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--- zeiss_celldiscoverer_7 [2024/07/23 23:31]
bioimaging [How to start your session]
+++ zeiss_celldiscoverer_7 [2025/12/11 23:47] (current)
bioimaging [LASERs (confocal)]
@@ Line 1: / Line 1: @@
 <html>
-<img src="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_cell_discoverer_7_name.png">
+<img src="/facility/bioimaging/lib/exe/fetch.php?media=lisbon_zeiss_cd7_with_lsm_900_name_gimm_2024.png">
 <table style="border:0px solid white;">
 <tr style="border:0px solid white;">
 <td style="border:0px solid white;">
-<a href="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_cd7_wiki_2024.png"><img src="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_cd7_wiki_2024.png" width=300></a>
+<a href="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_cd7_wiki.png"><img src="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_cd7_wiki.png" width=300></a>
 <td style="border:0px solid white;"> <p style="line-height:1.8">
-<b>Location</b>: <a href="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_cd7_map_2024.png">Room P0-A-30</a> (<img src="/facility/bioimaging/lib/exe/fetch.php?media=phone_neg.png" width=15> 47219) <br>
+<b>Location</b>: <a href="/facility/bioimaging/lib/exe/fetch.php?media=zeiss_cd7_map_2024.png">[Lisbon] Room P0-A-30</a> (<img src="/facility/bioimaging/lib/exe/fetch.php?media=phone_neg.png" width=15> 47219) <br>
 <b>Manufacturer</b>: <a href="http://www.zeiss.de/micro" target="_blank">ZEISS Microscopy</a><br>
 <b>Model</b>: <a href="https://www.zeiss.com/microscopy/en/products/imaging-systems/celldiscoverer-7.html">Celldiscoverer 7 with LSM 900</a><br>
 <b>Nickname</b>: "CD7"<br>
-<b>Software</b>: ZEN 3.8 (ZEN celldiscoverer)<br>
+<b>Software</b>: ZEN 3.12 (ZEN celldiscoverer)<br>
 <b>Year</b>: 2022 <br>
 <b>SN</b>: 4648000055<br>
@@ Line 38: / Line 38: @@
 </html>
-  * [[https://www.zeiss.com/microscopy/en/resources/insights-hub/life-sciences/the-smart-microscope-for-automated-workflows-celldiscoverer-7-with-lsm-900.html|ZEISS Webinar: LSM 980 Airyscan 2 Multiplex mode]]
+  * [[https://www.zeiss.com/microscopy/en/resources/insights-hub/life-sciences/the-smart-microscope-for-automated-workflows-celldiscoverer-7-with-lsm-900.html|ZEISS Webinar: The Smart Microscope for Automated Workflows - Celldiscoverer 7 with LSM 900]]
-{{:warning.png?25|}} Data files older than **1 month** will be automatically deleted on this system, please copy your data to the iMM server using the desktop link.
-===== Booking Rules =====
+{{:warning.png?25|}} Data files older than **1 month** will be automatically deleted on this system, please copy your data to the GIMM server using the desktop link.
-  - **Users** can book at maximum **8 hours per week**
-  - This usage restriction does not apply for **weekends** and for working days **before 9:00** and **after 21:00**
+===== Robotic Loader Integration =====
-  - Exceptions to these rules require **approval from [[joserino@medicina.ulisboa.pt|José Rino]]**.
+<html>
+<table style="border:0px solid white;">
+    <tr style="border:0px solid white;">
+        <td width="225" height="400" style="border:0px solid white;">
+            <iframe width="225" height="400" src="https://www.youtube.com/embed/72Hi3Ug6_0k?autoplay=0&mute=1&modestbranding=1&showinfo=0&controls=1;rel=0;playsinline=1" title="YouTube video player" frameborder="0" allow="accelerometer; autoplay; clipboard-write; encrypted-media; gyroscope; picture-in-picture" allowfullscreen></iframe>
+       </td>
+       <td style="border:0px solid white;">
+       The ZEISS Celldiscoverer 7 integrates with an <b>advanced robotic loader</b>, <b>automated liquid handler</b>, and <b>incubator</b> to enable high-throughput, fully automated workflows for live-cell imaging. This integration allows for automated plate loading, liquid handling, and imaging of multiple plates stored under controlled conditions in the incubator, reducing manual intervention and simplifying complex experimental protocols. The loader supports <a href="https://theautomatedlab.com/article.html?content=microplates#:~:text=Standardization:%20The%20SBS%20Footprint,on%20a%20predictable%20plate%20footprint">all SBS multi-well plate formats</a>. The liquid handler includes a custom HEPA downflow to prevent contamination during sample preparation for cell-based screening assays.<br>
+           <br>
+           • Robotic loader: <a href="https://paa-automation.com/product/kx2-500/">Peak Analysis & Automation KX2-500</a><br>
+           • Automated incubator: <a href="https://www.thermofisher.com/order/catalog/product/51032950">Thermo Fisher Cytomat 2 C</a><br>
+           • Automated Liquid Handler: <a href="https://www.agilent.com/en/product/automated-liquid-handling/automated-liquid-handling-platforms/bravo-automated-liquid-handling-platform">Agilent Bravo</a><br>
+           <br>
+           <a href="https://paa-automation.com/product/kx2-500/"><img src="/facility/bioimaging/lib/exe/fetch.php?media=kx_2-500.png" width=118></a><a href="https://www.thermofisher.com/order/catalog/product/51032950"><img src="/facility/bioimaging/lib/exe/fetch.php?media=cytomat.png" width=137></a><a href="https://www.agilent.com/en/product/automated-liquid-handling/automated-liquid-handling-platforms/bravo-automated-liquid-handling-platform"><img src="/facility/bioimaging/lib/exe/fetch.php?media=bravo.png" width=137></a>
+       </td>
+    </tr>
+</table>
+</html>
 ===== System components =====
 ==== LASERs (confocal) ====
-^  Laser Unit  ^  Wavelength  ^  Maximum Power  ^
-|  405  |  405 nm  |  5 mW  |
+^  LASER  ^  Wavelength  ^  Maximum Power  ^
-|  488  |  488 nm  |  10 mW  |
+|  Violet  |  <fc #a600ff>405 nm</fc>  |  5 mW  |
-|  561  |  561 nm  |  10 mW  |
+|  Blue  |  <fc #00f7ff>488 nm</fc>  |  10 mW  |
-|  640  |  640 nm  |  5 mW  |
+|  Yellow-Green  |  <fc #c6ff00>561 nm</fc>  |  10 mW  |
+|  Red  |  <fc #ff2100>640 nm</fc>  |  5 mW  |
 ==== LEDs (widefield) ====
 ^  Line  ^  Wavelength  ^
-|  UV  |  385 nm  |
+|  UV  |  <fc #be00cc>385 nm</fc>  |
-|  V  |  420 nm  |
+|  V  |  <fc #6a00ff>420 nm</fc>  |
-|  B  |  470 nm  |
+|  B  |  <fc #00a9ff>470 nm</fc>  |
-|  C  |  520 nm  |
+|  C  |  <fc #36ff00>520 nm</fc>  |
-|  G  |  567 nm  |
+|  G  |  <fc #d8ff00>567 nm</fc>  |
-|  Y  |  590 nm  |
+|  Y  |  <fc #ffdf00>590 nm</fc>  |
-|  R  |  625 nm  |
+|  R  |  <fc #ff6300>625 nm</fc>  |
 ==== Filtersets (widefield) ====
-^  Position  ^  Filterset  ^  Reference  ^  Dichroic  ^  Emission  ^
+^  Position  ^  Filterset  ^  Dichroic  ^  Emission  ^  Reference  ^
-|  1  |  RQBS  |  [[https://www.micro-shop.zeiss.com/en/us/shop/filterAssistant/filtersets/489090-9100-000|FS90HE]]  |  405 nm  |  410-440 nm  |
+|  1  |  RQBS  |  405 nm  |  <fc #5400ff>410-440 nm</fc>  |  [[https://www.micro-shop.zeiss.com/en/us/shop/filterAssistant/filtersets/489090-9100-000|FS90HE]]  |
-|  :::  |  :::  |  :::  |  493 nm  |  499-529 nm  |
+|  :::  |  :::  |  493 nm  |  <fc #1fff00>499-529 nm</fc>  |  :::  |
-|  :::  |  :::  |  :::  |  575 nm  |  580-605 nm  |
+|  :::  |  :::  |  575 nm  |  <fc #ffd900>580-605 nm</fc>  |  :::  |
-|  :::  |  :::  |  :::  |  653 nm  |  659-759 nm  |
+|  :::  |  :::  |  653 nm  |  <fc #ef0000>659-759 nm</fc>  |  :::  |
-|  2  |  RTBS  |  [[https://www.micro-shop.zeiss.com/en/us/shop/filterAssistant/filtersets/489091-9110-000|FS91HE]]  |  450 nm  |  455-479 nm  |
+|  2  |  RTBS  |  450 nm  |  <fc #009cff>455-479 nm</fc>  |  [[https://www.micro-shop.zeiss.com/en/us/shop/filterAssistant/filtersets/489091-9110-000|FS91HE]]  |
-|  :::  |  :::  |  :::  |  538 nm  |  543-568 nm  |
+|  :::  |  :::  |  538 nm  |  <fc #b3ff00>543-568 nm</fc>  |  :::  |
-|  :::  |  :::  |  :::  |  610 nm  |  615-760 nm  |
+|  :::  |  :::  |  610 nm  |  <fc #ff0000>615-760 nm</fc>  |  :::  |
-|  3  |  RTBS  |  [[https://www.micro-shop.zeiss.com/en/us/shop/filterAssistant/filtersets/489092-9110-000|FS92HE]]  |  405 nm  |  410-440 nm  |
+|  3  |  RTBS  |  405 nm  |  <fc #5400ff>410-440 nm</fc>  |  [[https://www.micro-shop.zeiss.com/en/us/shop/filterAssistant/filtersets/489092-9110-000|FS92HE]]  |
-|  :::  |  :::  |  :::  |  493 nm  |  499-549 nm  |
+|  :::  |  :::  |  493 nm  |  <fc #46ff00>499-549 nm</fc>  |  :::  |
-|  :::  |  :::  |  :::  |  610 nm  |  616-761 nm  |
+|  :::  |  :::  |  610 nm  |  <fc #ff0000>616-761 nm</fc>  |  :::  |
-|  4  |  RDBS  |  FS93HE  |  493 nm  |  498-530 nm  |
+|  4  |  RDBS  |  493 nm  |  <fc #1fff00>498-530 nm</fc>  |  FS93HE  |
-|  :::  |  :::  |  :::  |  575 nm  |  580-630 nm  |
+|  :::  |  :::  |  575 nm  |  <fc #ffad00>580-630 nm</fc>  |  :::  |
 ==== Objectives ====
 ^  Model  ^  Immersion  ^  WD (mm)  ^  NA  ^   Magnification changer  ^  Magnification  ^
-|  Plan-Apochromat 5x / 0.35  |  Air  |  5.10  |  0.12  |  0.5x   |  2.5x  |
+|  <fc #ed0707>Plan-Apochromat 5x / 0.35</fc>  |  Air  |  5.10  |  0.12  |  0.5x   |  2.5x  |
 |  :::  |  :::  |  :::  |  0.25  |  1x  |  5x  |
 |  :::  |  :::  |  :::  |  0.35  |  2x  |  10x  |
-|  Plan-Apochromat 20x / 0.7 |  Air  |  2.20  |  0.35  |  0.5x   |  10x  |
+|  <fc #f9fb1a>Plan-Apochromat 20x / 0.7</fc>  |  Air  |  2.20  |  0.35  |  0.5x   |  10x  |
 |  :::  |  :::  |  :::  |  0.70  |  1x  |  20x  |
 |  :::  |  :::  |  :::  |  :::  |  2x  |  40x  |
-|  Plan-Apochromat 20x / 0.95 |  Air  |  0.76  |  0.50  |  0.5x   |  10x  |
+|  <fc #32cb35>Plan-Apochromat 20x / 0.95</fc>  |  Air  |  0.76  |  0.50  |  0.5x   |  10x  |
 |  :::  |  :::  |  :::  |  0.80  |  1x  |  20x  |
 |  :::  |  :::  |  :::  |  0.95  |  2x  |  40x  |
-|  Plan-Apochromat 50x / 1.2 W |  Water  |  0.84  |  1.20  |  0.5x   |  25x  |
+|  <fc #2190fd>Plan-Apochromat 50x / 1.2 W</fc>  |  Water  |  0.84  |  1.20  |  0.5x   |  25x  |
 |  :::  |  :::  |  :::  |  :::  |  1x  |  50x  |
 |  :::  |  :::  |  :::  |  :::  |  2x  |  100x  |
@@ Line 103: / Line 122: @@
 ===== How to start your session =====
-The system should be always on, you only need to:
+If you are the **first user** of the day:
+  * Turn off the Main Switch (bottom right of the CD7)
+{{::cd7_main_switch.png?250|}}
+  * Turn on the computer
+  * Turn on Main Switch
   * Activate the CD7 by pressing the "Standby" button (to the left of the touch panel)
-{{::cd7_standby.png?200|}}
+{{::cd7_standby.png?250|}}
-  * Turn on the computer
   * Log into Windows with your Agendo credentials
   * Start **ZEN**
-  * Open the main valve of the CO2 tank (if needed)
+  * Open the **Main valve** of the CO2 tank (if needed) - do not change the pressure settings!
 {{::cd7_co2.png?130|}}
-===== How to end your session =====
-If there is another user for this microscope in the __next hour__:
-  * Exit the ZEN software, leave the lasers on (if used)
-  * Log off the computer
 Else:
-  * Close the main valve of the CO2 tank (if used)
-  * Turn off the lasers on **ZEN**
-  * Exit the ZEN software
-  * Shutdown the computer
-  * Press the "Standby" button (to the left of the touch panel).
-===== Microscope Turn On Procedure (after complete shutdown) =====
-If the system is completely off, please follow this procedure:
-  * Turn on the ''MAIN SWITCH'' (bottom right of the CD7)
-  * Activate the CD7 by pressing the "Standby" button (to the left of the touch panel)
-  * Turn on the computer
   * Log into Windows with your Agendo credentials
-  * Start the **ZEN** software
+  * Start **ZEN**
-  * Open the main valve of the CO2 tank (if needed)
+  * Open the **Main valve** of the CO2 tank (if needed) - do not change the pressure settings!
-===== Microscope Turn Off Procedure (for complete shutdown) =====
+===== How to end your session =====
-Please only shutdown the system if instructed to do so by the Bioimaging Unit.
+If there is another user:
+  * Exit the ZEN software
+  * Log off the computer
+If you are the **last user** of the day:
   * Close the main valve of the CO2 tank (if used)
   * Turn off the lasers on **ZEN**
   * Exit the ZEN software
-  * Shutdown the computer
+  * Turn off the computer
-  * Press the "Standby" button (to the left of the touch panel)
+  * Press the "Standby" button (to the left of the touch panel).
-  * Turn off the ''MAIN SWITCH'' (bottom right of the CD7)
 ----
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