BasicsCoursePhDprog-PeterEvennett - schedule Oct. 2013

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(schedule updated incl lunch brake on monday)
(→‎DAY FIVE (18th Oct): updated schedule until end)
 
(30 intermediate revisions by one user not shown)
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| 8:30||09:00||align="center"|FINAL PREP||align="center" | Test everything works ||align="center" |LMF ||
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| 8:30||09:00||align="center"|FINAL PREP||align="center" | Test everything works ||align="center" |BioDIP TEAM ||
  
 
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| 9:00||9:35||align="center"|INTRODUCTION||align="center" | COURSE INTRO <br> WHO is WHO? Round table||align="center" |LMF TEAM || align="center"| White board and pen
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| 9:00||9:35||align="center"|INTRODUCTION||align="center" | COURSE INTRO <br> WHO is WHO? Round table||align="center" |BioDIP TEAM || align="center"| White board and pen
 
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| 9:35||10:32||align="center"|Session 1<br>Theory||align="center" | PRINCIPLES OF LIGHT MICROSCOPY<br>Historical aspects<br>Very basic components and principles ( incl. Refraction-basics)||align="center" |PETER EVENNETT (LMF team)||align="center"| students shortly watch airy pattern from hole in mirror at the teaching microsopes (~10:05 - 10:10)
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| 9:35||10:32||align="center"|Session 1<br>Theory||align="center" | PRINCIPLES OF LIGHT MICROSCOPY<br>Historical aspects<br>Very basic components and principles (incl. refraction-basics)||align="center" |PETER EVENNETT (BioDIP TEAM)||align="center"| students shortly watch airy pattern from hole in mirror at the teaching microsopes (~10:05 - 10:10)
 
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| 11:20||12:10||align="center"|SESSION 1 <br>Theory|| align="center" | Introduction to lenses (Lens demo fun)<br>Lens aberrations (see colour fringes of lighting image with simple lens)<br> Resolution, Numerical aperture <br>Magnification||align="center" |PETER EVENNETT || align="center" | little lenses (did not do this)
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| 11:20||12:10||align="center"|SESSION 1 <br>Theory|| align="center" | Introduction to lenses (Lens demo fun)<br>Lens aberrations (see colour fringes of lighting image with simple lens)<br> Resolution, Numerical aperture <br>Magnification||align="center" |PETER EVENNETT || align="center" | little lenses (did not do it this time)
 
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| style="background:LemonChiffon;"| 13:45|| style="background:LemonChiffon;"| 14:45
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| style="background:LemonChiffon;"| 13:00|| style="background:LemonChiffon;"| 13:55
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|align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice<br> 15min (!!!) Rotation (Davide will watch the time)|| align="center" style="background:LemonChiffon;"|Milky Glass Block demo <br>Show and discuss microscope parts (upright and inverted)<br>NA measurements||align="center" style="background:LemonChiffon;"|JAN<br>BRITTA<br>BERT || align="center" style="background:LemonChiffon;" |*milky glass block, teaching microscope, coloured filters for microscope, iris objective <br> *slides with arrows, simple upright and inverted microscope <br> *horizontal protractor on stand, objective holder, 2 air objective with different (!) NAs (and maybe an iris objective), calculator, pencils, rubber
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|align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice<br> 15min (!) Rotation (Isa watched the time)|| align="center" style="background:LemonChiffon;"|Milky Glass Block demo <br>Show and discuss microscope parts (upright and inverted)<br>NA measurements||align="center" style="background:LemonChiffon;"|JAN<br>BRITTA<br>BERT || align="center" style="background:LemonChiffon;" |*milky glass block, teaching microscope, coloured filters for microscope, iris objective <br> *slides with arrows, simple upright and inverted microscope <br> *horizontal protractor on stand, objective holder, 2 air objective with different (!) NAs (and maybe an iris objective), calculator, pencils, rubber
 
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|14:45|| 15:30||align="center"|SESSION 2<br>Theory||align="center"|Microscope illumination <br> Conjugate planes||align="center" |PETER EVENNETT ||
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|13:55|| 14:45||align="center"|SESSION 2<br>Theory||align="center"|Magnification: lateral vs angular <br> Microscope illumination <br> Conjugate planes||align="center" |PETER EVENNETT ||
 
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| style="background:mediumseagreen;"|'''15:30'''
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| style="background:mediumseagreen;"|'''14:45'''
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| style="background:mediumseagreen;"|'''15:45'''
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| style="background:mediumseagreen;"|'''15:05'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"| ||align="center" style="background:mediumseagreen;"|
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"| ||align="center" style="background:mediumseagreen;"|
 
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|style="background:LemonChiffon;"|15:50
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|style="background:LemonChiffon;"|15:05
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|style="background:LemonChiffon;"|17:05 || align="center" style="background:LemonChiffon;"|SESSION 2<br>Practice<br> (30min Rotation)|| align="center" style="background:LemonChiffon;"|conjugate planes on Peters microscope <br> conjugate planes on optical bench||align="center" style="background:LemonChiffon;"|PETER EVENNETT<br>JAN ||align="center" style="background:LemonChiffon;"| *Peters microscope setup <br> *optical bench demonstrating a transmitted light microscope, incl. light source
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|style="background:LemonChiffon;"|16:10 || align="center" style="background:LemonChiffon;"|SESSION 2<br>Practice<br> (30min Rotation)|| align="center" style="background:LemonChiffon;"|conjugate planes on Peters microscope <br> conjugate planes on optical bench||align="center" style="background:LemonChiffon;"|PETER EVENNETT<br>JAN ||align="center" style="background:LemonChiffon;"| *Peters microscope setup <br> *optical bench demonstrating a transmitted light microscope, incl. light source
 
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|17:05||17:25||align="center"|SESSION 3<br>Theory||align="center" |Koehler Illumination <br> Epi illumination <br> (Microscope alignment)||align="center" |PETER EVENNETT ||
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|16:10||16:45||align="center"|SESSION 3<br>Theory||align="center" |Koehler illumination <br> Epi illumination <br> (Microscope alignment)||align="center" |PETER EVENNETT ||
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|style="background:LemonChiffon;"|16:45
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|style="background:LemonChiffon;"|17:45||align="center" style="background:LemonChiffon;"|SESSION 3<br>Practice|| align="center" style="background:LemonChiffon;"|Koehler illumination<br>(Microscope alignment)||align="center" style="background:LemonChiffon;"|BioDIP TEAM ||align="center" style="background:LemonChiffon;"|students manual microscopes, screwdrivers, nice brightfield sample
 
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|style="background:LemonChiffon;"|17:15
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|style="background:LemonChiffon;"|17:45
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|style="background:LemonChiffon;"|18:30||align="center" style="background:LemonChiffon;"|SESSION 3<br>Practice|| align="center" style="background:LemonChiffon;"|Koehler illumination<br>(Microscope alignment)||align="center" style="background:LemonChiffon;"|LMF TEAM ||align="center" style="background:LemonChiffon;"|students manual microscopes, screwdrivers, nice brightfield sample
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|style="background:LemonChiffon;"|18:00||align="center" style="background:LemonChiffon;"|SESSION 4<br>Theory & Practice|| align="center" style="background:LemonChiffon;"|Eyepieces<br>Depth of field<br> Depth of focus||align="center" style="background:LemonChiffon;"|PETER EVENNETT<br>BioDIP TEAM ||align="center" style="background:LemonChiffon;"|students microscopes with 10x/0.25 and 40x/0.65 objectives<br>Stereoscope with a "sample"
 
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| align="center" style="background:#f0f0f0;"|'''Materials needed'''
 
| align="center" style="background:#f0f0f0;"|'''Materials needed'''
 
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| 9:00||10:00||align="center"|Recap ||align="center" |  day 1  ||align="center" |LMF TEAM || align="center" | Questions
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| 9:00||10:10||align="center"|Recap ||align="center" |  day 1  ||align="center" |BioDIP TEAM || align="center" | Questions
 
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|style="background:LemonChiffon;"| 10:00
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|10:10||11:05||align="center"|SESSION 1a <br>DEMONSTRATION||align="center" | Diffraction and Diffraction slide fun<br> Diffraction string show ||align="center"|PETER EVENNETT|| align="center" | diffraction slides, torch, "dashed" string, fabric, funny glasses
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|style="background:LemonChiffon;"|10:45||align="center" style="background:LemonChiffon;"|SESSION 1 <br>Theory & Practice||align="center" style="background:LemonChiffon;"| Eyepieces<br>Depth of Field<br>Depth of Focus  ||align="center" style="background:LemonChiffon;"|PETER EVENNETT <br>LMF TEAM || align="center" style="background:LemonChiffon;"| students microscopes with 10x/0.25 and 40x/0.65 objectives <br> Stereoscope with a "sample"
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|--
 
|--
 
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| style="background:mediumseagreen;"|'''10:45'''
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| style="background:mediumseagreen;"|'''11:05'''
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| style="background:mediumseagreen;"|'''11:00'''
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| style="background:mediumseagreen;"|'''11:25'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| style="background:mediumseagreen;"|'''    ''' ||align="center" style="background:mediumseagreen;" |
 
|align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| style="background:mediumseagreen;"|'''    ''' ||align="center" style="background:mediumseagreen;" |
 +
  
 
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| 11:00||11:30||align="center"|Session 2a <br> DEMONSTRATION || align="center"|Diffraction and Diffraction slide fun <br> Diffraction string show||align="center"|PETER EVENNETT || align="center" | Diffraction slides, torch, "dashed" string
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| 11:25||11:55||align="center"| SESSION 1b <br> Demo and Theory || align="center"|ABBE's diffraction demonstration  ||align="center" |BERT ||align="center" |Dan's ABBE Diffraction demo setup
 
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| 11:30||12:15||align="center"| SESSION 2b <br> Demo and Theory || align="center"|Dan's diffraction setup demonstration  ||align="center" |BERT ||align="center" |Dan's ABBE Diffraction demo setup
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|style="background:LemonChiffon;"| 11:55
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|style="background:LemonChiffon;"| 12:15 ||align="center" style="background:LemonChiffon;"|SESSION 1b<br>Practice|| align="center" style="background:LemonChiffon;"|Diffraction hands on on student microscopes||align="center" style="background:LemonChiffon;"|BioDIP TEAM || align="center" style="background:LemonChiffon;"| gratings, sieves, place holder for objective Nomarski prism, piece of card board, microscopes without condenser, closed field diaphragm
 
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|style="background:LemonChiffon;"| 12:15  
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| 12:15||12:50||align="center"| SESSION 1b <br> Demo and Theory || align="center"| Peter's Diffraction video (w/o parts on Dark field and Phase contrast!)  ||align="center" |JAN<br>(PETER EVENNETT) ||align="center" |video
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|style="background:LemonChiffon;"| 12:45 ||align="center" style="background:LemonChiffon;"|SESSION 2b<br>Practice|| align="center" style="background:LemonChiffon;"|Diffraction hands on on student microscopes||align="center" style="background:LemonChiffon;"|LMF TEAM || align="center" style="background:LemonChiffon;"| gratings, sieves, ...
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| style="background:mediumseagreen;"|'''12:45'''
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| style="background:mediumseagreen;"|'''12:50'''
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| style="background:mediumseagreen;"|'''13:30'''
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| style="background:mediumseagreen;"|'''14:00'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''|| style="background:mediumseagreen;"|'''    ''' ||align="center" style="background:mediumseagreen;" |
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''|| style="background:mediumseagreen;"|'''    ''' ||align="center" style="background:mediumseagreen;" |
 
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| 13:30||14:15||align="center"| SESSION 2b <br> Demo and Theory || align="center"| Peter's Diffraction video (w/o parts on Darkfield and Phase contrast!)  ||align="center" |PETER ||align="center" |video
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| 14:00||14:10||align="center"|SESSION 1b<br> Theory ||align="center" | Wrap - up Diffraction ||align="center" |PETER EVENNETT <br> JAN||
 
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| 14:15||15:00||align="center"|SESSION 3<br>Theory and Demo||align="center" | Lens aberrations and corrections ||align="center" |PETER EVENNETT <br> JAN|| align="center"  |magnetic lens + laser suitcase on white board|
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| 14:10||15:10||align="center"|SESSION 2<br>Theory and Demo||align="center" | Lens abERRations and corrections ||align="center" |PETER EVENNETT <br> JAN|| align="center"  |magnetic lens + laser suitcase on white board<br> (15:05 - 15:10)
 
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| 15:00||15:30||align="center"|SESSION 4<br>Theory||align="center" | Introduction to contrast ||align="center" |PETER EVENNETT ||
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| 15:10||15:35||align="center"|SESSION 3<br>Theory||align="center" | Introduction to contrast ||align="center" |PETER EVENNETT ||
 
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| style="background:mediumseagreen;"|'''15:30'''
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| style="background:mediumseagreen;"|'''15:35'''
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| style="background:mediumseagreen;"|'''15:45'''
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| style="background:mediumseagreen;"|'''16:00'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| style="background:mediumseagreen;"|'''    ''' ||align="center" style="background:mediumseagreen;" |
 
|align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| style="background:mediumseagreen;"|'''    ''' ||align="center" style="background:mediumseagreen;" |
 
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| 15:45 || 16:05 ||align="center"|SESSION 4a<br>Theory|| align="center"| Dark Field microscopy||align="center" |PETER EVENNETT ||
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| 16:00 || 16:10 ||align="center"|SESSION 3a<br>Video|| align="center"| Peter's Dark Field diffraction video part||align="center" |JAN<br>(PETER EVENNETT) ||align="center" |video 
 
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| 16:05 || 16:15 ||align="center"|SESSION 4a<br>Video|| align="center"| Peter's Dark Field diffraction video part||align="center" |PETER EVENNETT ||
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| 16:10 || 16:15 ||align="center"|SESSION 3a<br>Theory|| align="center"| Dark Field microscopy||align="center" |PETER EVENNETT ||
 
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|style="background:LemonChiffon;"| 16:15  
 
|style="background:LemonChiffon;"| 16:15  
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|style="background:LemonChiffon;"| 16:40 ||align="center" style="background:LemonChiffon;"|SESSION 4a<br>Practice|| align="center" style="background:LemonChiffon;"|Dark Field microscopy||align="center" style="background:LemonChiffon;"|LMF TEAM || align="center" style="background:LemonChiffon;"| diatome slides
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|style="background:LemonChiffon;"| 16:40 ||align="center" style="background:LemonChiffon;"|SESSION 3a<br>Practice|| align="center" style="background:LemonChiffon;"|Dark Field microscopy||align="center" style="background:LemonChiffon;"|BioDIP TEAM || align="center" style="background:LemonChiffon;"| diatom slides  
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 +
| 16:40||16:50||align="center"|SESSION 3b<br>Video|| align="center"| Peter's Phase contrast diffraction video part||align="center" |JAN<br>(PETER EVENNETT) ||align="center" |video
 
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| 16:40||17:00||align="center"|SESSION 4b<br>Theory|| align="center"|Basics of Phase Contrast microscopy ||align="center" |PETER EVENNETT ||
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| 16:50 || 17:00 ||align="center"|SESSION 3b<br>Theory|| align="center"| Basics of Phase Contrast microscopy||align="center" |PETER EVENNETT ||
 
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| 17:00 || 17:10 ||align="center"|SESSION 4b<br>Video|| align="center"| Peter's Phase contrast diffraction video part||align="center" |PETER EVENNETT ||
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| 17:00 || 17:10 ||align="center"|SESSION 3b<br>Demonstration|| align="center"| Cheek cell prep||align="center" |JAN ||align="center" |Q-tips, slides, cover slips, PBS, plastic pipette, nail polish
 
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|style="background:LemonChiffon;"| 17:10
 
|style="background:LemonChiffon;"| 17:10
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|style="background:LemonChiffon;"|17:50||align="center" style="background:LemonChiffon;"|SESSION 4b<br>Practice|| align="center" style="background:LemonChiffon;"|Phase Contrast microscopy ||align="center" style="background:LemonChiffon;"|LMF TEAM || align="center" style="background:LemonChiffon;"| cheek cell samples
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|style="background:LemonChiffon;"|17:50||align="center" style="background:LemonChiffon;"|SESSION 3b<br>Practice|| align="center" style="background:LemonChiffon;"|Phase Contrast microscopy ||align="center" style="background:LemonChiffon;"|BioDIP TEAM || align="center" style="background:LemonChiffon;"| cheek cell samples; you tube phase contrast video
 
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| align="center" style="background:#f0f0f0;"|'''Materials needed'''
 
| align="center" style="background:#f0f0f0;"|'''Materials needed'''
 
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| 9:00||10:00||align="center"|Recap ||align="center" |  day 2  ||align="center" |LMF TEAM || align="center" |Questions  
+
| 9:00||10:10||align="center"|Recap ||align="center" |  day 2  ||align="center" |BioDIP TEAM || align="center" |Questions, pair of sieves, torches, microscopes
 
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| 10:00||10:30||align="center"|SESSION 1<br>Theory||align="center" | Objective reading||align="center" |PETER EVENNETT <br>LMF TEAM || align="center" |objectives, eyepieces, polylux
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| 10:10||10:30||align="center"|SESSION 1<br>Theory||align="center" | Objective reading||align="center" |PETER EVENNETT <br>JAN || align="center" |objectives, eyepieces, overhead projector
 
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| style="background:mediumseagreen;"|'''10:30'''
 
| style="background:mediumseagreen;"|'''10:30'''
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| style="background:mediumseagreen;"|'''10:45'''
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| style="background:mediumseagreen;"|'''10:55'''
 
|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;" |
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK''' || align="center" style="background:mediumseagreen;" |
 
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|style="background:LemonChiffon;"| 10:45
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|style="background:LemonChiffon;"| 10:55
−
|style="background:LemonChiffon;"|11:45||align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice<br>Group rotation||align="center" style="background:LemonChiffon;"| Cover glasses, sample mounting and Objective cleaning<br>Objective reading ||align="center" style="background:LemonChiffon;"|JAN<br>BRITTA, SILKE ||align="center" style="background:LemonChiffon;"| Coverglasses (High preciscion), different oils, slides, different cleaning reagents, cover glass thickness measure meter <br> at least 7 different, "interesting" objectives (for a group of 6-7)
+
|style="background:LemonChiffon;"|12:10||align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice<br>Group rotation||align="center" style="background:LemonChiffon;"| Cover glasses, sample mounting and Objective cleaning<br>Objective reading ||align="center" style="background:LemonChiffon;"|JAN<br>BRITTA ||align="center" style="background:LemonChiffon;"| Coverglasses (High preciscion), different oils, slides, different cleaning reagents, cover glass thickness measure meter <br> box with broken objectives + two 160 tube lens objectives
 
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| 12:15||12:45||align="center"|SESSION 2<br>Theory||align="center" | Polarized light microscopy||align="center" |PETER EVENNETT ||
+
| 12:10||12:50||align="center"|SESSION 2<br>Theory||align="center" | Polarized light microscopy||align="center" |PETER EVENNETT ||
 
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|-
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| style="background:mediumseagreen;"|'''12:45'''
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| style="background:mediumseagreen;"|'''12:50'''
−
| style="background:mediumseagreen;"|'''13:45'''
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| style="background:mediumseagreen;"|'''13:55'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''|| style="background:mediumseagreen;"|'''    ''' || style="background:mediumseagreen;"|'''    '''
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''|| style="background:mediumseagreen;"|'''    ''' || style="background:mediumseagreen;"|'''    '''
 
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|style="background:LemonChiffon;"| 14:00
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|style="background:LemonChiffon;"| 13:55
−
|style="background:LemonChiffon;"|14:40||align="center" style="background:LemonChiffon;"|SESSION 2<br>Practice||align="center" style="background:LemonChiffon;"| Polarized light microscopy||align="center"  style="background:LemonChiffon;"|LMF TEAM|| align="center" style="background:LemonChiffon;"| Hair, stone samples, benzocain cristals, rulers, gummi bears, plastic dishes, ...  
+
|style="background:LemonChiffon;"|14:40||align="center" style="background:LemonChiffon;"|SESSION 2<br>Practice||align="center" style="background:LemonChiffon;"| Polarized light microscopy||align="center"  style="background:LemonChiffon;"|PETER EVENNETT<br>BioDIP TEAM|| align="center" style="background:LemonChiffon;"| overhead projector, hair, stone samples, benzocain crystals, rulers, gummy bears, plastic dishes, ...  
 
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|style="background:LemonChiffon;"| 15:05
 
|style="background:LemonChiffon;"| 15:05
−
|style="background:LemonChiffon;"|15:40||align="center" style="background:LemonChiffon;"|SESSION 3<br>Practice|| align="center" style="background:LemonChiffon;"|Differential Interference Contrast (DIC)||align="center" style="background:LemonChiffon;"|LMF TEAM|| align="center" style="background:LemonChiffon;"| cheek cell samples  
+
|style="background:LemonChiffon;"|15:45||align="center" style="background:LemonChiffon;"|SESSION 3<br>Practice|| align="center" style="background:LemonChiffon;"|Differential Interference Contrast (DIC)||align="center" style="background:LemonChiffon;"|BioDIP TEAM|| align="center" style="background:LemonChiffon;"| cheek cell samples, diatoms
 
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| style="background:mediumseagreen;"|'''15:40'''
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| style="background:mediumseagreen;"|'''15:45'''
 
| style="background:mediumseagreen;"|'''16:00'''
 
| style="background:mediumseagreen;"|'''16:00'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
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| 16:00||16:15||align="center"|Question round|| align="center"|Questions to Peter Evennett||align="center" |PETER EVENNETT <br>LMF TEAM ||
+
| 16:00||16:20||align="center"|Question round|| align="center"|Questions to Peter Evennett||align="center" |PETER EVENNETT <br>BioDIP TEAM ||
 
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|-
−
| 16:15||17:15||align="center"|SESSION 3<br>Theory||align="center" | Fundamental concepts of fluorescence ||align="center" |JAN||align="center" |fluorescent liquids in bottles plus laser pointer (blue, green, red)   
+
| 16:20||17:00||align="center"|SESSION 3<br>Theory||align="center" | Fundamental concepts of fluorescence ||align="center" |JAN||align="center" |fluorescent liquids in bottles plus laser pointer (blue, green, red)   
 
|-
 
|-
 
|-
 
|-
−
| 17:15||17:45||align="center"|SESSION 4<br>Theory||align="center" | Fluorescence microscopy introduction and light sources ||align="center" |DAVIDE||align="center" |• Light sources<br>• Lamp houses
+
| 17:00||18:00||align="center"|SESSION 4<br>Theory||align="center" | Introduction to fluorescence microscopy<br>and light sources ||align="center" |BRITTA<br>JAN||align="center" |• Light sources<br>• Lamp houses
 +
|-
 +
|-
 +
| style="background:SkyBlue;"|'''19:30'''
 +
| style="background:SkyBlue;"|'''open end'''
 +
|align="center" style="background:SkyBlue;"|'''Dinner'''
 +
|align="center" style="background:SkyBlue;"|'''with Peter'''|| align="center" style="background:SkyBlue;"|'''BioDIP TEAM'''|| style="background:SkyBlue;"|'''    '''
 
|-
 
|-
 
|}
 
|}
Line 240: Line 253:
 
| align="center" style="background:#f0f0f0;"|'''Materials needed'''
 
| align="center" style="background:#f0f0f0;"|'''Materials needed'''
 
|-
 
|-
−
| 9:00||10:00||align="center"|Recap (Demo) ||align="center" |  day 3  ||align="center" |LMF TEAM (JAN) ||align="center" |PIXELS ||align="center" |Sesame seeds, sunflower seeds, nudels, gumibears and a checker board (on Polylux)
+
| 9:00||10:05||align="center"|Recap ||align="center" |  day 3  ||align="center" |BioDIP TEAM ||align="center" |-||align="center" |Questions
 
|-
 
|-
−
| 10:00||10:45||align="center"|SESSION 1<br>Theory||align="center" | 2nd part Fluorescence Microscopy ||align="center" |DAVIDE||align="center" |- ||align="center" |• Spectra <br>• Filters <br> • Filter cubes <br> • Filter spectral charts of each microscope (laminated)
+
| 10:05||10:50||align="center"|SESSION 1<br>Theory||align="center" | 2nd part Fluorescence Microscopy ||align="center" |BRITTA<br>JAN||align="center" |- ||align="center" |Spectra <br>Filters <br>Filter cubes <br>  
 +
|-
 +
|style="background:LemonChiffon;"|10:50
 +
|style="background:LemonChiffon;"|11:00||align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice||align="center" style="background:LemonChiffon;"|Filters||align="center" style="background:LemonChiffon;"|BioDIP TEAM||align="center" style="background:LemonChiffon;"|-||align="center" style="background:LemonChiffon;"|  laminated sheets with grids for spectra drawing  <br>red, green, blue, black board markers<br>EtOH spray bottles, tissue
 
|-
 
|-
 
|-
 
|-
−
| style="background:mediumseagreen;"|'''10:45'''
 
 
| style="background:mediumseagreen;"|'''11:00'''
 
| style="background:mediumseagreen;"|'''11:00'''
 +
| style="background:mediumseagreen;"|'''11:20'''
 
|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;"|'''BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|-
 
|-
 
|-
 
|-
−
|style="background:LemonChiffon;"| 11:00
+
|style="background:LemonChiffon;"| 11:20
−
|style="background:LemonChiffon;"| 12:00||align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice|| align="center" style="background:LemonChiffon;"|Fluorescence imaging at microscopes|| align="center" style="background:LemonChiffon;"|LMF TEAM|| align="center" style="background:LemonChiffon;"|- || align="center" style="background:LemonChiffon;"|• Fluorescent labeled samples (Convallaria)
+
|style="background:LemonChiffon;"| 12:15||align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice|| align="center" style="background:LemonChiffon;"|Fluorescence imaging at microscopes|| align="center" style="background:LemonChiffon;"|BioDIP TEAM|| align="center" style="background:LemonChiffon;"|- || align="center" style="background:LemonChiffon;"| laminated sheets with DAPI/FITC/TRITC Spectra <br> red, green, blue, board markers<br> EtOH spray bottles + tissue<br> Fluorescent labeled samples (Convallaria)
 
|-
 
|-
 
|-
 
|-
−
| 12:00||13:00||align="center"|SESSION 2<br>Theory & Practice|| align="center"|Detectors ||align="center" |BRITTA||align="center" | • CCD chip <br> • example cameras showing different chip sizes <br> • RGB Slider Spot Camera setup <br> Demo: CCD chip under stereo microscope||
+
| 12:15||12:55||align="center"|SESSION 2<br>Theory|| align="center"|Detectors ||align="center" |BRITTA||align="center" |-||align="center" | CCD chip paper weight <br>example cameras showing different chip sizes <br> • RGB Slider Spot Camera setup <br> Demo: CCD chip under stereo microscope (for later)
 
|-
 
|-
 
|-
 
|-
−
| style="background:mediumseagreen;"|'''13:00'''
+
| style="background:mediumseagreen;"|'''12:55'''
−
| style="background:mediumseagreen;"|'''14:00'''
+
| style="background:mediumseagreen;"|'''13:50'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''|| align="center" style="background:mediumseagreen;"|'''LUNCH'''||align="center" style="background:mediumseagreen;"|'''LUNCH'''||align="center" style="background:mediumseagreen;"|'''LUNCH'''
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''|| align="center" style="background:mediumseagreen;"|'''LUNCH'''||align="center" style="background:mediumseagreen;"|'''LUNCH'''||align="center" style="background:mediumseagreen;"|'''LUNCH'''
 
|-
 
|-
 
|-
 
|-
−
|style="background:LemonChiffon;"|14:00
+
| 13:50 ||14:20||align="center"|SESSION 2<br>Demo & Theory|| align="center"|Detectors ||align="center" |BRITTA||align="center" |bench show<br>advacned detectors lecture||align="center" | RT spot with slider and camera objective<br> PC<br> nice sample for binning
−
|style="background:LemonChiffon;"|14:30|| align="center" style="background:LemonChiffon;"|SESSION 2<br>Practice|| align="center" style="background:LemonChiffon;"|Basic camera "vocabulary" on students microscopes|| align="center" style="background:LemonChiffon;"|LMF TEAM|| align="center" style="background:LemonChiffon;"|- || align="center" style="background:LemonChiffon;"|checklist
+
 
|-
 
|-
 
|-
 
|-
−
| 14:30||15:45||align="center"|SESSION 3<br>Theory|| align="center"|What is a pixel<br>Analog to Digital conversion<br>Nuyquist-Shannon<br>Quantitative Imaging <br> Spatial Calibration ||align="center" |BERT||align="center" |- ||align="center" |• pixel size calculation on a given optical setup
+
|style="background:LemonChiffon;"|14:20
 +
|style="background:LemonChiffon;"|14:25||align="center" style="background:LemonChiffon;"|SESSION 2<br>Practice||align="center" style="background:LemonChiffon;"|Detectors<br>"QE" show ||align="center" style="background:LemonChiffon;"|JAN||align="center" style="background:LemonChiffon;"|students count times of laser pointer blinking||align="center" style="background:LemonChiffon;" |blinking laser pointer
 
|-
 
|-
 +
|-
 +
| 14:25 ||14:50||align="center"|SESSION 3a<br>Theory|| align="center"|Digital sampling ||align="center" |BERT||align="center" |Nyquist-Shannon<br>what is a pixel<br>spatial calibration||align="center" | -
 +
|-
 +
|-
 +
|style="background:LemonChiffon;"|14:50
 +
|style="background:LemonChiffon;"|15:05|| align="center" style="background:LemonChiffon;"|SESSION 3<br>Practice|| align="center" style="background:LemonChiffon;"|calculating dexel/pixel size|| align="center" style="background:LemonChiffon;"|BioDIP TEAM|| align="center" style="background:LemonChiffon;"|practice calculating needed dexel size for given optical setup || align="center" style="background:LemonChiffon;"|calculator<br>text with given optical setup
 +
|-
 +
|-
 +
| 15:05||15:25||align="center"|SESSION 3b<br>Theory|| align="center"|Quantitative Imaging ||align="center" |BERT||align="center" |digitization in space, time & intensity<br>aliasing ||align="center" |-
 +
|-
 +
| style="background:mediumseagreen;"|'''15:25'''
 
| style="background:mediumseagreen;"|'''15:45'''
 
| style="background:mediumseagreen;"|'''15:45'''
−
| style="background:mediumseagreen;"|'''16:00'''
 
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|align="center" style="background:mediumseagreen;"|'''BREAK'''
 
|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;"|'''    '''
 
|-
 
|-
 
|-
 
|-
−
|style="background:LemonChiffon;"|16:00
+
|style="background:LemonChiffon;"|15:45
−
|style="background:LemonChiffon;"|16:45|| align="center" style="background:LemonChiffon;"|SESSION 4a<br>Practice|| align="center" style="background:LemonChiffon;"|camera discussion on student microscopes|| align="center" style="background:LemonChiffon;"|LMF TEAM|| align="center" style="background:LemonChiffon;"|• guidelines for choosing camera <br> • spatial calibration <br> • camera specs sheet discussion|| align="center" style="background:LemonChiffon;"|• camera specs sheets <br> • checklist
+
|style="background:LemonChiffon;"|16:55|| align="center" style="background:LemonChiffon;"|SESSION 4a+b<br>Practice|| align="center" style="background:LemonChiffon;"|camera discussion on student microscopes|| align="center" style="background:LemonChiffon;"|BioDIP TEAM|| align="center" style="background:LemonChiffon;"|check out basic camera vocabulary<br> discussing spec sheets of student microscope cameras<br>spatial calibration with ruler and FIJI|| align="center" style="background:LemonChiffon;"|camera spec sheets<br>Hamamatsu camera comparison list <br>camera vocabulary checklist <br> microscope ruler
 
|-
 
|-
−
|style="background:LemonChiffon;"|16:45
+
|style="background:LemonChiffon;"|16:55
−
|style="background:LemonChiffon;"|18:00|| align="center" style="background:LemonChiffon;"|SESSION 4b<br>Practice|| align="center" style="background:LemonChiffon;"|Imaging with CCD cameras using LMF systems|| align="center" style="background:LemonChiffon;"|LMF TEAM|| align="center" style="background:LemonChiffon;"|• 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" style="background:LemonChiffon;"|• Microscopes: <br> DVcore(Davide, 3 students)<br> N-Storm (Britta, 3 students)<br> W1 Oly-TIRF (Bert, 3students) <br> self-built-syst (Jan, 3 students)) <br>• Fluorescence Sample slides (Kidney / Cells)<br> • camera example sheets
+
|style="background:LemonChiffon;"|18:00ish<br>open end|| align="center" style="background:LemonChiffon;"|SESSION 4c<br>Practice|| align="center" style="background:LemonChiffon;"|Imaging with CCD cameras using LMF systems|| align="center" style="background:LemonChiffon;"|JAN<br>BRITTA<br>BERT|| align="center" style="background:LemonChiffon;"|camera spec sheet of respective cameras<br>LUT, saturation, histogram etc<br>BioDIP Wiki|| align="center" style="background:LemonChiffon;"|Microscopes: <br> N-Storm (BRITTA, 4 students)<br> W1 Oly-TIRF (BERT, 3 students) <br> self-built-system (JAN, 4 students)) <br>Fluorescence Sample slides (Kidney / Cells...)<br> camera spec sheets of respective camera
 
|-
 
|-
−
|-
 
−
| 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 (18th Oct)===
 
=== DAY FIVE (18th Oct)===
Line 301: Line 321:
 
| align="center" style="background:#f0f0f0;"|'''Materials needed'''
 
| align="center" style="background:#f0f0f0;"|'''Materials needed'''
 
|-
 
|-
−
| 9:00||10:30||align="center"|Recap ||align="center" |  day 4  ||align="center" |LMF TEAM||align="center"|Question sheets (!)
+
| 9:00||10:00||align="center"|Recap ||align="center" |  day 4  ||align="center" |BioDIP TEAM||align="center"|Question sheets<br>calculators, pens
 +
|-
 +
|-
 +
| 10:00||10:30||align="center"|SESSION 1a<br>Theory ||align="center" | OPTICAL SECTIONING<br>introduction<br>widefield & deconvolution<br>chromatic aberration & correction  ||align="center" |JAN||align="center"|labtop
 
|-
 
|-
 
|-
 
|-
Line 307: Line 330:
 
| style="background:mediumseagreen;"|'''10:45'''
 
| style="background:mediumseagreen;"|'''10:45'''
 
|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)''
+
|align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|  
 
|-
 
|-
−
|10:45||13:00||align="center"|SESSION 1<br>Theory & Demo||align="center" | Optical sectioning methods<br>Pros&Cons ||align="center" |JAN ||align="center" |"confocal equipment": <br> laser pointer, mirror, broken scanning mirror <br> dual laser pointer (blue, green, red) to demonstrate penetration of diff. wavelength <br> Pete's suitcase SPIM??
+
|10:45||11:30||align="center"|SESSION 1b<br>Theory & Demo||align="center" | OPTICAL SECTIONING<br>Laser Scanning Confocal<br>2PM ||align="center" |JAN<br>BRITTA ||align="center" |"confocal equipment": <br> laser pointer, mirror, broken scanning mirror <br> dual laser pointer (blue, green, red) to demonstrate penetration of diff. wavelength
 
|-
 
|-
 
|-
 
|-
−
| style="background:mediumseagreen;"|'''13:00'''
+
|11:30||12:15||align="center"|SESSION 1c<br>Theory & Demo||align="center" | OPTICAL SECTIONING<br>Spinning disc confocal<br>TIRF<br>SPIM ||align="center" |BRITTA<br>JAN ||align="center" |DAN's "spinning-disc-on-a-bench"<br>small glass cube with olive oil over milky water plus<br>5mW blue laser pointer (CRTD)<br>glass block with brain/scull and red light sheet laser from ZEISS
−
| style="background:mediumseagreen;"|'''14:00'''
+
|-
 +
|-
 +
|12:15||12:30||align="center"|SESSION 1c<br>Demo||align="center" | OPTICAL SECTIONING<br>SPIM ||align="center" |PETE ||align="center" |PETE's SPIM-in-a-suitcase (on a bench this time)<br>glass block with whole scull<br>PETE's light sheet laser from whicked laser
 +
|-
 +
|-
 +
|12:30||12:40||align="center"|SESSION 1d<br>Theory||align="center" | OPTICAL SECTIONING<br>Apotome<br>final remarks ||align="center" |JAN ||align="center" |
 +
|-
 +
|-
 +
| style="background:mediumseagreen;"|'''12:40'''
 +
| style="background:mediumseagreen;"|'''13:45'''
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''|| align="center" style="background:mediumseagreen;"|'''LUNCH'''||align="center" style="background:mediumseagreen;"|Optional: LMF tour
 
|align="center" style="background:mediumseagreen;"|'''LUNCH'''|| align="center" style="background:mediumseagreen;"|'''LUNCH'''||align="center" style="background:mediumseagreen;"|Optional: LMF tour
 
|-
 
|-
 
|-
 
|-
−
| 14:00||14:10||align="center"|SESSION 2|| align="center"|Planning your Imaging Experiment ||align="center" |DAVIDE||align="center" |
+
| 13:45||14:00||align="center"|SESSION 2|| align="center"|Planning your Imaging Experiment ||align="center" |BERT||align="center" | + introduction to new user project questions
 +
|-
 +
|-
 +
| 14:00||14:50||align="center"|SESSION 3<br> Project discussion|| align="center"|Three volunteer users present their imaging problems shortly and discuss it with the whole group ||align="center" |BioDIP TEAM||align="center" |NOTE: did ask for volunteers already on Monday, than again on Wednesday; this time input from student group was rather low
 +
|-
 
|-
 
|-
 +
| 14:50||15:50||align="center"|SESSION 3|| align="center"|Course evaluation ||align="center" |BioDIP TEAM||align="center" |Gummy bear bags (last time it was apples :-))<br>white board + marker
 
|-
 
|-
−
| 14:10||15:15||align="center"|SESSION 3<br> Project discussion|| align="center"|Selected (volunteering) users present their imaging problems shortly and discuss it with the whole group ||align="center" |LMF TEAM||align="center" |NOTE: this is an experiment: if no user is volunteering to present in front of the whole group, we'll switch back to the old format of small group project discussions
 
 
|-
 
|-
 +
| 15:50||16:00||align="center"|SESSION 4|| align="center"|Introduction to BioDIP Wiki ||align="center" |BRITTA||align="center" | lab top
 
|-
 
|-
−
| 15:15||16:00||align="center"|SESSION 3|| align="center"|Course evaluation ||align="center" |LMF TEAM||align="center" |
 
 
|}
 
|}

Latest revision as of 18:17, 4 November 2013

Contents

[edit] PhD Program: Basics of Light Microscopy - Peter Evennett / LMF - Course October 2013

[edit] SETUP - Fri 11th Oct

Setup of all needed course material in Galeria

Equipment needed

  • Microscopes
  • Optical bench
  • Spinning disk gadget
  • Polarizing sheets
  • Diffraction Grids
  • Sample map for each teaching station with: diatomes, liver tissue, convolaria, Benzocain crystals
  • First day handout for students
  • Light torches
  • Cameras and labtops for teaching stations
  • Cleaning stations for each system containing: cover slips, slides, Qtips, water, 70% EtOH, lens cleaning tissue
  • Waste and glass waste for each table
  • Box with screw drivers, telescope, eye pieces, ruler, mirror slide, DIC objective and wollaston prism for each microscope
  • 2 polarization filters for each microscope
  • Box with red, green, blue, black board marker, pen, pencil, sharpener, ruler, calculator for each microscope

[edit] DAY ONE (14th Oct)

FROM TO ACTIVITY TOPICS Responsible person(s) Materials needed
8:30 09:00 FINAL PREP Test everything works BioDIP TEAM
9:00 9:35 INTRODUCTION COURSE INTRO
WHO is WHO? Round table		 BioDIP TEAM White board and pen
9:35 10:32 Session 1
Theory		 PRINCIPLES OF LIGHT MICROSCOPY
Historical aspects
Very basic components and principles (incl. refraction-basics)		 PETER EVENNETT (BioDIP TEAM) students shortly watch airy pattern from hole in mirror at the teaching microsopes (~10:05 - 10:10)
10:32 10:45 BREAK BREAK
10:45 11:20 SESSION 1
Practice
2 groups, 15min Rotation		 capillary/plastic (Huisken) in oil demo
Coin-in-cup demo
red, green, blue laser through milky water bath - measure angles, calc refraction		 JAN
BRITTA 		*capillaries, oil
* coin-in-cup, water
* red/green laser pointer with holder stand, plastic refraction demo setup with protractor and milky water
11:20 12:10 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 (did not do it this time)
12:10 13:00 LUNCH LUNCH
13:00 13:55 SESSION 1
Practice
15min (!) Rotation (Isa watched the time)		 Milky Glass Block demo
Show and discuss microscope parts (upright and inverted)
NA measurements		 JAN
BRITTA
BERT 		*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
13:55 14:45 SESSION 2
Theory		 Magnification: lateral vs angular
Microscope illumination
Conjugate planes		 PETER EVENNETT
14:45 15:05 BREAK BREAK
15:05 16:10 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
16:10 16:45 SESSION 3
Theory		 Koehler illumination
Epi illumination
(Microscope alignment)		 PETER EVENNETT
16:45 17:45 SESSION 3
Practice		 Koehler illumination
(Microscope alignment)		 BioDIP TEAM students manual microscopes, screwdrivers, nice brightfield sample
17:45 18:00 SESSION 4
Theory & Practice		 Eyepieces
Depth of field
Depth of focus		 PETER EVENNETT
BioDIP TEAM 		students microscopes with 10x/0.25 and 40x/0.65 objectives
Stereoscope with a "sample"

[edit] DAY TWO (15th Oct)

FROM TO ACTIVITY TOPICS Responsible person(s) Materials needed
9:00 10:10 Recap day 1 BioDIP TEAM Questions
10:10 11:05 SESSION 1a
DEMONSTRATION		 Diffraction and Diffraction slide fun
Diffraction string show 		PETER EVENNETT diffraction slides, torch, "dashed" string, fabric, funny glasses
11:05 11:25 BREAK COFFEE BREAK


11:25 11:55 SESSION 1b
Demo and Theory 		ABBE's diffraction demonstration BERT Dan's ABBE Diffraction demo setup
11:55 12:15 SESSION 1b
Practice		 Diffraction hands on on student microscopes BioDIP TEAM gratings, sieves, place holder for objective Nomarski prism, piece of card board, microscopes without condenser, closed field diaphragm
12:15 12:50 SESSION 1b
Demo and Theory 		Peter's Diffraction video (w/o parts on Dark field and Phase contrast!) JAN
(PETER EVENNETT) 		video
12:50 14:00 BREAK LUNCH
14:00 14:10 SESSION 1b
Theory 		Wrap - up Diffraction PETER EVENNETT
JAN
14:10 15:10 SESSION 2
Theory and Demo		 Lens abERRations and corrections PETER EVENNETT
JAN		 magnetic lens + laser suitcase on white board
(15:05 - 15:10)
15:10 15:35 SESSION 3
Theory		 Introduction to contrast PETER EVENNETT
15:35 16:00 BREAK COFFEE BREAK
16:00 16:10 SESSION 3a
Video		 Peter's Dark Field diffraction video part JAN
(PETER EVENNETT) 		video
16:10 16:15 SESSION 3a
Theory		 Dark Field microscopy PETER EVENNETT
16:15 16:40 SESSION 3a
Practice		 Dark Field microscopy BioDIP TEAM diatom slides
16:40 16:50 SESSION 3b
Video		 Peter's Phase contrast diffraction video part JAN
(PETER EVENNETT) 		video
16:50 17:00 SESSION 3b
Theory		 Basics of Phase Contrast microscopy PETER EVENNETT
17:00 17:10 SESSION 3b
Demonstration		 Cheek cell prep JAN Q-tips, slides, cover slips, PBS, plastic pipette, nail polish
17:10 17:50 SESSION 3b
Practice		 Phase Contrast microscopy BioDIP TEAM cheek cell samples; you tube phase contrast video

[edit] DAY THREE (16th Oct)

FROM TO ACTIVITY TOPICS Responsible person(s) Materials needed
9:00 10:10 Recap day 2 BioDIP TEAM Questions, pair of sieves, torches, microscopes
10:10 10:30 SESSION 1
Theory		 Objective reading PETER EVENNETT
JAN 		objectives, eyepieces, overhead projector
10:30 10:55 BREAK BREAK BREAK
10:55 12:10 SESSION 1
Practice
Group rotation		 Cover glasses, sample mounting and Objective cleaning
Objective reading 		JAN
BRITTA 		Coverglasses (High preciscion), different oils, slides, different cleaning reagents, cover glass thickness measure meter
box with broken objectives + two 160 tube lens objectives
12:10 12:50 SESSION 2
Theory		 Polarized light microscopy PETER EVENNETT
12:50 13:55 BREAK LUNCH
13:55 14:40 SESSION 2
Practice		 Polarized light microscopy PETER EVENNETT
BioDIP TEAM		 overhead projector, hair, stone samples, benzocain crystals, rulers, gummy bears, plastic dishes, ...
14:40 15:05 SESSION 3
Theory		 Differential Interference Contrast (DIC) PETER EVENNETT
15:05 15:45 SESSION 3
Practice		 Differential Interference Contrast (DIC) BioDIP TEAM cheek cell samples, diatoms
15:45 16:00 BREAK BREAK BREAK
16:00 16:20 Question round Questions to Peter Evennett PETER EVENNETT
BioDIP TEAM
16:20 17:00 SESSION 3
Theory		 Fundamental concepts of fluorescence JAN fluorescent liquids in bottles plus laser pointer (blue, green, red)
17:00 18:00 SESSION 4
Theory		 Introduction to fluorescence microscopy
and light sources 		BRITTA
JAN		 • Light sources
• Lamp houses
19:30 open end Dinner with Peter BioDIP TEAM

[edit] DAY FOUR (17th Oct)

FROM TO ACTIVITY TOPICS Responsible person(s) DEMO Activities Materials needed
9:00 10:05 Recap day 3 BioDIP TEAM - Questions
10:05 10:50 SESSION 1
Theory		 2nd part Fluorescence Microscopy BRITTA
JAN		 - Spectra
Filters
Filter cubes
10:50 11:00 SESSION 1
Practice		 Filters BioDIP TEAM - laminated sheets with grids for spectra drawing
red, green, blue, black board markers
EtOH spray bottles, tissue
11:00 11:20 BREAK BREAK BREAK BREAK BREAK
11:20 12:15 SESSION 1
Practice		 Fluorescence imaging at microscopes BioDIP TEAM - laminated sheets with DAPI/FITC/TRITC Spectra
red, green, blue, board markers
EtOH spray bottles + tissue
Fluorescent labeled samples (Convallaria)
12:15 12:55 SESSION 2
Theory		 Detectors BRITTA - CCD chip paper weight
example cameras showing different chip sizes
• RGB Slider Spot Camera setup
Demo: CCD chip under stereo microscope (for later)
12:55 13:50 BREAK LUNCH LUNCH LUNCH LUNCH
13:50 14:20 SESSION 2
Demo & Theory		 Detectors BRITTA bench show
advacned detectors lecture		 RT spot with slider and camera objective
PC
nice sample for binning
14:20 14:25 SESSION 2
Practice		 Detectors
"QE" show 		JAN students count times of laser pointer blinking blinking laser pointer
14:25 14:50 SESSION 3a
Theory		 Digital sampling BERT Nyquist-Shannon
what is a pixel
spatial calibration		 -
14:50 15:05 SESSION 3
Practice		 calculating dexel/pixel size BioDIP TEAM practice calculating needed dexel size for given optical setup calculator
text with given optical setup
15:05 15:25 SESSION 3b
Theory		 Quantitative Imaging BERT digitization in space, time & intensity
aliasing 		-
15:25 15:45 BREAK BREAK
15:45 16:55 SESSION 4a+b
Practice		 camera discussion on student microscopes BioDIP TEAM check out basic camera vocabulary
discussing spec sheets of student microscope cameras
spatial calibration with ruler and FIJI		 camera spec sheets
Hamamatsu camera comparison list
camera vocabulary checklist
microscope ruler
16:55 18:00ish
open end		 SESSION 4c
Practice		 Imaging with CCD cameras using LMF systems JAN
BRITTA
BERT		 camera spec sheet of respective cameras
LUT, saturation, histogram etc
BioDIP Wiki		 Microscopes:
N-Storm (BRITTA, 4 students)
W1 Oly-TIRF (BERT, 3 students)
self-built-system (JAN, 4 students))
Fluorescence Sample slides (Kidney / Cells...)
camera spec sheets of respective camera

[edit] DAY FIVE (18th Oct)

FROM TO ACTIVITY TOPICS Responsible person(s) Materials needed
9:00 10:00 Recap day 4 BioDIP TEAM Question sheets
calculators, pens
10:00 10:30 SESSION 1a
Theory 		OPTICAL SECTIONING
introduction
widefield & deconvolution
chromatic aberration & correction 		JAN labtop
10:30 10:45 BREAK BREAK BREAK
10:45 11:30 SESSION 1b
Theory & Demo		 OPTICAL SECTIONING
Laser Scanning Confocal
2PM 		JAN
BRITTA 		"confocal equipment":
laser pointer, mirror, broken scanning mirror
dual laser pointer (blue, green, red) to demonstrate penetration of diff. wavelength
11:30 12:15 SESSION 1c
Theory & Demo		 OPTICAL SECTIONING
Spinning disc confocal
TIRF
SPIM 		BRITTA
JAN 		DAN's "spinning-disc-on-a-bench"
small glass cube with olive oil over milky water plus
5mW blue laser pointer (CRTD)
glass block with brain/scull and red light sheet laser from ZEISS
12:15 12:30 SESSION 1c
Demo		 OPTICAL SECTIONING
SPIM 		PETE PETE's SPIM-in-a-suitcase (on a bench this time)
glass block with whole scull
PETE's light sheet laser from whicked laser
12:30 12:40 SESSION 1d
Theory		 OPTICAL SECTIONING
Apotome
final remarks 		JAN
12:40 13:45 LUNCH LUNCH LUNCH Optional: LMF tour
13:45 14:00 SESSION 2 Planning your Imaging Experiment BERT + introduction to new user project questions
14:00 14:50 SESSION 3
Project discussion		 Three volunteer users present their imaging problems shortly and discuss it with the whole group BioDIP TEAM NOTE: did ask for volunteers already on Monday, than again on Wednesday; this time input from student group was rather low
14:50 15:50 SESSION 3 Course evaluation BioDIP TEAM Gummy bear bags (last time it was apples :-))
white board + marker
15:50 16:00 SESSION 4 Introduction to BioDIP Wiki BRITTA lab top
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