BasicsCoursePhDprog-PeterEvennetOct2011-observed timing and needed materials
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| − | | 16: | + | | 16:00||17:10||align="center"|SESSION 4a<br>Theory & Demo|| align="center"|What is a pixel<br>Analog to Digital conversion<br>Nuyquist-Shannon||align="center" |Dan || |
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| − | |style="background:LemonChiffon;"| 17: | + | |style="background:LemonChiffon;"| 17:10 |
| − | |style="background:LemonChiffon;"| | + | |style="background:LemonChiffon;"|17:30||align="center" style="background:LemonChiffon;"|SESSION 3<br>Practice|| align="center" style="background:LemonChiffon;"|PIXELS||align="center" style="background:LemonChiffon;"|LMF TEAM ||align="center" style="background:LemonChiffon;"| Sesame seeds, sunflower seeds, nudels, gumibears and a checker board |
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| + | | 17:30||18:00||align="center"|SESSION 4b<br>Theory & Demo|| align="center"|Spatial Calibration and more||align="center" |Dan || | ||
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| + | | 18:00|| ||align="center"|Question round|| align="center"|Questions to Peter Evennett||align="center" |PETER EVENNETT <br>LMF TEAM || | ||
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| − | | 14:00||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 | + | | 14:00||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> *example cameras showing different chip sizes <br> • RGB Slider Spot Camera setup |
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|align="center" style="background:mediumseagreen;"|'''BREAK'''|| style="background:mediumseagreen;"|''' '''|| style="background:mediumseagreen;"|''' '''|| style="background:mediumseagreen;"|''' ''' | |align="center" style="background:mediumseagreen;"|'''BREAK'''|| style="background:mediumseagreen;"|''' '''|| style="background:mediumseagreen;"|''' '''|| style="background:mediumseagreen;"|''' ''' | ||
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| − | | 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> | + | | 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> N-Storm (Britta, 3 students)<br> Inverted CCD (Pete, 2 students)<br> self-built-syst (Jan, 3 students)) <br>• Fluorescence Sample slides (Kidney / Cells) |
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| align="center" style="background:#f0f0f0;"|'''Materials needed''' | | align="center" style="background:#f0f0f0;"|'''Materials needed''' | ||
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| − | | 9:00||10: | + | | 9:00||10:30||align="center"|Recap ||align="center" | day 4 ||align="center" |LMF TEAM||align="center"|Question sheets (!) |
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| − | + | | style="background:mediumseagreen;"|'''10:30''' | |
| − | | style="background:mediumseagreen;"|''' | + | | style="background:mediumseagreen;"|'''10:45''' |
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|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
| − | |align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|'''BREAK''' | + | |align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"| ''note: break might have been too early? (usually in between the Optical sectioning talk)'' |
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| − | | | + | |10:45||13:00||align="center"|SESSION 1<br>Theory & Demo||align="center" | Optical sectioning methods<br>Pros&Cons ||align="center" |LMF TEAM <br> Dan / Jan ||align="center" |"confocal equipment": <br> laser pointer, mirror, broken scanning mirror <br> dual laser pointer (green and red) to demonstrate penetration of diff. wavelength |
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| style="background:mediumseagreen;"|'''13:00''' | | style="background:mediumseagreen;"|'''13:00''' | ||
| style="background:mediumseagreen;"|'''14:00''' | | style="background:mediumseagreen;"|'''14:00''' | ||
| − | |align="center" style="background:mediumseagreen;"|''' | + | |align="center" style="background:mediumseagreen;"|'''LUNCH''' |
| − | |align="center" style="background:mediumseagreen;"|'''LUNCH'''|| style="background:mediumseagreen;"|''' | + | |align="center" style="background:mediumseagreen;"|'''LUNCH'''|| align="center" style="background:mediumseagreen;"|'''LUNCH'''|| style="background:mediumseagreen;"| |
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| − | | 14:00||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? | + | | 14:00||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?||align="center" | |
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| style="background:mediumseagreen;"|'''15:15''' | | style="background:mediumseagreen;"|'''15:15''' | ||
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
| − | |align="center" style="background:mediumseagreen;"|'''BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK''' | + | |align="center" style="background:mediumseagreen;"|'''BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK'''|| align="center" style="background:mediumseagreen;"| |
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| − | | 15:15||16:00||align="center"|SESSION 3|| align="center"|Course evaluation ||align="center" |LMF TEAM | + | | 15:15||16:00||align="center"|SESSION 3|| align="center"|Course evaluation ||align="center" |LMF TEAM||align="center" | |
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Latest revision as of 11:46, 28 October 2011
Contents |
[edit] PhD Program: Basics of Light Microscopy - Peter Evennett / LMF - Course May 2011
[edit] Setup -Fri 21 Oct
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
- cameras and monitors
- Cleaning stations for each table
- condenser screwdrivers for each microsocpe
- oil/DIC objectives for each microscope (next to stand)
- 2 polarization filters for each microscope
[edit] DAY ONE (24th Oct)
| FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | Materials needed |
| 9:00 | 09:30 | FINAL PREP | Test everything works | LMF | |
| 9:40 | 10:25 | INTRODUCTION | COURSE INTRO WHO is WHO? Round table |
LMF TEAM | White board and pen |
| 10:25 | 10:55 | Session 1 Theory |
PRINCIPLES OF LIGHT MICROSCOPY Historical aspects Very basic components and principles ( incl. Refraction-basics) |
PETER EVENNETT | |
| 10:55 | 11:10 | BREAK | BREAK | ||
| 11:15 | 11:30 | SESSION 1 Practice SHORT (5min !!!) Rotation |
capillary in oil demo Coin-in-cup demo red and green laser through milky water with black background |
DAN PETER PETE & JAN |
*capillaries, oil * coin-in-cup, water *laser pointer, glass with "milky" water and black background |
| 11:30 | 12:45 | SESSION 1 Theory |
Introduction to lenses (Lens demo fun) Lens aberrations (see colour fringes of lighting image with simple lens) Resolution, Numerical aperture Magnification |
PETER EVENNETT | little lenses |
| 12:45 | 13:45 | 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 |
*milky glass block, teaching microscope, coloured filters for microscope, iris objective *slides with arrows, simple upright and inverted microscope *horizontal protractor on stand, objective holder, 2 air objective with different (!) NAs (and maybe an iris objective), calculator, pencils, rubber |
| 14:45 | 15:30 | SESSION 2 Theory |
Microscope illumination Conjugate planes |
PETER EVENNETT | |
| 15:30 | 15:45 | BREAK | BREAK | ||
| 15:50 | 17:05 | SESSION 2 Practice (30min Rotation) |
conjugate planes on Peters microscope conjugate planes on optical bench |
PETER EVENNETT JAN |
*Peters microscope setup *optical bench demonstrating a transmitted light microscope, incl. light source |
| 17:05 | 17:25 | SESSION 3 Theory |
Koehler Illumination (Microscope alignment) |
PETER EVENNETT | |
| 17:15 | 18:30 | SESSION 3 Practice |
Koehler illumination (Microscope alignment) |
LMF TEAM | students manual microscopes, screwdrivers, nice brightfield sample |
[edit] DAY TWO (25th Oct)
| FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | Materials needed |
| 9:00 | 10:00 | Recap | day 1 | LMF TEAM | Questions |
| 10:00 | 10:45 | SESSION 1 Theory |
Epi-Illumination Lens aberrations and corrections |
PETER EVENNETT | |
| 10:45 | 11:00 | 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 |
|
| 11:00 | 12:45 | Session 2 Theory & DEMONSTRATION |
Diffraction and Diffraction slide fun Diffraction string show ABBE'S DIFFRACTION EXPERIMENT Peter's Video (50min) |
PETER EVENNETT | Diffraction slides, torch, "dashed" string |
| 12:45 | 13:45 | BREAK | LUNCH | ||
| 13:45 | 14:35 | SESSION 3 Demo and Theory |
Dan's setup demonstration | DAN | Dan's ABBE Diffraction demo setup |
| 14:35 | 15:00 | SESSION 1 Theory & Practice |
Depth of Field Depth of Focus |
PETER EVENNETT LMF TEAM |
students microscopes with 10x/0.25 and 40x/0.65 objectives Stereoscope with a "sample" |
| 15:00 | 15:20 | BREAK | COFFEE BREAK | ||
| 15:20 | 15:55 | SESSION 4 Theory |
Dark Field microscopy | PETER EVENNETT | |
| 15:55 | 16:30 | SESSION 4 Practice |
Dark Field microscopy | LMF TEAM | diatome slides |
| 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 | cheek cell samples |
| 17:30 | : | SESSION 5 Theory |
Details of Phase Contrast microscopy | PETER EVENNETT |
[edit] DAY THREE (26th Oct)
| FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | Materials needed |
| 9:00 | 10:00 | Recap | day 2 | LMF TEAM | Questions |
| 10:00 | 10:45 | SESSION 1 Theory |
Objective reading eye pieces |
PETER EVENNETT LMF TEAM |
objectives, eyepieces, polylux |
| 10:45 | 11:00 | BREAK | BREAK | BREAK | |
| 11:00 | 12:30 | SESSION 1 Practice Group rotation (30min. each!) |
Cover glasses and sample mounting Objective reading Objective cleaning |
Dan Britta, Silke Jan |
Coverglasses (High preciscion), different oils 8-10 different, "interesting" objectives (for a group of 4-5) slides, oils, different cleaning reagents |
| 12:30 | 13:30 | BREAK | LUNCH | ||
| 13:30 | 14:00 | SESSION 2 Theory |
Polarized light microscopy | PETER EVENNETT | |
| 14:00 | 14:40 | SESSION 2 Practice |
Polarized light microscopy | LMF TEAM | Hair, stone samples, benzocain cristals, rulers, gummi bears, plastic dishes, ... |
| 14:40 | 15:05 | SESSION 3 Theory |
Differential Interference Contrast (DIC) | PETER EVENNETT | |
| 15:05 | 15:40 | SESSION 3 Practice |
Differential Interference Contrast (DIC) | LMF TEAM | cheek cell samples |
| 15:40 | 16:00 | BREAK | BREAK | BREAK | |
| 16:00 | 17:10 | SESSION 4a Theory & Demo |
What is a pixel Analog to Digital conversion Nuyquist-Shannon |
Dan | |
| 17:10 | 17:30 | SESSION 3 Practice |
PIXELS | LMF TEAM | Sesame seeds, sunflower seeds, nudels, gumibears and a checker board |
| 17:30 | 18:00 | SESSION 4b Theory & Demo |
Spatial Calibration and more | Dan | |
| 18:00 | Question round | Questions to Peter Evennett | PETER EVENNETT LMF TEAM |
[edit] DAY FOUR (27th Oct)
| FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | DEMO Activities | Materials needed |
| 9:00 | 10:00 | Recap | day 3 | LMF TEAM | ||
| 10:00 | 10:45 | SESSION 1 Theory |
Fundamental concepts of fluorescence | DAN | - | - |
| 10:45 | 11:00 | BREAK | BREAK | BREAK | BREAK | BREAK |
| 11:00 | 12:15 | SESSION 2 Theory & Practice |
Fluorescence Microscopy | SILKE LMFTEAM |
• 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 | 13:00 | SESSION 2 Practice |
Fluorescence imaging at microscopes | LMF TEAM | - | • Fluorescent labeled samples |
| 13:00 | 14:00 | BREAK | LUNCH | LUNCH | LUNCH | LUNCH |
| 14:00 | 15:45 | SESSION 3 Theory & Practice |
Imaging with CCD and Quantitative Imaging | LMF TEAM Britta/Dan |
• CCD • Cameras |
• CCD chip *example cameras showing different chip sizes • 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) N-Storm (Britta, 3 students) Inverted CCD (Pete, 2 students) self-built-syst (Jan, 3 students)) • Fluorescence Sample slides (Kidney / Cells) |
| 19:00 | open end | Dinner | with Peter | LMF TEAM |
[edit] DAY FIVE (28th Oct)
| FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | Materials needed |
| 9:00 | 10:30 | Recap | day 4 | LMF TEAM | Question sheets (!) |
| 10:30 | 10:45 | BREAK | BREAK | BREAK | note: break might have been too early? (usually in between the Optical sectioning talk) |
| 10:45 | 13:00 | SESSION 1 Theory & Demo |
Optical sectioning methods Pros&Cons |
LMF TEAM Dan / Jan |
"confocal equipment": laser pointer, mirror, broken scanning mirror dual laser pointer (green and red) to demonstrate penetration of diff. wavelength |
| 13:00 | 14:00 | LUNCH | LUNCH | LUNCH | |
| 14:00 | 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 |
