BasicsCoursePhDprog-PeterEvennetMay2011-observed timing
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| 16:15||18:15||align="center"|SESSION 4<br>Theory & Demo|| align="center"|What is a pixel<br>Analog to Digital conversion<br>Nuyquist-Shannon||align="center" |Dan | | 16:15||18:15||align="center"|SESSION 4<br>Theory & Demo|| align="center"|What is a pixel<br>Analog to Digital conversion<br>Nuyquist-Shannon||align="center" |Dan | ||
|- | |- | ||
+ | |} | ||
+ | |||
+ | |||
+ | |||
+ | === DAY FOUR (May 19th)=== | ||
+ | |||
+ | {| border="4" cellpadding="2" cellspacing="8" {| {{table}} | ||
+ | |- style="; color:MidnightBlue;" | ||
+ | | align="center" style="background:#f0f0f0;"|'''FROM''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''TO''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''ACTIVITY''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''TOPICS''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''Responsible person(s)''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''DEMO Activities''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''DEMO materials''' | ||
+ | |- | ||
+ | | 9:00||9:45||align="center"|Recap ||align="center" | day 3 ||align="center" |LMF TEAM |||| | ||
+ | |- | ||
+ | | 9:45||10:30||align="center"|SESSION 1<br>Theory||align="center" | Fundamental concepts of fluorescence ||align="center" |LMF TEAM<br>Dan||align="center" |- ||align="center" |- | ||
+ | |- | ||
+ | |- | ||
+ | | style="background:DarkKhaki;"|'''10:30''' | ||
+ | | 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''' | ||
+ | |- | ||
+ | |- | ||
+ | | 10:45||12:15||align="center"|SESSION 2<br>Theory & Practice||align="center" | Fluorescence Microscopy||align="center" |LMF TEAM<br>Silke||align="center" |• Light sources<br>• Lamp houses <br>• Spectra <br>• Filters <br> • Filter cubes <br> • Filter spectral charts of each microscope (laminated)||align="center" | • Spare lamp houses <br> • Lamps <br> • Ocean optics equipment <br> • Four (4) different Filter-sets (cubes), with the appropriate descriptions <br> • diagramms for drawing filter/fluorophore spectra | ||
+ | |- | ||
+ | |- | ||
+ | | 12:15||13:15||align="center"|SESSION 2<br>Practice||align="center" | Fluorescence imaging at microscopes ||align="center" |LMF TEAM||align="center" |- ||align="center" |• Fluorescent labeled samples | ||
+ | |- | ||
+ | |- | ||
+ | | style="background:DarkKhaki;"|'''13:15''' | ||
+ | | style="background:DarkKhaki;"|'''14:15''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''LUNCH'''|| align="center" style="background:DarkKhaki;"|'''LUNCH'''||align="center" style="background:DarkKhaki;"|'''LUNCH'''||align="center" style="background:DarkKhaki;"|'''LUNCH''' | ||
+ | |- | ||
+ | |- | ||
+ | | 14:15||15:45||align="center"|SESSION 3<br>Theory & Practice|| align="center"|Imaging with CCD and Quantitative Imaging ||align="center" |LMF TEAM<br> Britta/Dan||align="center" | • CCD<br> • Cameras || align="center" |• CCD chip <br> • RGB Slider Spot Camera setup | ||
+ | |- | ||
+ | | style="background:DarkKhaki;"|'''15:45''' | ||
+ | | style="background:DarkKhaki;"|'''16:00''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''BREAK'''|| style="background:DarkKhaki;"|''' '''|| style="background:DarkKhaki;"|''' '''|| style="background:DarkKhaki;"|''' ''' | ||
+ | |- | ||
+ | | 16:00||18:00||align="center"|SESSION 4<br>Practice|| align="center"|Imaging with CCD cameras using LMF systems ||align="center" |LMF TEAM ||align="center"|• Displaying <br>• Pixel size<br>• Look up table<br>• Binning<br>• Exposure time<br>• Saturation<br>• Signal to noise <br>• ROI<br>• Bit depth<br>• Auto map<br>• Auto contrast || align="center"|• Microscopes: <br> DVcore(Dan, 3 students)<br> pDV (Silke, 2 students)<br> Inverted CCD (Pete, 2 students)<br> N-Storm (Britta, 2 students) <br>self-built-syst (Jan, 3 students)) <br>• Fluorescence Sample slides (Kidney / Cells) | ||
+ | |- | ||
+ | |- | ||
+ | | style="background:SkyBlue;"|'''19:00''' | ||
+ | | style="background:SkyBlue;"|'''open end''' | ||
+ | |align="center" style="background:SkyBlue;"|'''Dinner''' | ||
+ | |align="center" style="background:SkyBlue;"|'''with Peter'''|| align="center" style="background:SkyBlue;"|'''LMF TEAM'''|| style="background:SkyBlue;"|''' '''|| style="background:SkyBlue;"|''' ''' | ||
+ | |} | ||
+ | '' | ||
+ | |||
+ | === DAY FIVE (May 20th)=== | ||
+ | |||
+ | {| border="4" cellpadding="2" cellspacing="8" {| {{table}} | ||
+ | |- style="; color:MidnightBlue;" | ||
+ | | align="center" style="background:#f0f0f0;"|'''FROM''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''TO''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''ACTIVITY''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''TOPICS''' | ||
+ | | align="center" style="background:#f0f0f0;"|'''Responsible person(s)''' | ||
+ | |- | ||
+ | | 9:00||9:45||align="center"|Recap ||align="center" | day 4 ||align="center" |LMF TEAM | ||
+ | |- | ||
+ | | 9:45||10:45||align="center"|SESSION 1<br>Theory & Demo||align="center" | Optical sectioning methods<br>Pros&Cons ||align="center" |LMF TEAM <br> Dan / Jan | ||
+ | |- | ||
+ | |- | ||
+ | | style="background:DarkKhaki;"|'''10:45''' | ||
+ | | style="background:DarkKhaki;"|'''11:00''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''BREAK'''||align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
+ | |- | ||
+ | |- | ||
+ | | 11:00||13:15||align="center"|SESSION 1<br>Theory & Demo||align="center" | Optical sectioning methods<br>Pros&Cons ||align="center" |LMF TEAM <br> Dan / Jan | ||
+ | |- | ||
+ | |- | ||
+ | | style="background:DarkKhaki;"|'''13:15''' | ||
+ | | style="background:DarkKhaki;"|'''14:15''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''LUNCH'''|| style="background:DarkKhaki;"|''' ''' | ||
+ | |- | ||
+ | |- | ||
+ | | 14:15||15:00||align="center"|SESSION 2<br>Small Groups Discussion|| align="center"|What techniques might be good for me<br> (Own Projects) ||align="center" |LMF TEAM<br>Dan/Jan/Silke/Britta/Pete? | ||
+ | |- | ||
+ | |- | ||
+ | | style="background:DarkKhaki;"|'''15:00''' | ||
+ | | style="background:DarkKhaki;"|'''15:15''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
+ | |align="center" style="background:DarkKhaki;"|'''BREAK'''|| align="center" style="background:DarkKhaki;"|'''BREAK''' | ||
+ | |- | ||
+ | |- | ||
+ | | 15:15||16:00||align="center"|SESSION 3|| align="center"|Course evaluation ||align="center" |LMF TEAM | ||
|} | |} |
Revision as of 18:44, 17 May 2011
Contents |
PhD Program: Basics of Light Microscopy - Peter Evennett / LMF - Course May 2011
Setup -Fri 13 May
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 (16th May)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 09:30 | FINAL PREP | Test everything works | LMF TEAM |
9:30 | 10:15 | INTRODUCTION | COURSE INTRO WHO is WHO? Round table |
LMF TEAM |
10:15 | 10:55 | Session 1 Theory |
PRINCIPLES OF LIGHT MICROSCOPY Historical aspects Very basic components and principles ( incl. Refraction-basics 1st part) |
PETER EVENNETT |
10:55 | 11:15 | BREAK | BREAK | BREAK |
11:20 | 12:45 | SESSION 1 Theory |
Refraction-basics 2nd part (Coin-in-cup-demo) Introduction to lenses (Lens demo fun) Lens aberrations (see colour fringes of lighting image with simple lens) Magnification Resolution, Numerical aperture |
PETER EVENNETT |
12:45 | 13:45 | LUNCH | LUNCH | LUNCH |
13:45 | 14:45 | SESSION 1 Practice 15min (!!!) Rotation |
Milky Glass Block demo Show and discuss microscope parts (upright and inverted) NA measurements |
DAN JAN & BRITTA SILKE |
14:45 | 15:30 | SESSION 2 Theory |
Microscope illumination Conjugate planes |
PETER EVENNETT |
15:30 | 15:45 | BREAK | BREAK | BREAK |
15:45 | 16:50 | SESSION 2 Practice (30min Rotation) |
conjugate planes on Peters microscope conjugate planes on optical bench |
PETER EVENNETT JAN |
16:50 | 17:15 | SESSION 3 Theory |
Koehler Illumination (Microscope alignment) |
PETER EVENNETT |
17:15 | 18:30 | SESSION 3 Practice |
Koehler illumination (Microscope alignment) |
LMF TEAM |
DAY TWO (May 17th)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 10:00 | Recap | day 1 | LMF TEAM |
10:00 | 10:20 | SESSION 1 Theory & Practice |
Depth of Field Depth of Focus |
PETER EVENNETT LMF TEAM |
10:20 | 11:15 | SESSION 2 Theory & Demo |
Diffraction Diffraction slide fun |
PETER EVENNETT |
11:15 | 11:30 | BREAK | COFFEE BREAK | Note: have break earlier next time, right after diffraction-string-show (should be shortly before 11am) then do all the explanation of Abbe's Diffraction Exp after break |
11:30 | 12:50 | DEMONSTRATION | ABBE'S DIFFRACTION EXPERIMENT Peter's Video (50min) Dan's setup demonstration |
PETER EVENNETT DAN |
12:50 | 13:50 | BREAK | LUNCH | |
13:50 | 14:05 | spontaneous discussion :-) | ||
14:05 | 14:55 | SESSION 3 Theory |
Lens aberrations and corrections Objectives |
PETER EVENNETT |
14:55 | 15:10 | BREAK | COFFEE BREAK | |
15:10 | 15:55 | SESSION 4 Theory |
Dark Field microscopy | PETER EVENNETT |
15:55 | 16:30 | SESSION 4 Practice |
Dark Field microscopy | LMF TEAM |
16:30 | 16:50 | SESSION 5 Theory |
Basics of Phase Contrast microscopy | PETER EVENNETT |
16:50 | 17:30 | SESSION 5 Practice |
Phase Contrast microscopy | LMF TEAM |
17:30 | : | SESSION 5 Theory |
Details of Phase Contrast microscopy | PETER EVENNETT |
DAY THREE (May 18th)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 9:45 | Recap | day 2 | LMF TEAM |
9:45 | 10:45 | SESSION 1 Theory |
Objective reading Objective cleaning |
PETER EVENNETT LMF TEAM |
10:45 | 11:00 | BREAK | BREAK | BREAK |
11:00 | 12:00 | SESSION 1 Practice Group rotation |
Cover glasses and sample mounting Objective reading Objective cleaning |
Dan Britta, Silke Jan |
12:00 | 12:30 | SESSION 2 Theory |
Polarized light microscopy | PETER EVENNETT |
12:30 | 13:15 | SESSION 2 Practice |
Polarized light microscopy | LMF TEAM |
13:15 | 14:15 | BREAK | LUNCH | |
14:15 | 14:45 | SESSION 3 Theory |
Differential Interference Contrast (DIC) | PETER EVENNETT |
14:45 | 15:30 | SESSION 3 Practice |
Differential Interference Contrast (DIC) | LMF TEAM |
15:30 | 15:45 | BREAK | BREAK | BREAK |
15:45 | 16:15 | Question round | Questions to Peter Evennett | PETER EVENNETT LMF TEAM |
16:15 | 18:15 | SESSION 4 Theory & Demo |
What is a pixel Analog to Digital conversion Nuyquist-Shannon |
Dan |
DAY FOUR (May 19th)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | DEMO Activities | DEMO materials |
9:00 | 9:45 | Recap | day 3 | LMF TEAM | ||
9:45 | 10:30 | SESSION 1 Theory |
Fundamental concepts of fluorescence | LMF TEAM Dan |
- | - |
10:30 | 10:45 | BREAK | BREAK | BREAK | BREAK | BREAK |
10:45 | 12:15 | SESSION 2 Theory & Practice |
Fluorescence Microscopy | LMF TEAM Silke |
• Light sources • Lamp houses • Spectra • Filters • Filter cubes • Filter spectral charts of each microscope (laminated) |
• Spare lamp houses • Lamps • Ocean optics equipment • Four (4) different Filter-sets (cubes), with the appropriate descriptions • diagramms for drawing filter/fluorophore spectra |
12:15 | 13:15 | SESSION 2 Practice |
Fluorescence imaging at microscopes | LMF TEAM | - | • Fluorescent labeled samples |
13:15 | 14:15 | BREAK | LUNCH | LUNCH | LUNCH | LUNCH |
14:15 | 15:45 | SESSION 3 Theory & Practice |
Imaging with CCD and Quantitative Imaging | LMF TEAM Britta/Dan |
• CCD • Cameras |
• CCD chip • RGB Slider Spot Camera setup |
15:45 | 16:00 | BREAK | BREAK | |||
16:00 | 18:00 | SESSION 4 Practice |
Imaging with CCD cameras using LMF systems | LMF TEAM | • Displaying • Pixel size • Look up table • Binning • Exposure time • Saturation • Signal to noise • ROI • Bit depth • Auto map • Auto contrast |
• Microscopes: DVcore(Dan, 3 students) pDV (Silke, 2 students) Inverted CCD (Pete, 2 students) N-Storm (Britta, 2 students) self-built-syst (Jan, 3 students)) • Fluorescence Sample slides (Kidney / Cells) |
19:00 | open end | Dinner | with Peter | LMF TEAM |
DAY FIVE (May 20th)
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) |
9:00 | 9:45 | Recap | day 4 | LMF TEAM |
9:45 | 10:45 | SESSION 1 Theory & Demo |
Optical sectioning methods Pros&Cons |
LMF TEAM Dan / Jan |
10:45 | 11:00 | BREAK | BREAK | BREAK |
11:00 | 13:15 | SESSION 1 Theory & Demo |
Optical sectioning methods Pros&Cons |
LMF TEAM Dan / Jan |
13:15 | 14:15 | BREAK | LUNCH | |
14:15 | 15:00 | SESSION 2 Small Groups Discussion |
What techniques might be good for me (Own Projects) |
LMF TEAM Dan/Jan/Silke/Britta/Pete? |
15:00 | 15:15 | BREAK | BREAK | BREAK |
15:15 | 16:00 | SESSION 3 | Course evaluation | LMF TEAM |