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Zeiss Axioscan Z1 Slide scanner

Desmarais Building, Room 5308-2
Simple Microscope usage price

Instrument kindly provided to the CI2B by – in 2025

  • Slide scanner
  • Transmitted light
  • Brightfield color and monochrome
  • Pseudo-Phase contrast
  • Fluorescence



Light sources

  • LED lamp for transmitted light
  • Viluma 7 for fluorescence

Emission peak (nm)

Nominal Power (mW)Measured Power (mW)
385/30150 
469/38110 
555/3031 
631/3350 

Objectives

  • 5x/0.25 Air 420130-9900-000
  • 10x/0.45 Air 420640-9900-000
  • 20x/0.8 Air 420650-9903-000
  • 40x/0.95 Air 420660-997

Dichroic

  • FilterSet 112 405/495/575/654/761 489112-8016-000

Emission filters

  1. Empty
  2. BP 425/30 412-438 489090-8001-000
  3. BP 514/30 501-527 489090-8002-000
  4. BP 592/25 583-601 489090-8003-000
  5. BP 681/45 662-700 489112-8001-000
  6. BP 788/38 770-800 489112-8002-000

Detectors

  • Zeiss AxioCam 705 Color
CameraZeiss AxioCam 705 Color

Sensor Type

CMOS

Sensor Category

Color

Nb Pixels

 5.07 M

Pixel Layout

2464 × 2056 

Pixel size

 3.45 µm × 3.45 µm

Sensor size

 8.5 mm x  7.1 mm

Sensor diameter

 11.1 mm

Bit depth

14-bit
Speed at full resolution60 images/s

Max QE

 80 % @ 540nm
Readout noise2.2 e⁻

Cooling

18C Thermoelectric

Dark Current

 0.5 e⁻/pixel/sec

Full well capacity

11 000 e-

Dynamic Range

1:5000
1: 25 000 HDR mode

Interface

USB B 3.0

Mount

C-mount

  • Hamamatsu ORCA-Flash4.0 V3
CameraHamamatsu ORCA-Flash4.0 V3

Sensor Type

sCMOS

Sensor Category

Monochrome

Nb Pixels

4.2 M

Pixel Layout

2048 x 2048

Pixel size

  6.5 um

Sensor size

13.312 mm x 13.312 mm

Sensor diameter

18.826 mm

Bit depth

16-bit
Speed at full resolution30 images/s

Max QE

82 % at 560 nm
Reading noise0.8 e⁻

Cooling

Air cooled -10C

Dark Current

0.06 e⁻/pixel/sec

Full well capacity

30 000 e-

Dynamic Range

1:37000

Interface

USB 3.0 or Camera-Link

Mount

C-mount


  • If not already done, turn on the computer (#1) and log in to Windows using your UdeM credentials
  • Turn on the instrument power bar (#2) on the desk between the instrument and the computer
  • Turn on the instrument (#3) on the left side of the instrument
  • Start Zen

This instrument is only offered with service. Please contact us.


  • Files can be saved temporarily (during acquisition) on the local C: drive (desktop)
  • At the end of each session, copy your data to your external drive and delete it from the local C: drive
  • You can store your files on the D: drive (Data Storage). If you do, please create a folder per laboratory using the principal investigator last name. Within, create one folder per user (Firstname_Lastname).

In any case, your files should be removed from the C: drive.

  • Save your data
  • Close Zen
  • Transfer your data to the D: drive (Data Storage) or to your external drive and delete it from the local C: drive
  • Turn off the microscope power bar (#1)
  • Turn off the computer

Reminder

  • Take back your samples including ones in the microscope
  • Leave the microscope and the working area clean

  • Added to the Wiki
  • Connected to Processing workstation with 10 GB cable
  • Purchase and Installation

Stand

Zeiss AxioScan  Z1 Serial:
System ID: 4661000608

Light sources

  • Transmitted LED light
  • Viluma 7 FR-R[G/Y]BV-UV Serial 

Objectives

  • 5x/0.25 Air 420130-9900-000
  • 10x/0.45 Air 420640-9900-000
  • 20x/0.8 Air 420650-9903-000
  • 40x/0.95 Air 420660-9970-000
  • Empty
  • Empty
  • Empty

Stage

  • 25x Motorized Loader
  • 10x Inserts 10 x 4 slide 25x75
  • 10x Inserts 10 x 2 slide 50x75

Filters

  • Beam splitter
    1. Empty
    2. Filter Set 112 PBS 405 - 495 - 575 - 654 - 761 489112-8016-000
    3. Empty
    4. Empty
    5. Empty
    6. Empty
  • Emission Filter
    1. Empty
    2. BP 425/30 412-438 489090-8001-000
    3. BP 514/30 501-527 489090-8002-000
    4. BP 592/25 583-601 489090-8003-000
    5. BP 681/45 662-700 489112-8001-000
    6. BP 788/38 770-800 489112-8002-000

Detector

  • Zeiss AxioCam 705 color Serial: 
  • Hamamatsu ORCA Flash4.0 V3
  • Zeiss AxioCam 105 R2 (preview)

Workstation

  • HP Z8 Fury G5  Serial 
  • I155441-CIB
  • Intel Xeon w7-3455 @ 2.5 GHz
  • Motherboard HP 88C1 Chipset Intel W790
  • BIOS U61 2024-07-11
  • RAM 128 GB (4 x 32 GB) DDR5 2400 MHz
  • OS NVMe Western Digital SN850X 2 TB 6000 MB/s
  • OS Windows 11 24H2
  • SWAP Drive NVMe Physon PSEIN004TA87MC0 4 TB 6500 MB/s
  • Data Storage 10 TB HD Data Storage (2 x 12 TB RAID 0 Western Digital UltraStar HGST HUH721212ALE604) 160 MB/s
  • Video Card nVidia RTX A2000 12 GB GDDR6
  • Monitor HP 738pu HPN3A12 Native resolution 3840 x 1600
  • Software Zen Blue 3.11

Manuals

Troubleshooting

Technical support is free and unlimited. Contact us !

FAQ

No. This is a slide scanner dedicated to digitize size mounted between a slide and a 0.17mm thick coverslip.

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Content published under CC BY-SA 4.0. Sharing allowed under the same license with attribution: "Original content by l'Institut Courtois d'innovation biomédicale, used under CC BY-SA 4.0"

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