Microarray service – University of Copenhagen

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CCG > Research & Facilities > Array technology > Microarray service

Microarray service and equipment at Copenhagen Center for Glycomics

Arrayer: 

A robotic array-spotting device (MicroGrid II, Genomic Solutions) is available to print microarrays. This instrument will print microarrays with a spotting density of >1000 spots per cm2. We can print arrays from our glycan library, glycopeptide, glycoprotein, glycolipid and antibody collections or other materials. The print table holds up to 120 slides, which can be printed in one print run. All slide surfaces and buffers can be used. Most print conditions, such as temperature and humidity can be met.  

Slide processing: 

After printing, the slides are processed according to their individual requirements. Slides are humidified, print-area selected and numbered, blocked, and hybridized/incubated. The CCG biomarker group is equipped with an automated slide incubator (Protein Work Station, Perkin Elmer, which can be used for large numbers of slides that have to hybridized/incubated simultaneously under precise washing conditions.      

Slide scanning: 

Our biomarker discovery lab is equipped with a ProScanArray HT confocal laser scanner with a 20-slide autoloader (Perkin Elmer, Waltham, MA). Configured with red (632 nm), green (543 nm), and HeNe lasers and a blue (488 nm) Argon laser and the professional ProScanArray Express software, this system is very sophisticated and meets all of our needs. There are 10 emission filters (20nm band pass) at 508nm, 522nm, 530nm, 570nm, 578nm, 592nm, 614nm, 660nm, 670nm, and 694nm. This instrument will scan 25mm x 75mm microscope slides with 5, 10, 20, 30, and 50 micron pixel resolution.      

Data analysis:

The Tif image created by the scanner is processed by imaging software, such as Imagene and ProScanArray Express. These applications are capable of spot-finding, background intensity determination, and signal intensity generation. The output is a tab-delimited text file, which has each spot’s intensity. The process of analyzing the text file output is the most non-standardized aspect of data analysis. The CCG biomarker group collaborates with bioinformatics expertise from various project partners to process and evaluate data.    

Contact: 

Professor Henrik Clausen
Department of Cellular and Molecular Medicine (24.6.30)
Faculty of Health and Medical Sciences, University of Copenhagen.
Blegdamsvej 3, DK-2200 Copenhagen N
Tlf: +45 20145537
hclau@sund.ku.dk