Arrayit InnoScan® 900 Series High-Resolution High-Speed Two-Color Microarray Fluoescence Scanners

Data Sheet

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Arrayit offers the world’s only next generation microarray scanning technology, with proprietary rotary motion control, dynamic auto-focusing, 2-color fluorescence detection, 0.5 µm scan resolution, 3 minute scan times, 24-substrate slide autoloader option and complete MAPIX® software.

Arrayit offers the world’s only next generation microarray scanning technology, with proprietary rotary motion control, dynamic auto-focusing, 2-color fluorescence detection, 0.5 µm scan resolution, 3 minute scan times, 24-substrate slide autoloader option and complete MAPIX® software.

Product Description

  • Next generation microarray scanning technology.
  • World’s only sub 1 µm microarray substrate slide scanner on the market.
  • Proprietary rotary scanning architecture permits the fastest scanning speeds.
  • 3 minutes to scan an entire 25 x 76 mm substrate slide.
  • Scan 24 substrate slides in 100 minutes using the 900AL.
  • Rotary scanning architecture reduces vibrational noise and increases image quality.
  • Much greater reliability and longevity than conventional raster scanners.
  • High resolution acquisition system: scans spot sizes down to 5 µm diameter.
  • Real-time image acquisition for all microarray types including but not limited to in-situ high density glass slide microarrays, spotted microarrays of all kinds, tissue and cell microarrays.
  • Low background noise and high sensitivity system.
  • Uniform scanning across the entire microarray surface regardless of substrate type (glass, membrane and plastic).
  • Not sensitive to shocks, vibrations and slide deformation (portable).
  • Delivered with Mapix® software: an easy to use data acquisition and image analysis software including automatic spot recognition and powerful image analysis71 974
  • Software for various OS environments (Linux, Windows ).
  • Ethernet interface allows easy data sharing (scanner can be shared over network by several users).
  • Affordable price, low maintenance.
  • Lightweight, robust structure makes it portable system.
  • Small footprint for laboratory space saving.
  • Only 500 nm resolution microarray scanner available.



Thermoelectrically cooled laser diodes with stabilized feedback output

Excitation wavelengths

635 nm and 532 nm (900A and 900AL models)
635 nm (900R model)
532 nm (900G model)
Custom wavelengths are available. Please contact us with your requirements.

Laser power

Adjustable to two different power settings

Gain PMT



Real-time and automated


True confocal and high performances digital laser/PMT system

Optical resolution

1 µm

Pixel size

1 µm to 40 µm

Barcode reader


Scanning time

3.5 min per 22 x 70 mm substrate at 10 µm resolution

Autoloader capacity (optional)

24 standard 25 x 76 mm glass substrate slides

Autoloader speed

5 seconds load/unload per substrate slide

Autoloader throughput

100 min for 24 substrate slides

Scan area

Full substrate slide area (22 x 70 mm)

Image format

Standard TIFF (16 bit gray scale)

Barcode reader

All formats

Power supply

88 - 264 VAC

Size (L x D x H)

28.3 x 46 x 38.5 cm (models 900A, 900R and 900G)
33 x 60 x 42 cm (model 900AL)


17 Kg


Class I laser product


0.1 fluor/µm²

Dynamic range



<5% CV


Open platform glass substrate slides (25 x 76 mm)

Computer interface


Image analysis

Highly accurate grid positioning using automatic spot recognition provide accurate quantification and 16-bit exportable TIFF data

Compatible fluorophores:

Cy5, Alexa 647, Alexa 660 (635 nm); Cy3, Alexa 546, Alexa 555 (532 nm); and custom wavelengths available

Image acquisition and quantification demo available upon request, email us at

photomultiplier tube
Figure 1. The ArrayIt® InnoScan® 900 series scanners use dynamic auto focusing, which greatly reduces background noise and increases signal intensities. This proprietary auto-focusing technology allows the system to adjust to temperature changes, mechanical perturbations and other system changes that would otherwise cause fluctuations in signal and background. The result is highly uniform scanning across the entire chip surface and consistent performance scan after scan.

spot finding
Figure 2. 
Quantitation and analysis software is included with every scanner. Mapix® is a microarray image analysis software application that is both intuitive and easy to use, combining imaging and analysis tools for superior performance. Highly efficient algorithms provide rapid and effective feature gridding through automatic spot searching and optimal grid alignment.

Figure 3. Automatic spot segmentation ensures high-quality experiment data by selecting relevant pixels and eliminating unwanted ones. Gridding performance and quantification process are adapted to the high resolution of the InnoScan 900 (1 micron) and therefore to the size of images generated. Optimal data visualization and quick learning thanks to its highly interactive commands, with full correlation between displayed data, pictures and plots. Compatible all types of microarrays made by ex-situ and in-situ techniques. Reads and analyzes interstitial/staggered/orange packing patterned microarrays made by the NanoPrint, Agilent, Nimblegen and others.

  • Batch processing allows analysis of a large number of microarrays per day to boost productivity (available on Version 3.0.0).
  • Regular software updates are accessible on line to match evolving needs of customers (updates are free for the 1st year).

Configurable for full or modular automation of:

  • Scanner control
  • Configuration saving (scan and analysis parameters)
  • Bar code reading
  • Quality control by flagging

Compatible with all industry-standard formats and platforms:

  • Support GAL files and recordable transcripts in both text and GPR formats.
  • Images are saved as 16-bit TIFF images with all read parameters and can be copied in JPEG format.
  • Supports image analysis of 16-bit TIFF files from a variety of other scanners.
  • Platform-independent and runs on all operating systems (Windows, 32- and 64-bit Linux and Macintosh).

automated slide loader
Figure 4. Close up view of the autoloader available on the InnoScan 900AL. Up to 24 microarrays may be loaded per run for fully automated scanning of 24 complete glass substrate slides.

array CGH
Figure 5. Scanned image of a 100 µm diameter microarray spot from an Arrayit H25K Whole Human Genome Microarray manufactured using Arrayit 946 Series contact printing technology. Scan resolution was set at 0.5 µm on the Arrayit InnoScan 900 Microarray Scanner. The Arrayit 900 enables 5 µm feature scanning of microarrays containing up to 50,000,000 (50 million) features per 25 x 76 mm substrate slide.