BasicCoursePhDProg - Basics in Light Microscopy - schedule April 2018
From BioDIP
(Difference between revisions)
(→DAY FOUR - Thu 19th April: removed laminated sheets of patents) |
(→DAY FIVE - Fri 20th April: changed back to Benoit from the "future" Noreen) |
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* course handout for students | * course handout for students | ||
* booklets Microscopy from the beginning by Zeiss | * booklets Microscopy from the beginning by Zeiss | ||
− | * 10 tables <span style="color:red; ">(ordererd via Katrin Boes; we only get 9) | + | * 10 tables <span style="color:red; ">(ordererd via building maintenance, had to coordinate with Katrin Boes beforehand; we only get 9, but this was enough) |
− | * Microscopes (6 teaching stations, 1 demo station, Peter's diffraction demo scope | + | * Microscopes (6 teaching stations, 1 demo station, Peter's diffraction demo scope) |
− | * cell culture microscope | + | * cell culture microscope |
* stereo microscope with coin | * stereo microscope with coin | ||
* Optical bench | * Optical bench | ||
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* Light torches | * Light torches | ||
* Cameras and lab-tops for teaching stations | * Cameras and lab-tops for teaching stations | ||
− | * Cleaning stations for each system containing: cover slips, slides, Qtips, water, 70% EtOH, lens cleaning tissue, PBS, immersion oil, nail polish | + | * Cleaning stations for each system containing: cover slips, slides, Qtips, water, 70% EtOH, lens cleaning tissue, PBS, immersion oil, nail polish <span style="color:red; ">(need to check carefully whether everything needed is there!) |
* Waste and glass waste for each teaching station | * Waste and glass waste for each teaching station | ||
* 70% EtOH srpay bottle and tissue for each teaching station | * 70% EtOH srpay bottle and tissue for each teaching station | ||
* Box with screw drivers (1x 3mm, 2x 1.5mm), telescope, eye pieces, microscope ruler, mirror slide, DIC objective and Wollaston prism for each microscope | * Box with screw drivers (1x 3mm, 2x 1.5mm), telescope, eye pieces, microscope ruler, mirror slide, DIC objective and Wollaston prism for each microscope | ||
* 2 small polarization filter sheets for each microscope | * 2 small polarization filter sheets for each microscope | ||
− | * Box with red, green, blue, black board marker, pen, pencil, sharpener, ruler, calculator for each microscope | + | * Box with red, green, blue, black board marker, pen, pencil, sharpener, ruler, calculator for each microscope, <span style="color:red; ">(need to check carefully whether everything needed is there!) |
=== DAY ONE - Mon 16th April === | === DAY ONE - Mon 16th April === | ||
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|- | |- | ||
− | | 8:30||09:00||align="center"|FINAL PREP||align="center" | Test everything works ||align="center" |BioDIP TEAM || | + | | 8:30||09:00||align="center"|FINAL PREP||align="center" | Test everything works ||align="center" |BioDIP TEAM ||align="center"| put mirror slide with hole on each teaching station |
|- | |- | ||
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− | | 9:00||9: | + | | 9:00||9:10||align="center"|INTRODUCTION||align="center" | GENERAL OVERVIEW ||align="center" |JAN || align="center"| |
|- | |- | ||
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− | | 9: | + | | 9:10||9:30||align="center"|INTRODUCTION||align="center" | COURSE INTRO <br> WHO is WHO? Round table||align="center" |BioDIP TEAM || align="center"| White board and pen; ask students for volunteering for Friday's project discussion round<br>(we need two - three volunteers) |
|- | |- | ||
|- | |- | ||
− | | style="background:mediumseagreen;"|'''10: | + | | 9:30||09:50||align="center"|Session 1a<br>Theory||align="center" | PRINCIPLES OF LIGHT MICROSCOPY<br>Historical aspects<br>Very basic components and principles <br>(incl. refraction basics)||align="center" |JAN ||align="center"| |
− | | style="background:mediumseagreen;"|'''10: | + | |- |
+ | |- | ||
+ | | style="background:LemonChiffon;"| 09:50|| style="background:LemonChiffon;"| 10:02 | ||
+ | |align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice|| align="center" style="background:LemonChiffon;"|students watch Airy pattern from hole in mirror||align="center" style="background:LemonChiffon;"|BioDIP team || align="center" style="background:LemonChiffon;" |mirror slides with hole on each teaching station | ||
+ | |- | ||
+ | |- | ||
+ | | 10:02||10:12||align="center"|Session 1b<br>Theory||align="center" | PRINCIPLES OF LIGHT MICROSCOPY<br>resolution basics||align="center" |BRITTA||align="center"| | ||
+ | |- | ||
+ | |- | ||
+ | | 10:12||10:25||align="center"|Session 1c<br>Theory||align="center" | PRINCIPLES OF LIGHT MICROSCOPY<br>Historical aspects<br>Very basic components and principles ||align="center" |JAN ||align="center"| | ||
+ | |- | ||
+ | |- | ||
+ | | style="background:mediumseagreen;"|'''10:25''' | ||
+ | | style="background:mediumseagreen;"|'''10:40''' | ||
|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;"| 10: | + | | style="background:LemonChiffon;"| 10:40|| style="background:LemonChiffon;"| 11:23 |
|align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice<br> 3 groups, 12min Rotation (+3min for switching stations)<br>Timer: SILKE|| align="center" style="background:LemonChiffon;"|capillary/plastic (Huisken) in oil demo <br>Coin-in-cup demo<br>red, green laser through water bath -<br> measure angles, calculate refraction; <br>show immersion objectives<br> measure refraction with modern refractometer||align="center" style="background:LemonChiffon;"|JAN <br>BRITTA<br>SEBASTIAN || align="center" style="background:LemonChiffon;" |*capillaries, oil <br>* water and oil tanks with glass rods from Anatol <br>* coin-in-cup, water, beaker for water <br>* red/green laser pointer with holder stand, plastic refraction demo setup with protractor and water, laminated image of ice bear in water/air <br> *water, glycerol, oil immersion objectives<br>*refractometer | |align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice<br> 3 groups, 12min Rotation (+3min for switching stations)<br>Timer: SILKE|| align="center" style="background:LemonChiffon;"|capillary/plastic (Huisken) in oil demo <br>Coin-in-cup demo<br>red, green laser through water bath -<br> measure angles, calculate refraction; <br>show immersion objectives<br> measure refraction with modern refractometer||align="center" style="background:LemonChiffon;"|JAN <br>BRITTA<br>SEBASTIAN || align="center" style="background:LemonChiffon;" |*capillaries, oil <br>* water and oil tanks with glass rods from Anatol <br>* coin-in-cup, water, beaker for water <br>* red/green laser pointer with holder stand, plastic refraction demo setup with protractor and water, laminated image of ice bear in water/air <br> *water, glycerol, oil immersion objectives<br>*refractometer | ||
|- | |- | ||
|- | |- | ||
− | | 11: | + | | 11:23||12:03||align="center"|SESSION 1d <br>Theory|| align="center" | Introduction to lenses and objectives <br>Magnification<br>||align="center" |JAN || align="center" | cut objective <br> |
|- | |- | ||
|- | |- | ||
− | | style="background:mediumseagreen;"|'''12: | + | | 12:03||12:05||align="center"|SESSION 1e <br>Demonstration|| align="center" | Introduction to lenses and objectives<br>Numerical aperture||align="center" |SEBASTIAN || align="center" | laminated sheet with cake image |
− | | style="background:mediumseagreen;"|'''13: | + | |- |
+ | |- | ||
+ | | style="background:mediumseagreen;"|'''12:05''' | ||
+ | | style="background:mediumseagreen;"|'''13:00''' | ||
|align="center" style="background:mediumseagreen;"|'''LUNCH''' | |align="center" style="background:mediumseagreen;"|'''LUNCH''' | ||
|align="center" style="background:mediumseagreen;"|'''LUNCH'''||align="center" style="background:mediumseagreen;"| ||align="center" style="background:mediumseagreen;"| | |align="center" style="background:mediumseagreen;"|'''LUNCH'''||align="center" style="background:mediumseagreen;"| ||align="center" style="background:mediumseagreen;"| | ||
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− | | style="background:LemonChiffon;"| 13: | + | | style="background:LemonChiffon;"| 13:00|| style="background:LemonChiffon;"| 13:45 |
|align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice<br> 15min (!) Rotation <br>Timer: SEBASTIAN|| 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 | |align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice<br> 15min (!) Rotation <br>Timer: SEBASTIAN|| 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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− | |13: | + | |13:45|| 14:25||align="center"|SESSION 2<br>Theory||align="center"| Microscope illumination <br> Conjugate planes<br> Apertures||align="center" |JAN || |
|- | |- | ||
|- | |- | ||
− | | style="background:mediumseagreen;"|'''14: | + | | style="background:mediumseagreen;"|'''14:25''' |
− | | style="background:mediumseagreen;"|'''14: | + | | style="background:mediumseagreen;"|'''14:43''' |
|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;"| | ||
|- | |- | ||
|- | |- | ||
− | |style="background:LemonChiffon;"|14: | + | |style="background:LemonChiffon;"|14:43 |
− | |style="background:LemonChiffon;"|15: | + | |style="background:LemonChiffon;"|15:43 || align="center" style="background:LemonChiffon;"|SESSION 2<br>Practice<br> (30min Rotation <br>inlc. time for switching)<br>Timer: SEBASTIAN|| align="center" style="background:LemonChiffon;"|conjugate planes on Peters microscope <br> conjugate planes on optical bench +<br>effect of changing field and aperture diaphragms on demo scope||align="center" style="background:LemonChiffon;"|BERT<br>JAN ||align="center" style="background:LemonChiffon;"| *Peters microscope setup <br> *optical bench demonstrating a transmitted light microscope, incl. light source<br>conjugate planes scheme hand outs |
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− | |15: | + | |15:43||16:00||align="center"|SESSION 3<br>Theory||align="center" |Koehler illumination <br> (Microscope alignment)||align="center" |JAN || |
|- | |- | ||
|- | |- | ||
+ | | style="background:mediumseagreen;"|'''16:00''' | ||
| style="background:mediumseagreen;"|'''16:15''' | | style="background:mediumseagreen;"|'''16:15''' | ||
− | |||
|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;"| | ||
|- | |- | ||
|- | |- | ||
− | |style="background:LemonChiffon;"|16: | + | |style="background:LemonChiffon;"|16:15 |
− | |style="background:LemonChiffon;"|17: | + | |style="background:LemonChiffon;"|17:15||align="center" style="background:LemonChiffon;"|SESSION 3a<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 |
+ | |- | ||
+ | |- | ||
+ | |style="background:LemonChiffon;"|17:15 | ||
+ | |style="background:LemonChiffon;"|17:30||align="center" style="background:LemonChiffon;"|SESSION 4<br>Theory & Practice|| align="center" style="background:LemonChiffon;"|Eyepieces<br>Depth of field<br> Depth of focus<br>more Koehler||align="center" style="background:LemonChiffon;"|BRITTA<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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|style="background:LemonChiffon;"|17:30 | |style="background:LemonChiffon;"|17:30 | ||
− | |style="background:LemonChiffon;"| | + | |style="background:LemonChiffon;"|17:45||align="center" style="background:LemonChiffon;"|SESSION 3b<br>Practice|| align="center" style="background:LemonChiffon;"| finish 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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− | | | + | |17:45||17:55||align="center"|SESSION 3<br>Theory||align="center" | Epi illumination||align="center" |JAN || |
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|} | |} | ||
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=== DAY TWO - Tue 17th April === | === DAY TWO - Tue 17th April === | ||
organize pitchers with water and cups for short breaks | organize pitchers with water and cups for short breaks | ||
+ | |||
{| border="4" cellpadding="2" cellspacing="8" {| {{table}} | {| border="4" cellpadding="2" cellspacing="8" {| {{table}} | ||
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| style="background:mediumseagreen;"|'''10:55''' | | style="background:mediumseagreen;"|'''10:55''' | ||
− | | style="background:mediumseagreen;"|'''11: | + | | style="background:mediumseagreen;"|'''11:13''' |
|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;" | | ||
|- | |- | ||
− | |style="background:LemonChiffon;"| 11: | + | |style="background:LemonChiffon;"| 11:13 |
− | |style="background:LemonChiffon;"| 11: | + | |style="background:LemonChiffon;"| 11:35 ||align="center" style="background:LemonChiffon;"|SESSION 1a<br>Practice Round<br>Group rotation<br>(10min each)<br>Timer: LAURE|| align="center" style="background:LemonChiffon;"|Interference and Diffraction||align="center" style="background:LemonChiffon;"|SEBASTIAN<br>BRITTA|| align="center" style="background:LemonChiffon;"| Mach-Zehnder interferometer demo setup<br> Ripple tank with various accessories |
|- | |- | ||
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− | | 11: | + | | 11:35||11:55||align="center"| SESSION 1b <br> Demo and Theory || align="center"|ABBE's diffraction demonstration ||align="center" |BERT <br> (SILKE) ||align="center" |Dan's ABBE Diffraction demo setup |
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− | |style="background:LemonChiffon;"| 11: | + | |style="background:LemonChiffon;"| 11:55 |
− | |style="background:LemonChiffon;"| 12: | + | |style="background:LemonChiffon;"| 12:23 ||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;"| rulers as gratings,<br> place holder for objective Nomarski prism, piece of card board, <br>microscopes without condenser, closed field diaphragm, <br>some small scissors would be nice |
|- | |- | ||
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− | | 12: | + | | 12:23||12:30||align="center"|SESSION 1c<br> Theory ||align="center" | Wrap - up & Q & A <br>Diffraction ||align="center" |JAN <br>BioDIP TEAM|| |
|- | |- | ||
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− | | style="background:mediumseagreen;"|'''12: | + | | style="background:mediumseagreen;"|'''12:30''' |
| style="background:mediumseagreen;"|'''13:15''' | | style="background:mediumseagreen;"|'''13:15''' | ||
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
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− | | 13:15||13: | + | | align="center"|13:15 |
+ | |align="center"|13:25||align="center" |SESSION <br>Meet & Greet||align="center" | Meeting Tobias Fürstenhaupt, Leader EM facility||align="center" |Tobias<br>(JAN)|| align="center" | Q & A with Tobias about his facility and cooperation with LMF <br> cut magnetic copper coil (Tobias')| | ||
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− | | 13: | + | | 13:25||14:00||align="center"|SESSION 2<br>Theory and Demo||align="center" | Lens abERRations and corrections<br>finite versus infinite tube length<br>objective labeling/reading ||align="center" |JAN|| align="center" |lenses with various sizes and shapes |
+ | |- | ||
+ | |- | ||
+ | | 14:00||14:10||align="center"|SESSION 3<br>Theory||align="center" | Objective reading<br> lateral vs angular magnification||align="center" |JAN || align="center" |objectives, eyepieces, overhead projector with digital source switch | ||
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− | | 15:35||15:50||align="center"|SESSION 4<br>Theory||align="center" | Introduction to contrast ||align="center" |BERT || | + | | 15:35||15:50||align="center"|SESSION 4<br>Theory||align="center" | Introduction to contrast ||align="center" |BERT<br>(JAN) || |
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− | | style="background:mediumseagreen;"|'''16: | + | |style="background:LemonChiffon;"| 16:06 |
− | | style="background:mediumseagreen;"|'''16: | + | |style="background:LemonChiffon;"| 16:35 ||align="center" style="background:LemonChiffon;"|SESSION 5b<br>Practice|| align="center" style="background:LemonChiffon;"|Dark Field microscopy||align="center" style="background:LemonChiffon;"|BioDIP TEAM || align="center" style="background:LemonChiffon;"| diatom slides |
+ | |- | ||
+ | |- | ||
+ | | style="background:mediumseagreen;"|'''16:35''' | ||
+ | | style="background:mediumseagreen;"|'''16:50''' | ||
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
|align="center" style="background:mediumseagreen;"|'''SHORT BREAK'''|| style="background:mediumseagreen;"|''' ''' ||align="center" style="background:mediumseagreen;" | | |align="center" style="background:mediumseagreen;"|'''SHORT BREAK'''|| style="background:mediumseagreen;"|''' ''' ||align="center" style="background:mediumseagreen;" | | ||
|- | |- | ||
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− | + | | 16:50 || 17:12 ||align="center"|SESSION 6a<br>Theory|| align="center"| Basics of Phase Contrast microscopy||align="center" |SEBASTIAN ||align="center"| including videos from web and own | |
− | | | + | |
|- | |- | ||
|- | |- | ||
− | | | + | |align="center"| 17:12 ||align="center"| 17:15 ||align="center"|SESSION 6b<br>Show & Tell|| align="center"| show parts needed to Phase Contrast in condenser and respective objective||align="center" |JAN ||align="center" |condenser with Phase annuli, phase contrast objective |
|- | |- | ||
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− | |align="center"| 17: | + | |align="center"| 17:15 ||align="center"| 17:20 ||align="center"|SESSION 7<br>Demonstration|| align="center"| Cheek cell prep||align="center" |JAN ||align="center" |Q-tips, slides, cover slips, PBS, plastic pipette, nail polish |
|- | |- | ||
|- | |- | ||
− | |style="background:LemonChiffon;"| 17: | + | |style="background:LemonChiffon;"| 17:20 |
− | |style="background:LemonChiffon;"|18:00||align="center" style="background:LemonChiffon;"|SESSION | + | |style="background:LemonChiffon;"|18:00||align="center" style="background:LemonChiffon;"|SESSION 6c<br>Practice|| align="center" style="background:LemonChiffon;"|Phase Contrast microscopy ||align="center" style="background:LemonChiffon;"|BioDIP TEAM || align="center" style="background:LemonChiffon;"| diatomes and similar samples <br> cell culture microscope with cells in a dish as live example for phase contrast |
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|align="center" style="background:mediumseagreen;"|'''10:00''' | |align="center" style="background:mediumseagreen;"|'''10:00''' | ||
− | |align="center" style="background:mediumseagreen;"|'''10: | + | |align="center" style="background:mediumseagreen;"|'''10:07''' |
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
|align="center" style="background:mediumseagreen;"|'''SHORT BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK''' || align="center" style="background:mediumseagreen;" | | |align="center" style="background:mediumseagreen;"|'''SHORT BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK''' || align="center" style="background:mediumseagreen;" | | ||
|- | |- | ||
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− | | align="center"|10: | + | | align="center"|10:07||align="center"|10:22||align="center"|SESSION 1<br>Demonstration||align="center" | Polarized light microscopy||align="center" |JAN ||align="center"|for students and Sebastian: calcite crystal blocks, polarizers, paper with black spot;<br>overhead projector<br>stone samples, gummy bears, plastic dishes, plastic rulers... |
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− | | align="center"|10: | + | | align="center"|10:22||align="center"|11:05||align="center"|SESSION 1<br>Theory and Demo||align="center" | Polarized light microscopy||align="center" |SEBASTIAN<br>JAN ||align="center"|cell image library video<br>info about LC-PolScope from openpolscope.org/<br>introduce responsible person for Brugues' PolScope<br>pol scope with rotatable stage |
− | + | ||
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− | |align="center" style="background:LemonChiffon;"| 11: | + | |align="center" style="background:LemonChiffon;"| 11:05 |
− | |align="center" style="background:LemonChiffon;"|11: | + | |align="center" style="background:LemonChiffon;"|11:35||align="center" style="background:LemonChiffon;"|SESSION 1<br>Practice||align="center" style="background:LemonChiffon;"| Polarized light microscopy||align="center" style="background:LemonChiffon;"|BioDIP TEAM|| align="center" style="background:LemonChiffon;"| hair, stone samples, benzocain crystals, tissue pieces ... |
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− | |align="center" style="background:mediumseagreen;"|'''11: | + | |align="center" style="background:mediumseagreen;"|'''11:35''' |
− | |align="center" style="background:mediumseagreen;"|'''11: | + | |align="center" style="background:mediumseagreen;"|'''11:45''' |
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
|align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK''' || align="center" style="background:mediumseagreen;" | | |align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK''' || align="center" style="background:mediumseagreen;" | | ||
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− | |align="center"| 11: | + | |align="center"| 11:45||align="center"|12:35||align="center"|SESSION 2<br>Theory and Demo|| align="center"|Differential Interference Contrast (DIC)||align="center" |BRITTA ||align="center"|DIC Nomarski |
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− | |align="center" style="background:LemonChiffon;"| 12: | + | |align="center" style="background:LemonChiffon;"| 12:35 |
− | |align="center" style="background:LemonChiffon;"| | + | |align="center" style="background:LemonChiffon;"|13:10||align="center" style="background:LemonChiffon;"|SESSION 2<br>Practice|| align="center" style="background:LemonChiffon;"|Differential Interference Contrast (DIC)||align="center" style="background:LemonChiffon;"|BioDIP TEAM<br>JAN|| align="center" style="background:LemonChiffon;"| DIC-objectives with respective Nomarski prisms; <br>cheek cell samples, diatoms |
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− | |align="center"| | + | |align="center"|13:10 |
− | |align="center"|13: | + | |align="center"|13:15||align="center" |SESSION <br>Meet & Greet||align="center" | Meeting Mark Bickle, Leader Technology development studio<br>screening facility||align="center" |MARK<br>(JAN)|| align="center" | Q & A with Mark about his facility |
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− | |align="center" style="background:mediumseagreen;"|'''13: | + | |align="center" style="background:mediumseagreen;"|'''13:15''' |
− | |align="center" style="background:mediumseagreen;"|'''14: | + | |align="center" 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;"|''' ''' || style="background:mediumseagreen;"|''' ''' | |align="center" style="background:mediumseagreen;"|'''LUNCH'''|| style="background:mediumseagreen;"|''' ''' || style="background:mediumseagreen;"|''' ''' | ||
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− | |align="center"|14: | + | |align="center"|14:00||align="center"|14:15||align="center"|Wrap-up<br>compare methods|| align="center"|Transmitted light contrasting techniques||align="center" |JAN<br>BioDIP TEAM ||align="center" | first comparison than <br> Quiz with various videos of the different techniques; remind students on Friday's project discussion round |
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− | |align="center"| 14: | + | |align="center"| 14:15 ||align="center"| 14:20 ||align="center"|QUESTION ROUND|| align="center"| Q & A about transmitted light contrasting techniques||align="center" |JAN <br>BioDIP TEAM || |
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− | |align="center"|14: | + | |align="center"|14:20||align="center"|15:00||align="center"|SESSION 3<br>Theory||align="center" | Fundamental concepts of fluorescence ||align="center" |BRITTA||align="center" |fluorescent liquids in bottles plus lasers inside nice black box designed by Sebastian<br>works nicely also in normally lit room |
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− | |align="center"| 15: | + | |align="center"| 15:00||align="center"|15:30||align="center"|SESSION 4a<br>Theory + Demo||align="center" | Introduction to fluorescence microscopes<br>and light sources ||align="center" |BRITTA||align="center" |• Light sources<br>• Lamp houses |
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+ | |align="center"| 15:30||align="center"|15:35||align="center"|SESSION <br>Theory||align="center" | Introduction to laser safety ||align="center" |JAN<br>(SEBASTIAN)||align="center" | | ||
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|align="center" style="background:mediumseagreen;"|'''15:35''' | |align="center" style="background:mediumseagreen;"|'''15:35''' | ||
− | |align="center" style="background:mediumseagreen;"|'''15: | + | |align="center" style="background:mediumseagreen;"|'''15:55''' |
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
|align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK'''|| align="center" style="background:mediumseagreen;"| | |align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK'''|| align="center" style="background:mediumseagreen;"| | ||
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− | |align="center"|15: | + | |align="center"|15:55||align="center"|16:10||align="center"|SESSION 4b<br>Theory||align="center" | Introduction to fluorescence microscopy<br>Filters, spectra etc. ||align="center" |SILKE||align="center" | Spectra <br>Filters <br>Filter cubes <br> |
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− | |align="center" style="background:LemonChiffon;"|16: | + | |align="center" style="background:LemonChiffon;"|16:10 |
− | |align="center" style="background:LemonChiffon;"|16: | + | |align="center" style="background:LemonChiffon;"|16:45||align="center" style="background:LemonChiffon;"|SESSION 4c<br>Practice||align="center" style="background:LemonChiffon;"|Filters||align="center" style="background:LemonChiffon;"|BioDIP TEAM||align="center" style="background:LemonChiffon;"|laminated sheets with grids for spectra drawing <br>red, green, blue, black board markers<br>EtOH spray bottles, tissue |
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− | |align="center"|16: | + | |align="center"|16:45||align="center"|16:50||align="center"|SESSION 4d<br>Theory and Demo||align="center" | Introduction to fluorescence microscopy<br>Filters, spectra<br>objective transmission curves ||align="center" |SILKE||align="center" | |
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− | |align="center"|16:50||align="center"| | + | |align="center"|16:50||align="center"|17:05||align="center"|SESSION 4e<br>Theory and Demo||align="center" | Introduction to spectra viewer ||align="center" |SEBASTIAN||align="center" | spectra viewer |
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− | |align="center" style="background:mediumseagreen;"|''' | + | |align="center" style="background:mediumseagreen;"|'''17:05''' |
− | |align="center" style="background:mediumseagreen;"|'''17: | + | |align="center" style="background:mediumseagreen;"|'''17:10''' |
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
|align="center" style="background:mediumseagreen;"|'''SHORT BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK''' || align="center" style="background:mediumseagreen;" | | |align="center" style="background:mediumseagreen;"|'''SHORT BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK''' || align="center" style="background:mediumseagreen;" | | ||
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− | |align="center" style="background:LemonChiffon;"| 17: | + | |align="center" style="background:LemonChiffon;"| 17:10 |
− | |align="center" style="background:LemonChiffon;"| 18: | + | |align="center" style="background:LemonChiffon;"| 18:15||align="center" style="background:LemonChiffon;"|SESSION 4f<br>Practice|| align="center" style="background:LemonChiffon;"|Spectraviewer<br>Aligment of Mercury arc lamps<br>Fluorescence imaging at microscopes|| align="center" style="background:LemonChiffon;"|SEBASTIAN<br>BioDIP TEAM|| align="center" style="background:LemonChiffon;"|lamp house, screw driver<br>laminated sheets with DAPI/FITC/TRITC Spectra <br> red, green, blue, board markers<br> EtOH spray bottles + tissue<br> Fluorescent labeled samples (Convalaria) |
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=== DAY FOUR - Thu 19th April === | === DAY FOUR - Thu 19th April === | ||
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|align="center" style="background:mediumseagreen;"|'''10:00''' | |align="center" style="background:mediumseagreen;"|'''10:00''' | ||
− | |align="center" style="background:mediumseagreen;"|'''10: | + | |align="center" style="background:mediumseagreen;"|'''10:15''' |
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
|align="center" style="background:mediumseagreen;"|'''SHORT BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''SHORT BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|'''BREAK'''||align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
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− | |align="center"|10: | + | |align="center"|10:15||align="center"|10:15||align="center"|SESSION 1<br> Theory ||align="center" | Fluorophores ||align="center" |SEBASTIAN ||align="center" |-||align="center" |did not do it this time - placeholder for next time |
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− | |align="center"|10: | + | |align="center"|10:15||align="center"|11:10||align="center"|SESSION 2a<br>Theory|| align="center"|Detectors ||align="center" |BRITTA||align="center" |-||align="center" | CCD chip paper weight <br>Demo: CCD chip under stereo microscope <br>example cameras showing different chip sizes |
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− | |align="center"| | + | |align="center"|11:10||align="center"|11:20||align="center"|SESSION 2b<br>Demo|| align="center"|Detectors ||align="center" |BRITTA||align="center" |bench show||align="center" | RT spot with RGB slider and camera objective<br> PC<br> nice sample for binning (coffee cup)<br>show grid at AC outlet in room |
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− | |align="center"|11: | + | |align="center"|11:20||align="center"|11:41||align="center"|SESSION 2c<br>Theory|| align="center"|Detectors ||align="center" |BRITTA||align="center" |advanced detectors lecture||align="center" | |
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− | |align="center" style="background:LemonChiffon;"|11: | + | |align="center" style="background:LemonChiffon;"|11:31 |
− | |align="center" style="background:LemonChiffon;"|11: | + | |align="center" style="background:LemonChiffon;"|11:33||align="center" style="background:LemonChiffon;"|SESSION 2d<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 |
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− | |align="center" style="background:mediumseagreen;"|'''11: | + | |align="center" style="background:mediumseagreen;"|'''11:33''' |
− | |align="center" style="background:mediumseagreen;"|'''11: | + | |align="center" style="background:mediumseagreen;"|'''11:45''' |
|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;"|'''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''' | ||
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− | |align="center" |11: | + | |align="center" |11:48 ||align="center"|12:07||align="center"|SESSION 3a<br>Theory|| align="center"|Digital images ||align="center" |BERT||align="center" |Nyquist-Shannon<br>what is a pixel<br>spatial calibration||align="center" | comment about difference noise and background (unspecific) signal |
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− | |align="center" |12:07 ||align="center"|12: | + | |align="center" |12:07 ||align="center"|12:22||align="center"|SESSION 3a<br>Demo|| align="center"|Digital images ||align="center" |JAN||align="center" |Nyquist-Shannon<br>spatial calibration||align="center" | overhead projector<br>sheets with different sized squares as example for dexel size<br>gummi bears, Sesame seeds |
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− | |align="center" style="background:LemonChiffon;"|12: | + | |align="center" style="background:LemonChiffon;"|12:12 |
|align="center" style="background:LemonChiffon;"|12:35|| align="center" style="background:LemonChiffon;"|SESSION 3a<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 (within Bert's presentation) | |align="center" style="background:LemonChiffon;"|12:35|| align="center" style="background:LemonChiffon;"|SESSION 3a<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 (within Bert's presentation) | ||
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|align="center" style="background:LemonChiffon;"|12:35 | |align="center" style="background:LemonChiffon;"|12:35 | ||
− | |align="center" style="background:LemonChiffon;"|12: | + | |align="center" style="background:LemonChiffon;"|12:42|| align="center" style="background:LemonChiffon;"|SESSION 3a<br>Practice|| align="center" style="background:LemonChiffon;"|calculating dexel/pixel size|| align="center" style="background:LemonChiffon;"|BERT|| align="center" style="background:LemonChiffon;"|practice calculating needed dexel size for given optical setup || align="center" style="background:LemonChiffon;"|evaluation of the results from practical plus more calculation examples |
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− | | align="center"|12: | + | | align="center"|12:42||align="center"|12:55||align="center"|SESSION 3b<br>Theory|| align="center"|Quantitative Imaging ||align="center" |BERT||align="center" |digitization in space, (time) & intensity<br>aliasing ||align="center" |- |
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− | |align="center" style="background:mediumseagreen;"|''' | + | |align="center" style="background:mediumseagreen;"|'''12:55''' |
− | |align="center" style="background:mediumseagreen;"|'''13: | + | |align="center" 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''' | ||
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|align="center" style="background:LemonChiffon;"|13:50 | |align="center" style="background:LemonChiffon;"|13:50 | ||
− | |align="center" style="background:LemonChiffon;"|15: | + | |align="center" style="background:LemonChiffon;"|15:15|| align="center" style="background:LemonChiffon;"|SESSION 4<br>Practice|| align="center" style="background:LemonChiffon;"|discussion and practice imaging with CCD/CMOS cameras 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<br> LUT, saturation, histogram etc|| align="center" style="background:LemonChiffon;"|camera spec sheets (in microscope handbook at each teaching scope)<br>Hamamatsu camera comparison list (extra sheet) <br>camera vocabulary checklist (in microscope handbook at each teaching scope) <br> microscope ruler<br>Fluorescence Sample slides (Kidney / Cells...) |
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− | |align="center" style="background:mediumseagreen;"|'''15: | + | |align="center" style="background:mediumseagreen;"|'''15:15''' |
− | |align="center" style="background:mediumseagreen;"|'''15: | + | |align="center" style="background:mediumseagreen;"|'''15:30''' |
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
|align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| style="background:mediumseagreen;"|''' '''|| style="background:mediumseagreen;"|''' '''|| style="background:mediumseagreen;"|''' ''' | |align="center" style="background:mediumseagreen;"|'''COFFEE BREAK'''|| style="background:mediumseagreen;"|''' '''|| style="background:mediumseagreen;"|''' '''|| style="background:mediumseagreen;"|''' ''' | ||
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− | | align="center"|15: | + | | align="center"|15:30 |
− | |align="center"|15: | + | |align="center"|15:40||align="center" |SESSION <br>Meet & Greet||align="center" | Meeting Isabel Raabe, BioDIP Coordinator||align="center" |ISA<br>(JAN)|| align="center" | Q & A with Isa about BioDIP and cooperation between the participating facilities|| align="center"| BioDIP website |
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− | |align="center" |15: | + | |align="center" |15:40||align="center"|15:49||align="center"|SESSION 5a<br>Theory ||align="center" | OPTICAL SECTIONING<br>introduction<br>widefield & deconvolution||align="center" |JAN||align="center"|-||align="center" |labtop |
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|align="center" style="background:mediumseagreen;"|'''16:18''' | |align="center" style="background:mediumseagreen;"|'''16:18''' | ||
− | |align="center" style="background:mediumseagreen;"|'''16: | + | |align="center" style="background:mediumseagreen;"|'''16:43''' |
|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;"|''' ''' | ||
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− | |align="center" |16: | + | |align="center" |16:43||align="center"|17:15||align="center"|SESSION 5c<br>Theory& Demo ||align="center" | OPTICAL SECTIONING<br>2-Photon Microscopy ||align="center" |SEBASTIAN<br>JAN||||align="center"|dual laser pointer (blue, green, red)<br> piece of cheese <br>to demonstrate penetration of diff. wavelength |
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− | |align="center"|17: | + | |align="center"|17:15||align="center"|17:40||align="center"|SESSION 5d<br>Theory ||align="center" | OPTICAL SECTIONING<br>Spinning Disc Confocal||align="center" |BRITTA<br>JAN||||align="center"|beer bottle from Plzen |
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|align="center" style="background:mediumseagreen;"|'''10:05''' | |align="center" style="background:mediumseagreen;"|'''10:05''' | ||
− | |align="center" style="background:mediumseagreen;"|'''10: | + | |align="center" style="background:mediumseagreen;"|'''10:20''' |
|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;" | | |align="center" style="background:mediumseagreen;"|'''BREAK'''|| align="center" style="background:mediumseagreen;"|'''BREAK''' || align="center" style="background:mediumseagreen;" | | ||
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− | |align="center" |10: | + | |align="center" |10:20||align="center"|10:36||align="center"|SESSION 1a<br>Theory & Demo||align="center" | OPTICAL SECTIONING<br>TIRF ||align="center" |BRITTA ||align="center" |small glass cube with olive oil over milky water (use more oil than water!) plus Dan's blue laser pointer |
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− | |align="center"|10: | + | |align="center"|10:36||align="center"|10:55||align="center"|SESSION 1b<br>Theory & Demo||align="center" | OPTICAL SECTIONING<br>SPIM ||align="center" |SEBASTIAN ||align="center" |glass block with brain/scull and red light sheet laser from ZEISS |
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− | |align="center"| | + | |align="center"|10:55||align="center"|11:07||align="center"|SESSION 1c<br>Demo||align="center" | OPTICAL SECTIONING<br>SPIM ||align="center" |SEBASTIAN ||align="center" |PETE's SPIM-in-a-suitcase |
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− | |align="center | + | |align="center"|11:07||align="center"|11:15||align="center"|SESSION 1d<br>Theory||align="center" | OPTICAL SECTIONING<br>Apotome ||align="center" |JAN ||align="center" | |
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− | |align="center | + | |
− | |align="center | + | |
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− | |align="center"|11: | + | |align="center"|11:15||align="center"|11:30||align="center"|SESSION 1e<br>Theory||align="center" | OPTICAL SECTIONING<br>final remarks ||align="center" |JAN ||align="center" | |
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− | |align="center"|11: | + | |align="center" style="background:mediumseagreen;"|'''11:30''' |
+ | |align="center" style="background:mediumseagreen;"|'''11:45''' | ||
+ | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
+ | |align="center" style="background:mediumseagreen;"|'''BREAK'''|| style="background:mediumseagreen;"|''' '''|| style="background:mediumseagreen;"|''' ''' | ||
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− | |align="center"|11: | + | |align="center"|11:45||align="center"|12:30||align="center"|SESSION 2<br>Theory||align="center" | EXTENDED RESOLUTION<br>SIM<br>STORM<br>STED<br>Airyscan<br>Sample Preparation ||align="center" |BERT ||align="center" | |
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− | |align="center"|12: | + | |align="center"|12:30||align="center"|12:32||align="center"|DISCUSSION||align="center"| preparation for Monday hands-on sessions||align="center" |SEBASTIAN<br>BioDIP team ||align="center" |white board |
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− | |align="center" style="background:mediumseagreen;"|'''12: | + | |align="center" style="background:mediumseagreen;"|'''12:32''' |
|align="center" style="background:mediumseagreen;"|'''13:18''' | |align="center" style="background:mediumseagreen;"|'''13:18''' | ||
|align="center" style="background:mediumseagreen;"|'''LUNCH''' | |align="center" style="background:mediumseagreen;"|'''LUNCH''' | ||
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− | |align="center"|13:18||align="center"|13:23||align="center" |SESSION <br>Meet & Greet||align="center" | Meeting | + | |align="center"|13:18||align="center"|13:23||align="center" |SESSION <br>Meet & Greet||align="center" | Meeting Riccardo Maraspini - Honigmann-lab (STED)||align="center" |RICCARDO<br>(JAN)|| align="center" | Q & A with Riccardo about Honigmann lab, STED, and cooperation possibilities |
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− | |align="center"|13:23||align="center"|13:33||align="center" |SESSION <br>Meet & Greet||align="center" | Meeting | + | |align="center"|13:23||align="center"|13:33||align="center" |SESSION <br>Meet & Greet||align="center" | Meeting Noreen Walker, Leader Scientific Computing facility||align="center" |BENOIT<br>(JAN)|| align="center" | introduction to bioinformatics service and image processing facility |
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− | |align="center"|13:33||align="center"|13: | + | |align="center"|13:33||align="center"|13:40||align="center"|SESSION 3|| align="center"|Planning your Imaging Experiment ||align="center" |JAN||align="center" | + introduction to new user project questions |
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− | |align="center"|13: | + | |align="center"|13:40||align="center"|13:55||align="center"|SESSION 4a<br> Project discussion|| align="center"|One volunteer presents his/her imaging problem shortly and discuss it with the whole group ||align="center" |BioDIP TEAM <br>+ BENOIT||align="center" |NOTE: ask for volunteers already on Monday, than again on Wednesday |
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− | |align="center" style="background:mediumseagreen;"|'''14: | + | |align="center"|13:55||align="center"|14:13||align="center"|SESSION 4b<br> Project discussion|| align="center"|Second volunteer presents his/her imaging problem shortly and discuss it with the whole group ||align="center" |BioDIP TEAM <br>+ BENOIT||align="center" |NOTE: ask for volunteers already on Monday, than again on Wednesday |
+ | |- | ||
+ | |- | ||
+ | |align="center" style="background:mediumseagreen;"|'''14:13''' | ||
|align="center" style="background:mediumseagreen;"|'''14:25''' | |align="center" style="background:mediumseagreen;"|'''14:25''' | ||
|align="center" style="background:mediumseagreen;"|'''BREAK''' | |align="center" style="background:mediumseagreen;"|'''BREAK''' | ||
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− | |align="center"|14:25||align="center"|14:55||align="center"|SESSION | + | |align="center"|14:25||align="center"|14:55||align="center"|SESSION 4c<br> Project discussion|| align="center"|Third volunteer presents his/her imaging problem shortly and discuss it with the whole group ||align="center" |BioDIP TEAM <br>+ BENOIT||align="center" |NOTE: ask for volunteers already on Monday, than again on Wednesday |
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− | |align="center"|14: | + | |align="center"|14:45||align="center"|14:55||align="center" |SESSION <br>Meet & Greet||align="center" | Meeting Nicola Maghelli, Leader Advanced Imaging Facility||align="center" |NICOLA<br>(JAN)|| align="center" | introduction to Advanced Imaging Facility |
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− | |align="center"| | + | |align="center"|14:55||align="center"|16:00||align="center"|SESSION 5|| align="center"|Course evaluation ||align="center" |BioDIP TEAM||align="center" |Gummy bear bags and/or fruits<br>white board + marker |
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=== DAY SIX - optional - Mon 23rd April afternoon=== | === DAY SIX - optional - Mon 23rd April afternoon=== |
Latest revision as of 13:31, 1 November 2018
Contents |
[edit] PhD Program: Basics of Light Microscopy - LMF - Course April 2018
[edit] Tentative Schedule
[edit] SETUP - Wed April 11th and Thu April 12th (Fri April 13th TA course)
Prepare day boxes and teaching stations (microscopes with cameras etc) on tables in LMF hallway on Wed
Setup of all needed course material in Galeria on Thu starting 11AM
Equipment needed
- course handout for students
- booklets Microscopy from the beginning by Zeiss
- 10 tables (ordererd via building maintenance, had to coordinate with Katrin Boes beforehand; we only get 9, but this was enough)
- Microscopes (6 teaching stations, 1 demo station, Peter's diffraction demo scope)
- cell culture microscope
- stereo microscope with coin
- Optical bench
- Spinning disk gadget
- Overhead projector with digital source switch
- Polarizing sheets
- Diffraction Grids
- Sample map for each teaching station with: diatomes, liver tissue, Convolaria, Benzocain crystals
- microscope handout booklet for each teaching station
- Light torches
- Cameras and lab-tops for teaching stations
- Cleaning stations for each system containing: cover slips, slides, Qtips, water, 70% EtOH, lens cleaning tissue, PBS, immersion oil, nail polish (need to check carefully whether everything needed is there!)
- Waste and glass waste for each teaching station
- 70% EtOH srpay bottle and tissue for each teaching station
- Box with screw drivers (1x 3mm, 2x 1.5mm), telescope, eye pieces, microscope ruler, mirror slide, DIC objective and Wollaston prism for each microscope
- 2 small polarization filter sheets for each microscope
- Box with red, green, blue, black board marker, pen, pencil, sharpener, ruler, calculator for each microscope, (need to check carefully whether everything needed is there!)
[edit] DAY ONE - Mon 16th April
organize pitchers with water and cups for the short breaks
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | Materials needed |
8:30 | 09:00 | FINAL PREP | Test everything works | BioDIP TEAM | put mirror slide with hole on each teaching station |
9:00 | 9:10 | INTRODUCTION | GENERAL OVERVIEW | JAN | |
9:10 | 9:30 | INTRODUCTION | COURSE INTRO WHO is WHO? Round table |
BioDIP TEAM | White board and pen; ask students for volunteering for Friday's project discussion round (we need two - three volunteers) |
9:30 | 09:50 | Session 1a Theory |
PRINCIPLES OF LIGHT MICROSCOPY Historical aspects Very basic components and principles (incl. refraction basics) |
JAN | |
09:50 | 10:02 | SESSION 1 Practice |
students watch Airy pattern from hole in mirror | BioDIP team | mirror slides with hole on each teaching station |
10:02 | 10:12 | Session 1b Theory |
PRINCIPLES OF LIGHT MICROSCOPY resolution basics |
BRITTA | |
10:12 | 10:25 | Session 1c Theory |
PRINCIPLES OF LIGHT MICROSCOPY Historical aspects Very basic components and principles |
JAN | |
10:25 | 10:40 | BREAK | BREAK | ||
10:40 | 11:23 | SESSION 1 Practice 3 groups, 12min Rotation (+3min for switching stations) Timer: SILKE |
capillary/plastic (Huisken) in oil demo Coin-in-cup demo red, green laser through water bath - measure angles, calculate refraction; show immersion objectives measure refraction with modern refractometer |
JAN BRITTA SEBASTIAN |
*capillaries, oil * water and oil tanks with glass rods from Anatol * coin-in-cup, water, beaker for water * red/green laser pointer with holder stand, plastic refraction demo setup with protractor and water, laminated image of ice bear in water/air *water, glycerol, oil immersion objectives *refractometer |
11:23 | 12:03 | SESSION 1d Theory |
Introduction to lenses and objectives Magnification |
JAN | cut objective |
12:03 | 12:05 | SESSION 1e Demonstration |
Introduction to lenses and objectives Numerical aperture |
SEBASTIAN | laminated sheet with cake image |
12:05 | 13:00 | LUNCH | LUNCH | ||
13:00 | 13:45 | SESSION 1 Practice 15min (!) Rotation Timer: SEBASTIAN |
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 |
13:45 | 14:25 | SESSION 2 Theory |
Microscope illumination Conjugate planes Apertures |
JAN | |
14:25 | 14:43 | BREAK | BREAK | ||
14:43 | 15:43 | SESSION 2 Practice (30min Rotation inlc. time for switching) Timer: SEBASTIAN |
conjugate planes on Peters microscope conjugate planes on optical bench + effect of changing field and aperture diaphragms on demo scope |
BERT JAN |
*Peters microscope setup *optical bench demonstrating a transmitted light microscope, incl. light source conjugate planes scheme hand outs |
15:43 | 16:00 | SESSION 3 Theory |
Koehler illumination (Microscope alignment) |
JAN | |
16:00 | 16:15 | BREAK | BREAK | ||
16:15 | 17:15 | SESSION 3a Practice |
Koehler illumination (Microscope alignment) |
BioDIP TEAM | students manual microscopes, screwdrivers, nice brightfield sample |
17:15 | 17:30 | SESSION 4 Theory & Practice |
Eyepieces Depth of field Depth of focus more Koehler |
BRITTA BioDIP TEAM |
students microscopes with 10x/0.25 and 40x/0.65 objectives Stereoscope with a "sample" |
17:30 | 17:45 | SESSION 3b Practice |
finish Koehler illumination (Microscope alignment) |
BioDIP TEAM | students manual microscopes, screwdrivers, nice brightfield sample |
17:45 | 17:55 | SESSION 3 Theory |
Epi illumination | JAN |
[edit] DAY TWO - Tue 17th April
organize pitchers with water and cups for short breaks
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | Materials needed |
9:00 | 10:00 | Recap | day 1 | BioDIP TEAM | Questions teaching microscopes; conjugate planes schemes |
10:00 | 10:05 | BREAK | SHORT BREAK | ||
10:05 | 10:10 | Theory | Introduction to Peter Evennett's videos |
Jan | You tube videos |
10:10 | 10:55 | SESSION 1a DEMONSTRATION + THEORY |
Diffraction and Diffraction slide fun Diffraction string show Diffraction and Resolution |
JAN BRITTA |
diffraction slides, torch, "dashed" string, fabric, funny glasses |
10:55 | 11:13 | BREAK | COFFEE BREAK | ||
11:13 | 11:35 | SESSION 1a Practice Round Group rotation (10min each) Timer: LAURE |
Interference and Diffraction | SEBASTIAN BRITTA |
Mach-Zehnder interferometer demo setup Ripple tank with various accessories |
11:35 | 11:55 | SESSION 1b Demo and Theory |
ABBE's diffraction demonstration | BERT (SILKE) |
Dan's ABBE Diffraction demo setup |
11:55 | 12:23 | SESSION 1b Practice |
Diffraction hands on on student microscopes | BioDIP TEAM | rulers as gratings, place holder for objective Nomarski prism, piece of card board, microscopes without condenser, closed field diaphragm, some small scissors would be nice |
12:23 | 12:30 | SESSION 1c Theory |
Wrap - up & Q & A Diffraction |
JAN BioDIP TEAM |
|
12:30 | 13:15 | BREAK | LUNCH | ||
13:15 | 13:25 | SESSION Meet & Greet |
Meeting Tobias Fürstenhaupt, Leader EM facility | Tobias (JAN) |
Q & A with Tobias about his facility and cooperation with LMF cut magnetic copper coil (Tobias')| |
13:25 | 14:00 | SESSION 2 Theory and Demo |
Lens abERRations and corrections finite versus infinite tube length objective labeling/reading |
JAN | lenses with various sizes and shapes |
14:00 | 14:10 | SESSION 3 Theory |
Objective reading lateral vs angular magnification |
JAN | objectives, eyepieces, overhead projector with digital source switch |
14:10 | 14:15 | SESSION 2 Demo |
demo of spherical aberration | SEBASTIAN | magnetic lens + laser suitcase on white board |
14:15 | 14:50 | SESSION 3 Practice Round 1 Group rotation (30min each) |
Cover glasses, sample mounting, Objective cleaning and infinity optics bench demo Objective reading |
JAN BRITTA |
Coverglasses (High preciscion), different oils, slides, different cleaning reagents, cover glass thickness measure meter toilet paper and sand paper bench demo of infinity optics box with broken objectives + two 160 tube lens objectives cell culture microscope with finite tube length |
14:50 | 15:00 | BREAK | COFFEE BREAK | ||
15:00 | 15:35 | SESSION 3 Practice Round 2 Group rotation (30min each) |
Cover glasses, sample mounting, Objective cleaning and infinity optics bench demo Objective reading |
JAN BRITTA |
Coverglasses (High preciscion), different oils, slides, different cleaning reagents, cover glass thickness measure meter bench demo of infinity optics box with broken objectives + two 160 tube lens objectives cell culture microscope with finite tube length |
15:35 | 15:50 | SESSION 4 Theory |
Introduction to contrast | BERT (JAN) |
|
15:50 | 16:06 | SESSION 5a Theory |
Basics of Dark Field microscopy | JAN | Zeiss reflection dark field condenser from W3 + new 100x iris objective video with dark field example; from web and own |
16:06 | 16:35 | SESSION 5b Practice |
Dark Field microscopy | BioDIP TEAM | diatom slides |
16:35 | 16:50 | BREAK | SHORT BREAK | ||
16:50 | 17:12 | SESSION 6a Theory |
Basics of Phase Contrast microscopy | SEBASTIAN | including videos from web and own |
17:12 | 17:15 | SESSION 6b Show & Tell |
show parts needed to Phase Contrast in condenser and respective objective | JAN | condenser with Phase annuli, phase contrast objective |
17:15 | 17:20 | SESSION 7 Demonstration |
Cheek cell prep | JAN | Q-tips, slides, cover slips, PBS, plastic pipette, nail polish |
17:20 | 18:00 | SESSION 6c Practice |
Phase Contrast microscopy | BioDIP TEAM | diatomes and similar samples cell culture microscope with cells in a dish as live example for phase contrast |
[edit] DAY THREE - Wed 18th April
organize pitchers with water and cups for short breaks
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | Materials needed |
9:00 | 10:00 | Recap | day 2 | BioDIP TEAM | Questions, pair of sieves, torches, microscopes |
10:00 | 10:07 | BREAK | SHORT BREAK | BREAK | |
10:07 | 10:22 | SESSION 1 Demonstration |
Polarized light microscopy | JAN | for students and Sebastian: calcite crystal blocks, polarizers, paper with black spot; overhead projector stone samples, gummy bears, plastic dishes, plastic rulers... |
10:22 | 11:05 | SESSION 1 Theory and Demo |
Polarized light microscopy | SEBASTIAN JAN |
cell image library video info about LC-PolScope from openpolscope.org/ introduce responsible person for Brugues' PolScope pol scope with rotatable stage |
11:05 | 11:35 | SESSION 1 Practice |
Polarized light microscopy | BioDIP TEAM | hair, stone samples, benzocain crystals, tissue pieces ... |
11:35 | 11:45 | BREAK | COFFEE BREAK | BREAK | |
11:45 | 12:35 | SESSION 2 Theory and Demo |
Differential Interference Contrast (DIC) | BRITTA | DIC Nomarski |
12:35 | 13:10 | SESSION 2 Practice |
Differential Interference Contrast (DIC) | BioDIP TEAM JAN |
DIC-objectives with respective Nomarski prisms; cheek cell samples, diatoms |
13:10 | 13:15 | SESSION Meet & Greet |
Meeting Mark Bickle, Leader Technology development studio screening facility |
MARK (JAN) |
Q & A with Mark about his facility |
13:15 | 14:00 | BREAK | LUNCH | ||
14:00 | 14:15 | Wrap-up compare methods |
Transmitted light contrasting techniques | JAN BioDIP TEAM |
first comparison than Quiz with various videos of the different techniques; remind students on Friday's project discussion round |
14:15 | 14:20 | QUESTION ROUND | Q & A about transmitted light contrasting techniques | JAN BioDIP TEAM |
|
14:20 | 15:00 | SESSION 3 Theory |
Fundamental concepts of fluorescence | BRITTA | fluorescent liquids in bottles plus lasers inside nice black box designed by Sebastian works nicely also in normally lit room |
15:00 | 15:30 | SESSION 4a Theory + Demo |
Introduction to fluorescence microscopes and light sources |
BRITTA | • Light sources • Lamp houses |
15:30 | 15:35 | SESSION Theory |
Introduction to laser safety | JAN (SEBASTIAN) |
|
15:35 | 15:55 | BREAK | COFFEE BREAK | BREAK | |
15:55 | 16:10 | SESSION 4b Theory |
Introduction to fluorescence microscopy Filters, spectra etc. |
SILKE | Spectra Filters Filter cubes |
16:10 | 16:45 | SESSION 4c Practice |
Filters | BioDIP TEAM | laminated sheets with grids for spectra drawing red, green, blue, black board markers EtOH spray bottles, tissue |
16:45 | 16:50 | SESSION 4d Theory and Demo |
Introduction to fluorescence microscopy Filters, spectra objective transmission curves |
SILKE | |
16:50 | 17:05 | SESSION 4e Theory and Demo |
Introduction to spectra viewer | SEBASTIAN | spectra viewer |
17:05 | 17:10 | BREAK | SHORT BREAK | BREAK | |
17:10 | 18:15 | SESSION 4f Practice |
Spectraviewer Aligment of Mercury arc lamps Fluorescence imaging at microscopes |
SEBASTIAN BioDIP TEAM |
lamp house, screw driver laminated sheets with DAPI/FITC/TRITC Spectra red, green, blue, board markers EtOH spray bottles + tissue Fluorescent labeled samples (Convalaria) |
19:00 | open end | Dinner | with all teachers | BioDIP TEAM | good mood, time |
[edit] DAY FOUR - Thu 19th April
organize pitchers with water and cups for short breaks
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | DEMO Activities | Materials needed |
9:00 | 10:00 | Recap | day 3 | BioDIP TEAM | - | Questions (need to be adjusted to new course scheme!) |
10:00 | 10:15 | BREAK | SHORT BREAK | BREAK | BREAK | BREAK |
10:15 | 10:15 | SESSION 1 Theory |
Fluorophores | SEBASTIAN | - | did not do it this time - placeholder for next time |
10:15 | 11:10 | SESSION 2a Theory |
Detectors | BRITTA | - | CCD chip paper weight Demo: CCD chip under stereo microscope example cameras showing different chip sizes |
11:10 | 11:20 | SESSION 2b Demo |
Detectors | BRITTA | bench show | RT spot with RGB slider and camera objective PC nice sample for binning (coffee cup) show grid at AC outlet in room |
11:20 | 11:41 | SESSION 2c Theory |
Detectors | BRITTA | advanced detectors lecture | |
11:31 | 11:33 | SESSION 2d Practice |
Detectors "QE" show |
JAN | students count times of laser pointer blinking | blinking laser pointer |
11:33 | 11:45 | BREAK | BREAK | BREAK | BREAK | BREAK |
11:48 | 12:07 | SESSION 3a Theory |
Digital images | BERT | Nyquist-Shannon what is a pixel spatial calibration |
comment about difference noise and background (unspecific) signal |
12:07 | 12:22 | SESSION 3a Demo |
Digital images | JAN | Nyquist-Shannon spatial calibration |
overhead projector sheets with different sized squares as example for dexel size gummi bears, Sesame seeds |
12:12 | 12:35 | SESSION 3a Practice |
calculating dexel/pixel size | BioDIP TEAM | practice calculating needed dexel size for given optical setup | calculator text with given optical setup (within Bert's presentation) |
12:35 | 12:42 | SESSION 3a Practice |
calculating dexel/pixel size | BERT | practice calculating needed dexel size for given optical setup | evaluation of the results from practical plus more calculation examples |
12:42 | 12:55 | SESSION 3b Theory |
Quantitative Imaging | BERT | digitization in space, (time) & intensity aliasing |
- |
12:55 | 13:50 | BREAK | LUNCH | LUNCH | LUNCH | LUNCH |
13:50 | 15:15 | SESSION 4 Practice |
discussion and practice imaging with CCD/CMOS cameras on student microscopes | BioDIP TEAM | check out basic camera vocabulary discussing spec sheets of student microscope cameras spatial calibration with ruler and FIJI LUT, saturation, histogram etc |
camera spec sheets (in microscope handbook at each teaching scope) Hamamatsu camera comparison list (extra sheet) camera vocabulary checklist (in microscope handbook at each teaching scope) microscope ruler Fluorescence Sample slides (Kidney / Cells...) |
15:15 | 15:30 | BREAK | COFFEE BREAK | |||
15:30 | 15:40 | SESSION Meet & Greet |
Meeting Isabel Raabe, BioDIP Coordinator | ISA (JAN) |
Q & A with Isa about BioDIP and cooperation between the participating facilities | BioDIP website |
15:40 | 15:49 | SESSION 5a Theory |
OPTICAL SECTIONING introduction widefield & deconvolution |
JAN | - | labtop |
15:49 | 16:00 | SESSION 6 Theory |
CHROMATIC ABERRATION | JAN | ||
16:00 | 16:18 | SESSION 5b Theory & Demo |
OPTICAL SECTIONING Laser Scanning Confocal |
JAN | "confocal equipment": laser pointer, mirror, broken scanning mirror | |
16:18 | 16:43 | BREAK | BREAK | |||
16:43 | 17:15 | SESSION 5c Theory& Demo |
OPTICAL SECTIONING 2-Photon Microscopy |
SEBASTIAN JAN |
dual laser pointer (blue, green, red) piece of cheese to demonstrate penetration of diff. wavelength | |
17:15 | 17:40 | SESSION 5d Theory |
OPTICAL SECTIONING Spinning Disc Confocal |
BRITTA JAN |
beer bottle from Plzen | |
17:40 | 17:50 | SESSION 5d Demo |
OPTICAL SECTIONING Spinning Disc Confocal |
JAN | DAN's "spinning-disc-on-a-bench" |
[edit] DAY FIVE - Fri 20th April
organize pitchers with water and cups for short breaks
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | Materials needed |
9:00 | 10:05 | Recap | day 4 | BioDIP TEAM | Question sheets with the real case problem calculators, pens voting kit? |
10:05 | 10:20 | BREAK | BREAK | BREAK | |
10:20 | 10:36 | SESSION 1a Theory & Demo |
OPTICAL SECTIONING TIRF |
BRITTA | small glass cube with olive oil over milky water (use more oil than water!) plus Dan's blue laser pointer |
10:36 | 10:55 | SESSION 1b Theory & Demo |
OPTICAL SECTIONING SPIM |
SEBASTIAN | glass block with brain/scull and red light sheet laser from ZEISS |
10:55 | 11:07 | SESSION 1c Demo |
OPTICAL SECTIONING SPIM |
SEBASTIAN | PETE's SPIM-in-a-suitcase |
11:07 | 11:15 | SESSION 1d Theory |
OPTICAL SECTIONING Apotome |
JAN | |
11:15 | 11:30 | SESSION 1e Theory |
OPTICAL SECTIONING final remarks |
JAN | |
11:30 | 11:45 | BREAK | BREAK | ||
11:45 | 12:30 | SESSION 2 Theory |
EXTENDED RESOLUTION SIM STORM STED Airyscan Sample Preparation |
BERT | |
12:30 | 12:32 | DISCUSSION | preparation for Monday hands-on sessions | SEBASTIAN BioDIP team |
white board |
12:32 | 13:18 | LUNCH | LUNCH | LUNCH | |
13:18 | 13:23 | SESSION Meet & Greet |
Meeting Riccardo Maraspini - Honigmann-lab (STED) | RICCARDO (JAN) |
Q & A with Riccardo about Honigmann lab, STED, and cooperation possibilities |
13:23 | 13:33 | SESSION Meet & Greet |
Meeting Noreen Walker, Leader Scientific Computing facility | BENOIT (JAN) |
introduction to bioinformatics service and image processing facility |
13:33 | 13:40 | SESSION 3 | Planning your Imaging Experiment | JAN | + introduction to new user project questions |
13:40 | 13:55 | SESSION 4a Project discussion |
One volunteer presents his/her imaging problem shortly and discuss it with the whole group | BioDIP TEAM + BENOIT |
NOTE: ask for volunteers already on Monday, than again on Wednesday |
13:55 | 14:13 | SESSION 4b Project discussion |
Second volunteer presents his/her imaging problem shortly and discuss it with the whole group | BioDIP TEAM + BENOIT |
NOTE: ask for volunteers already on Monday, than again on Wednesday |
14:13 | 14:25 | BREAK | SHORT BREAK | BREAK | |
14:25 | 14:55 | SESSION 4c Project discussion |
Third volunteer presents his/her imaging problem shortly and discuss it with the whole group | BioDIP TEAM + BENOIT |
NOTE: ask for volunteers already on Monday, than again on Wednesday |
14:45 | 14:55 | SESSION Meet & Greet |
Meeting Nicola Maghelli, Leader Advanced Imaging Facility | NICOLA (JAN) |
introduction to Advanced Imaging Facility |
14:55 | 16:00 | SESSION 5 | Course evaluation | BioDIP TEAM | Gummy bear bags and/or fruits white board + marker |
[edit] DAY SIX - optional - Mon 23rd April afternoon
FROM | TO | ACTIVITY | TOPICS | Responsible person(s) | Materials needed |
12:00 | 13:00 | LUNCH | LUNCH | LUNCH | |
13:00 | 13:45 | Preparation for hands-on | OPTICAL SECTIONING / SUPER-RESOLUTION | BioDIP team | MZ1, LZ2, CZ6, SD4, H1, H2 we need to decide which systems to use |
13:45 | 14:00 | Meeting students at switchboard |
OPTICAL SECTIONING / SUPER-RESOLUTION | BioDIP team | sign-up sheets for both hands-on sessions students decide which two systems (one per session) they want to get to know distribute students into groups |
14:00 | 15:30 | SESSION I hands-on |
OPTICAL SECTIONING / SUPER-RESOLUTION | BioDIP team | MZ1, LZ2, CZ6, SD4, H1, H2 |
15:30 | 16:00 | BREAK | COFFEE | KATJA | |
16:00 | 17:30 | SESSION II hands-on |
OPTICAL SECTIONING / SUPER-RESOLUTION | BioDIP TEAM | MZ1, LZ2, CZ6, SD4, H1, H2 |
17:30 | 18:00 | ROUND-UP | FINAL GET TOGETHER | BioDIP TEAM | LMF office or atrium |