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General information coated slides

Introduction

SCHOTT offers a wide range of functional coating chemistries for DNA and protein microarraying. NEXTERION® coated slides are available with a standard functional coating, or also with an additional reflective dielectric layer (NEXTERION® HiSens slides). These innovative, next generation microarray slides were developed to identify low expressor genes, or low-abundant proteins by offering a significant increase in sensitivity over traditional transparent glass slides. The functional coating and protocol are the same as for standard slides (see “Reflective optical coating” section).

Product selection Overview NEXTERION® coatings

We have prepared a summary of all the scientific literature that cite the use of NEXTERION® microarray products. The publications have been categorized by the type of slide coating used, probes printed and application. This is a useful guide when deciding which of the NEXTERION® coatings to use with any particular application. A download of this file is available here.

Alternatively, the following summary table indicates the most appropriate slide coating for specific microarray applications (NEXTERION® MTP 96-well, MPX 16-well or optically coated HiSens version of the recommended NEXTERION® coating are also available):

Probe type Functional coating NEXTERION® coating Comments Oligonucleotides Epoxysilane E First choice for all types of oligonucleotide arrays Aminosilane AStar/A+ Popular option for oligonucleotide arrays 3-D thin film H Suitable for short amino-modified oligos (≤ 25 mers) cDNA/PCR Aminosilane AStar/A+ Epoxysilane E Aldehydesilane AL Alternative for amino-modified cDNA/PCR probes Bacterial artificial chromosomes (BAC) Aminosilane AStar/A+ Epoxysilane E Aldehydesilane AL Use with amino-modified BACs Peptides Epoxysilane E Aldehydesilane AL Alternative for robust peptide probes Proteins 3-D thin film H Ideal substrate for printing protein Antibodies Epoxysilane E Aldehydesilane AL 3-D thin film H Cells/Tissues 3-D thin film H Optimal environment for cells and tissues Glycans 3-D thin film H First Choice

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Barcoding

Laser and label barcode on NEXTERION® slides NEXTERION® coated slides are available with or without a barcode. The types of barcodes available are either a label barcode or a special laser bonded foil barcode. The barcodes are fully compatible with commercial automated hybridization stations, and are robust enough to withstand standard hybridization and washing procedures. The barcodes conform to code 128, and are readable with all commonly available microarray scanners and hand-held barcode readers.

Packaging

NEXTERION® coated slides are packed in convenient 25 or 30-slide containers for high throughput applications. The boxes are made of a specially developed plastic material to minimize out-gassing, and maintain the slide coating properties. The slide boxes are sealed in tough protective laminated foil pouches under an inert atmosphere*. The specially developed packaging protects the slides from damage due to breakage and external contamination. It also offers protection from the adverse effects of light and humidity during transportation and long-term storage. * Except NEXTERION® Slide NC products

5-slide box		25-slide box		Box for 5 NEXTERION® plates or 30 slides		Laminated foil pouch with an inert atmosphere to provide a protective environment

Frequently asked questions

General What barcode options can SCHOTT offer? Can SCHOTT Microarray Solutions offer custom logos? How firmly are the SCHOTT NEXTERION® coatings attached to the glass? What is the density of functional groups on the slide surface? What factors should be considered when selecting dyes? How can I increase the cDNA labelling efficiency when using the aminoallyl-method? What is the optimal labeling ratio for proteins? What factors affect Cy3/Cy5 relation? Will the NEXTERION® slides fit into standard microarray equipment? What is the shelf life of the NEXTERION® coated and uncoated slides? What are the recommended storage conditions for the slides? Printing Can I print on both sides of the slides? What parameters affect the printing process? How can I check the quality of the printed slide? I am using split pins with a pin diameter of 75 µm and getting spot sizes of 50 to 60 µm with Next Spot. How can I increase the spot size? Trouble shooting guide spots Big spots, merged spots Irregular spot shape Irregular spot morphology - “fried egg” effect No or too less probe delivery after printing a few slides Black holes or negative spots Comet tailing Doughnut spot morphology How should I prepare a suitable humidity chamber? What is the maximum number of spots that can be printed on a standard NEXTERION® slide? How large is the actual printing area on the slides? Blocking I want to store my slides after printing; but before hybridization. Should I store them directly after printing, or after the washing and blocking steps? How can I avoid bleeding spots or comet tails? Hybridization Which factors affect hybridization? What is the difference between NEXTERION® Hyb (order code: 1066075) and NEXTERION® Oligo Hyb (order code: 1116890)? How can I formulate my own hybridization buffer? Does the pre-hybridization buffer need to contain formamide? What can I check if there is no signal on the substrate after hybridization? What are the causes of an uneven hybridization pattern across an array? How can I decrease high background fluorescence observed after hybridization? Can SCHOTT recommend any alternatives to the Cy5 dye?

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Download pdf file 'General information coated slides'