / gratings | |
LECTURE 4a | Diffraction The Eye Interference |
Humberto | ||
Practical 6 | Airy disk on the microscope through mirror | LMF TEAM | ||
LECTURE 4b | Resolution NA |
Humberto | ||
11:25 | 11:40 | BREAK | BREAK | BREAK |
11:40 | 12:40 | Practical 7 | 1) NA Objectives - angle measurements 2) Diffraction Exercise on microscope 3) Fluorescent beads with variable NA |
1) Silke 2) Dan 3) Britta |
12:40 | 13:40 | LUNCH | LUNCH | LUNCH |
13:40 | 15:30 | Lecture 5a | Contrasting techniques I Dark field |
Humberto |
Practical 8a (4 groups) |
Dark field | LMF TEAM | ||
Lecture 5b | Contrasting techniques I Phase contrast |
Humberto | ||
Practical 8b (4 groups) |
Phase contrast | LMF TEAM | ||
15:30 | 15:45 | BREAK | BREAK | BREAK |
15:45 | 17:45 | Lecture 6a | Contrasting techniques II Polarization |
Humberto |
Practical 9a (4 groups) |
Polarization | LMF TEAM | ||
Lecture 6b | Contrasting techniques II Differential Interference Contrast |
Humberto | ||
Practical 9b (4 groups) |
DIC | LMF TEAM |
[edit] DAY THREE (Wednesday)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 9:45 | INTRODUCTION (groups of 3) |
Questions | LMF TEAM |
9:45 | 10:30 | LECTURE 7 | Objectives Objective correction Infinity optics |
Humberto |
10:30 | 10:45 | BREAK | BREAK | BREAK |
10:45 | 11:45 | Practical 10 | 1) Lens Abberration 2) Objective reading and cleaning 3) Infinity optics on optical bench, coverslip thickness measurement |
1) Humberto 2) Silke 3) Jan |
11:45 | 12:30 | LECTURE 8 | Basics of Fluorescence Fluorochromes |
Dan |
12:30 | 13:30 | LUNCH | LUNCH | LUNCH |
13:30 | 15:00 | LECTURE 9 (interactive) | Fluorescence Microscopy Filters |
Silke |
Practical 11 | Mercury lamp exchange and alignment 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) | Wide field systems + CCD | LMF TEAM |
[edit] Checklist for Widefield/CCD practical
- Exposure Time
- Gain
- Binning
- ROI
- Saturation
- Histogram
- Gamma
- Mapping/LUTs
- Images - Display
- Scale - ruler
- Pixel size
[edit] DAY FOUR (Thursday)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 9:30 | INTRODUCTION (groups of 3) |
Questions Filter reading |
LMF TEAM |
9:30 | 09:45 | DEMO - CCD - Colour | Britta | |
9:45 | 10:15 | LECTURE 12a | Optical sectioning | Dan |
10:15 | 10:30 | BREAK | BREAK | BREAK |
10:30 | 11:45 | LECTURE 12b | Confocal Microscopy Multiphoton microscopy Spinning disc TIRF |
Dan |
11:45 | 12:45 | LUNCH | LUNCH | LUNCH |
12:45 | 14:15 | Practical 13a | SYSTEM ROTATION Leica confocal, Spinning disc, Delta Vision |
Pete, Britta, Dan |
14:15 | 14:30 | BREAK | BREAK | BREAK |
14:30 | 16:00 | Practical 13b | SYSTEM ROTATION Leica confocal, Spinning disc, Delta Vision |
Pete, Britta, Dan |
16:00 | 17:00 / 16:15 | BREAK | SEMINAR / BREAK | BREAK |
17:00 / 16:15 | 18:30 / 17:45 | Practical 13c | SYSTEM ROTATION Leica confocal, Spinning disc, Delta Vision |
Pete, Britta, Dan |
[edit] 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 |
[edit] 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 |
/ |