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Microarray Solutions
                The Nexterion® Newsletter                        Edition # 3 / September 2007




                SCHOTT LAUNCHES A NEW RANGE OF
                     NITROCELLULOSE SLIDES,
                      NEXTERION® SLIDE NC,
          IN PARTNERSHIP WITH SARTORIUS STEDIM BIOTECH
                                                …read more on pages 4-5


                   Also featured this edition:
                    page 3     INTERVIEW WITH DR. RUEDIGER DIETRICH
                               Microarray Solutions talks to SCHOTT’s Director of R&D and Tech Support

                    page 6     CUSTOMIZED AND OEM PRODUCTS FROM SCHOTT
                               Looking for a supplier of gold coated substrates? Interested in having a
                               company logo on your microarray slides? Microarray Solutions outlines
                                                                                                        ®
                               some of the custom products and features now available in the Nexterion
                               product range.
                    page 7     TECHNICAL SUPPORT IN FOCUS – THE UNIVERSITY
                               OF LJUBLJANA
                    page 8     LATEST NEWS FROM SCHOTT



Microarray Solutions
SCHOTT North America Inc.
5530 Shepherdsville Road
Louisville, KY 40228
USA
Phone:         +1- 502-657-4417
Fax:           +1- 502-966-4976
E-Mail:        coatedsubstrate@us.schott.com
www.us.schott.com/nexterion
Microarray Solutions                                                                                                 page 2



                                         General Manager Talk


                                     Dear Reader,



                                     Welcome to the latest edition of the “Microarray Solutions” newsletter, my first as
                                     General Manager of the Microarray Solutions business at SCHOTT. You may recall my
                                     name from a previous edition of the newsletter, in my capacity as Production Manager.
                                     I recently took over the role of General Manager from Dr. Lutz Wehmeier, who has
                                     been promoted to General Marketing & Sales Manager for SCHOTT Borofloat &
                                     Aerospace. I very much look forward to being a part of the hugely successful
                                     “Microarray Solutions” publication, as we continue to provide our readers with the latest
                                     information on developments at SCHOTT Microarray Solutions and highlight some of
                                     the interesting applications being developed by our customers.



                                     Since the last edition of the newsletter, we have been working hard behind the scenes
                                     to develop new, innovative products to further strengthen our position as the leading
                                     supplier of microarray slides and accessories for DNA and protein microarrays. This
                                                                                                                             ®
                                     edition of “Microarray Solutions” will focus on SCHOTT’s new range of Nexterion
                                     Slide NC nitrocellulose slides, as we continue to expand our range of slide surfaces
                                                                                     ®
       Christian Jabschinsky         dedicated to protein microarraying. Nexterion Slide NC (nitrocellulose) was developed
         General Manager             in conjunction with Sartorius Stedim Biotech and the partnership has allowed SCHOTT
  Nexterion – Microarray Solutions   to rapidly introduce a high quality nitrocellulose slide to the market, complementing our
                                     range of already well established substrates for protein microarrays. The article on
                                     pages 4 and 5 expands on our relationship with Sartorius Stedim and provides details
                                     of the nitrocellulose product range that we will offer from September 2007. We are very
                                     confident that this will become a hugely popular product in the SCHOTT portfolio, and
                                     we look forward to a long and successful partnership with Sartorius Stedim Biotech.



                                     Other highlights from this edition of the newsletter include; an interview with SCHOTT
                                     Microarray Solutions’ Director of Research & Development, information about our
                                     customized products, and an interesting story about how our technical customer
                                     support was able to assist a customer at the University of Ljubljana.



                                     I hope that you enjoy reading this edition of “Microarray Solutions”, and thank you for
                                     choosing SCHOTT as your preferred microarray substrate supplier.




                                     Regards,




                                     Christian Jabschinsky
                                     General Manager – SCHOTT Microarray Solutions
Microarray Solutions                                                                                            page 3



 SCHOTT Profile – Dr. Ruediger Dietrich – Director of R&D and Technical
                   Support at Microarray Solutions

                                 MS: What are your responsibilities as Director of R&D at Microarray Solutions?
                                 RD: The R&D Group at Microarray Solutions has three key responsibilities; provide
                                 support to current and potential SCHOTT customers, identify and research new market
                                 trends, and develop new products in collaboration with the marketing department.
                                 Being successful with these three tasks requires close consultation and cooperation
                                 with both the SCHOTT Sales Managers and Technical Support Specialists, who deal
                                 directly with customers, and operate in the market on a daily basis. This allows my
                                 R&D group to obtain feedback from the market very quickly. In addition to focusing on
                                 customers and the market, it is also my responsibility to manage the R&D group and
                                 create an exciting, challenging and innovative atmosphere to ensure that the group
                                 enjoy their work and are motivated to produce the best possible results.
                                 MS: What are the key projects you and your team have been working on in 2006?
                                 RD: In R&D we continue to work on improving the sensitivity, reproducibility and overall
                                 quality of our substrates and there were several projects in 2006 that reflected this
                                                                                                                 ®
                                 philosophy. There were two new product launches in 2006, Nexterion HiSens
                                 substrates and Nexterion® MTP-96. The HiSens optical interference coating was
                                 something we have worked on for some time, and we were really pleased by how well
                                 it was received in the market. The MTP-96 microplate was really an extension of
                                 SCHOTT’s desire to offer solutions for higher throughput microarraying and our
                                 microtiterplate system was developed in conjunction with one of our key customers in
                                 the U.S.
                                 Developing substrates suitable for protein microarraying was identified as a key goal
                                 for R&D in 2006, and this resulted in the co-development of a new nitrocellulose slide
                                 with Sartorius Stedim Biotech. We also continue to work behind the scenes to improve
                                 our current portfolio of microarray substrates e.g. increase batch sizes (for further
                                 details see the news section), develop improved QC methods, improved packaging etc.
                                 Developing accessories that will help users to obtain optimal results with our slides,
                                 such as the new low evaporation buffers, the 70mer oligo microarraying kit and new
                                 and improved protocols is another important area of focus for my group.
Dr. Ruediger Dietrich joined     MS: And what kind of projects will you be working on in 2007/08?
SCHOTT as Director of R&D        RD: We will continue to focus on developing new protein array surfaces, and optimized
around 2 years ago, after        reagents, to ensure that SCHOTT is a leading player in supplying substrates for as
previously having worked in      many protein array applications as possible. Resources will also be allocated to
academia at the Institute of     developing optimized protocols and kits, and possibly new slide surfaces, for Array
Molecular Biotechnology in       CGH as this has been identified as an increasingly popular application among our
Jena, and the Max Planck         customers. SCHOTT R&D has also received a number of requests for customized
Institute for Biophysics in      products in recent months, and we will continue to dedicate resources to this, in
Göttingen.                       addition to several other projects that at this stage have to remain confidential!
                                 MS: From an R&D standpoint, what are the main challenges facing SCHOTT at
Microarray      Solutions asks   present? What is SCHOTT doing in response to these challenges?
Ruediger about the work of his   RD: I would not say that there are any specific challenges that we have to confront
R&D team over the past year      right now. We obviously have to continue to work hard to support our customers as
and sheds light on his R&D       much as possible, and develop new and innovative products that will help SCHOTT
goals for the future…            become the number one microarray substrate supplier. As with most R&D
                                 departments, we have a wealth of ideas and projects to work on to ensure that we can
                                 maintain our edge over the competition.
                                 MS: What are the key trends you have noticed in the microarray world since you
                                 joined SCHOTT? How has SCHOTT R&D responded to these trends?
                                 RD: The microarray world seems to be constantly evolving with many customers
                                 starting to focus on new applications such as miRNA arrays, aCGH, glycan arrays and
                                 demanding more from substrate suppliers, both in terms of consistency and new
                                 surfaces to offer superior performance. Examples of this include gold coatings for SPR
                                 detection technology, optical interference coatings for increased sensitivity and
                                 substrates with defined wells that allow analysis of several target samples
                                 simultaneously, both in slide and microtiterplate format, for higher throughput
                                 microarraying.
                                 It has also been noticeable from interaction with our customers that microarrays are
                                 moving closer to becoming accepted as a diagnostic tool, with some products already
                                 having received FDA or other regulatory approval. This means that we have to strive to
                                 offer the highest quality substrates and develop certification and quality assurances
                                 systems such as the ISO 9001 certification gained by SCHOTT last year. With a view
                                 to our products being used in diagnostics, for example, we worked hard to ensure that
                                 the CVs for our MTP-96 product were well below 10%, a figure that has impressed
                                 several customers in the diagnostic field.
Microarray Solutions                                                                                                       page 4



    SCHOTT Partners with Sartorius Stedim Biotech to Develop New Range of
            Nitrocellulose Coated data / images Protein Microarrays
                         •    Insert Slides for



                                           Building on its position as the leading supplier of glass substrates for
                                           DNA microarrays, SCHOTT is pleased to announce the launch of a new
                                           range of nitrocellulose slides as part of its ongoing commitment to
                                           providing high quality slide surfaces for protein microarrays. SCHOTT
                                           has partnered with Sartorius Stedim Biotech to develop the new
                                           Nexterion® Slide NC range, and will officially launch the product at the
                                           Discovery to Diagnostics (D2D) conference in Philadelphia, on 17 – 19
                                           September 2007.


                                           Protein Microarray Market
                                           Protein microarray technology provides a robust way to study protein function in a
                                           rapid, economical, and system-wide fashion. The protein microarray market is growing
Fig. 1:                                    rapidly as a result of the increased understanding of the involvement of proteins in
SCHOTT Nexterion® Slide NC-W and           disease, and their use as diagnostic markers. Consequently, there is considerable
                     ®
SCHOTT Nexterion Slide NC-D                commercial and academic interest in developing protein microarrays for diagnostic
White and dark grey single pad             applications and there has been a significant increase in demand for suitable glass
nitrocellulose slide
                                           substrates over the past 18 months. However, many protein microarray applications
                                           (see figure 2), such as ELISA format assays and reverse phase (micro-Western) arrays
                                           using cell or tissue lysates, are difficult to perform on conventional two-dimensional
                                           coated slides, for example Epoxy- or Amino-silane.


                                           SCHOTT Substrates for Protein Microarrays
Fig. 2:
Typical application for Nitrocellulose     SCHOTT launched its first dedicated slide surface for protein microarrays in 2004 with
slides:                                    the introduction of Nexterion® Slide H. This permeable, three dimensional thin film
                                           coating preserves the native three-dimensional structure of proteins, thereby
•    ELISA format (sandwich assay)         maintaining protein stability and functionality, and SCHOTT believed that the
     experiments using antibody arrays     exceptionally low non-specific binding made possible by this slide surface would make
•    Reverse phase (micro-Western)         it a very attractive alternative to nitrocellulose slides. In addition to Nexterion® Slide H,
     arrays using cell or tissue lysates   SCHOTT customers have also been successful in using standard two-dimensional
•    Purified protein arrays               slide surfaces, such as Epoxy, Aldehyde or Aminosilane for antibody and peptide
•    Carbohydrate arrays                   arrays.
•    Lipids                                While these slide surfaces have been successfully used for certain protein array
•    Glycoproteins such as Lectins         applications, the slide surface of choice for many protein applications is undoubtedly
                                           nitrocellulose. Nitrocellulose membranes have proven to be a reproducible substrate
                                           for protein detection for decades, with applications ranging from Western Blots to
                                           diagnostic tests. After extensive market research SCHOTT decided the time was right
                                                                                                                ®
                                           to add a range of high quality nitrocellulose slides to the Nexterion slide portfolio.


Alistair Rees, Product Manager at          Partnership with Sartorius Stedim Biotech
SCHOTT Microarray Solutions
commented:                                 When SCHOTT decided to launch a range of nitrocellulose slides, it was agreed that
                                           the fastest way to market would be to partner with a company with extensive expertise
“The Nexterion® Slide NC range was         in Nitrocellulose manufacturing. Sartorius Stedim Biotech quickly emerged as a leading
developed in response to customers         candidate for such a partnership thanks to over seventy years experience in
approaching SCHOTT looking for a           nitrocellulose production and its significant expertise in membrane production for
high quality alternative to the            diagnostic applications, such as lateral flow diagnostic tests. SCHOTT believed that
nitrocellulose slides currently on the     this kind of technical expertise would prove invaluable, particularly as microarray slides
market. We are confident that this         move into the demanding diagnostic arena.
product range will have a real impact
in the market”.
                                           Product Development
                                           The performance of nitrocellulose-coated slides is strongly dependent on the internal
                                           membrane structure as well as surface quality and SCHOTT and Sartorius Stedim
                                           Biotech focused heavily on combining competencies to address this issue. The
                                                    ®
                                           Nexterion NC slides use a nitrocellulose coating developed by Sartorius Stedim
                                           Biotech specifically for protein microarray applications and this is applied to high quality
                                                    ®
                                           Nexterion glass substrates. The three-dimensional structure and pore size has been
Microarray Solutions                                                                                                            page 5



                                               optimized to offer a high binding affinity for proteins and to better stabilize their active
                                               conformation. The slide membranes are also manufactured using a newly developed
                                               casting process, where solvents evaporate from a mix of different cellulose nitrate
                                               polymers and additives to form the unique micro-porous structure. The thickness and
                                               physical characteristics of the coating are tightly controlled during manufacture and
                                               this, together with a sophisticated surface finishing process, enables us to produce
                                               slides with exceptional reproducibility. With many nitrocellulose slide users feeling
                                               disillusioned with their current nitrocellulose slide suppliers, typically complaining of
                                               poor product reproducibility and consistency and long lead times, SCHOTT is now able
                                               to fill this void by offering a new range of nitrocellulose slides demonstrating
                                               outstanding consistency and performance.


                                               Innovative Dark Grey Membrane
Fig. 3:
The new SCHOTT Nitrocellulose slides           In addition to the standard white nitrocellulose surface typically used for protein
have significantly lower background signals    microarray applications, SCHOTT can now offer an innovative dark grey membrane
than the market leading slide                  slide (see figure 1). This newly developed surface offers a very low, and homogenous
                                               auto-fluorescence to achieve a significantly improved dynamic range. Conventional
                                               white nitrocellulose films scatter and reflect large amounts of excitation and emission
                                               light, leading to high background fluorescence. To overcome this problem, Sartorius
                                               Stedim Biotech has developed a new process to generate grey membranes which
                                               absorb the scattered light, significantly reducing the background auto-fluorescence
                                               thus offering a very low and homogenous auto-fluorescence to achieve a significantly
                                               improved dynamic range (see figure 3).


                                               Product Range
                                               SCHOTT will initially offer Nexterion® Slide NC (Nitrocellulose) slides in two formats,
                                               single pad and 16-pad slides. The pad dimensions and locations conform to the
                                               industry standard, with the well spacing of the 16 array pads making the NC-W/D slide
                                               fully compatible with standard microarray printing instruments (see figure 4). Both
                                               these formats will be available with either dark grey or white Nitrocellulose pads
                                               (Ordering details are shown in the table below).


                                               Outlook
                                               SCHOTT will consult closely with the market over the next few months with a view to
                                               developing the next generation of Nexterion® Slide NC products. In line with our
                                               commitment to offer customers solutions for high throughput microarraying, this might
                                               include a 96-pad Nitrocellulose SBS microplate format or other slide formats such as 2-
                                               pad or a barcoded 14-pad slide.
Fig. 4:
                       ®                       By adding the Nexterion® Slide NC range to our product portfolio, SCHOTT is now able
Dimensions of Nexterion Slide NC
                                               to offer the most diverse range of high quality glass substrates for DNA and protein
                                               microarraying. It also demonstrates our commitment to developing new and innovative
                                               slide surfaces for protein microarray applications, complementing the already widely
                                               used Nexterion® Slide H and traditional two-dimensional slide surfaces.




     Item                                     Color of nitrocellulose      Number Size of            Code Quantity            Material
                                                                           of pads  pads              128   per pack          number
                                                                             per    [mm]             label
                                                                            slide                   Barcode
              ®
  Nexterion Slide NC-W                                White                   1    21 x 51            Yes      20             1178057
  Nexterion® Slide NC-D                              Dark grey                1    21 x 51            Yes      20             1178058
           ®
  Nexterion Slide NC-W 16                             White                   16    6x6               No       10             1178059
           ®
  Nexterion Slide NC-D 16                            Dark grey                16    6x6               No       10             1178060

                                                                                                            ®
                                               5-slide evaluation packs of all slides in the Nexterion Slide NC range will soon
                                               be available. Please contact your local Nexterion® sales representative or
                                               distributor for further information.
Microarray Solutions                                                                                                           page 6



  Did you know that SCHOTT can offer Glass Substrates in Custom Formats,
                         or as an OEM Product?
                                                The manufacture of special technical glasses is one of the SCHOTT group’s core
                                                competencies. SCHOTT produces an extremely wide range of technical glasses,
                                                including borosilicate type, optical, and fused silica. In addition, SCHOTT has
                                                extensive experience in high technology glass processing methods. SCHOTT
                                                Microarray Solutions is able to take full advantages of SCHOTT’s entire product
                                                range and facilities to offer customers in the life science market substrates in
                                                custom formats or OEM products tailor-made for specific applications. The
                                                customization may range from simply supplying a unique barcode sequence on
                                                                    ®
                                                standard Nexterion slides, to a custom coated substrate for a microfluidic chip
                                                application.

                                                Glass Types and Formats
                                                The SCHOTT group produces several hundred different types of glass. Typical glasses
                                                used in life science products include, BOROFLOAT® 33, D263T, BK7, B270, and fused
                                                silica wafers. The format of these substrates tends to be standardized around SBS
                                                microplate, microscope slide, or coverslip formats, presumably as a result of
                                                standardized laboratory hardware. SCHOTT can offer these standard formats, as well
                                                as other sizes in rectangular, square or circular shapes. The range of glass
                                                thicknesses available is very wide, ranging from 0.03 up to 25.4 mm (depending on the
Examples of custom products include:
                                                glass type). Substrates may be laser cut into the final size, or partially diced to allow
 •   Glass bottomed microplates
                                                the separation of individual components at a later time.
 •   Glass plates for gel electrophoresis
 •   Microfluidic chip substrates               Further Glass Processing
 •   Coated coverslips for DNA analysis,        Along with the more traditional glass processing methods, such as cutting, grinding,
     sequencing or gene expression              polishing and water jet cutting. SCHOTT has invested heavily in new technologies,
 •   Optical coated substrates for label free   such as ultrasonically enhanced drilling for high precision circular holes (400•m up to
     detection systems                          3 mm). SCHOTT also has sand blasting capabilities, allowing us to create round and
 •   Conductive Maldi substrates                rectangular holes, caverns and channels in the glass ranging from 30•m up to 1.5 mm.
 •   SPR biosensors
 •   Small microarray substrates for use in     Custom Coatings
     microfuge tubes                            Applying thin-film coatings to glass is another SCHOTT core competence. Production
                                                takes place in a class 100 clean room environment at the SCHOTT Microarray
                                                Solutions facility in Jena, Germany. Our quality control system also conforms to the
                                                ISO 9001-2000 standard, guaranteeing extremely high quality standards for surface
                                                finish, flatness, parallelism and absence of surface defects. The coating technologies
                                                available include dip coating, chemical vapour deposition (CVD), sputter, solvent based
                                                reactor method, and spin-coating. Any of the standard microarray slide format
                                                            ®
                                                Nexterion functional coatings can be applied to just about any custom format.
                                                SCHOTT Microarray Solutions is also able to coat glass with coating chemistries
                                                developed by third parties, allowing you the opportunity to outsource this function to
                                                SCHOTT.
                                                Over the past 12 months, SCHOTT has received an increasing number of enquiries
                                                about inorganic coatings on glass, such as gold and other metallic coatings. These
                                                can be used as conductive MALDI substrates, or for surface plasmon resonance (SPR)
                                                biosensors. SCHOTT’s long-standing reputation for excellence in optics has lead to the
                                                development of optical and reflective multi-layer dielectric coatings optimised for
                                                enhancement of signals from the fluorescent dyes typically used in life science
                                                                                    ®
                                                research (for example Nexterion HiSens). SCHOTT has also been building up
                                                expertise in the area of nanoparticle technology, working with customers and our
                                                corporate R&D facility in Mainz, Germany to develop the next generation of glass
                                                substrates.

                                                Logos, Fudicial Marks, and Barcodes
                                                Finally, SCHOTT can offer customers the opportunity to customise their slides and
                                                substrates with graphics, logos, company names, barcodes or 2-D barcodes. These
 Please contact us to find out how              markings may be added at any location on or within the glass surface, and may feature
   we can help you to develop a                 a combination of items, for example a logo with a barcode. SCHOTT can offer a
  custom product tailored to your               number of methods for marking the glass substrates. The laser bonded foil method
      specific requirements!                    produces robust surface markings in black and other colours. A method of printing with
                                                hydrophobic ink can be used to produce graphics, logos, as well as multi-well patterns.
                                                The Laser ablation process produces marks on the surface of the glass. A four
                                                method, called laser-induced internal marking, introduces markings by the creation of
                                                micro cavities within the glass. Markings applied by any of these four methods are
                                                robust enough to withstand standard hybridisation and washing procedures.
Microarray Solutions                                                                                                       page 7



    Technical Support in Focus – University of Ljubljana and the use of the
                    SCHOTT Nexterion® 70mer Oligo Kit

          ®
Nexterion 70-mer Oligo Arraying Kit         “Microarray Solutions” looks back on an interesting technical support
                                            troubleshooting case addressed by Dr. Ruediger Dietrich with the University of
In 2005, SCHOTT Microarray Solutions        Ljubljana in Slovenia earlier this year. Vid Mlakar, a long-term user of SCHOTT’s
                                                      ®                                                          ®
and OPERON Biotechnologies pooled           Nexterion Slide E epoxysilane coated substrate in the Nexterion 70mer oligo
together their technical expertise in the   kit, contacted Ruediger for advice with a new project where he intended to
microarray field to develop a complete      produce an array with 13600 spots on one slide. His project was to look for
kit-based solution for high quality self-
                                            cancer and apoptosis marker gene expression for medical diagnosis. For Mr.
spotted microarrays, comprising of
oligonucleotide      sets,      optimized   Mlakar, this would be a higher density array than he had worked on in the past
microarray slides and reagents.             and consequently a number of issues came to the fore, including printing buffer
                                            selection and the consequent effect on spot size and evaporation, spot
The     70mer     Oligo   Arraying Kit      morphology and the number of pre-spots required if working with a viscous
components cover the most important         printing buffer.
steps of the microarray process chain:
spotting, blocking, hybridization and       Print Buffer Selection – How to Control Evaporation Over Long Printing Runs
washing.       All the reagents were
                                            The Nexterion® 70-mer Oligo Arraying Kit from SCHOTT provides the user with
optimized for the use of OPERON 70mer
probes (although the kit can also be        printing, blocking and hybridization solutions that have been optimized for Nexterion®
used with oligo probe sets from other       Slide E. Mr. Mlakar purchased such a kit from SCHOTT and, in close consultation with
manufacturers).                             the company, began an evaluation using the standard 70-mer kit low evaporation
                                            spotting buffer, Nexterion® Spot LE. The customer’s print run was expected to last
                                            several days and therefore a low evaporation printing buffer, which keeps the
                                            concentration of the oligos more or less constant, appeared to be the perfect solution.
University of Ljubljana Set-Up              Ruediger Dietrich advised the customer on optimal printing conditions, recommending
                                            a printing humidity of 60 - 65% to help reduce evaporation without having a detrimental
                             ®
Slide Surface: Nexterion Slide              effect on the slide surface. Vid Mlakar found 60% to be optimal and reported back to
E(poxysilane)                               SCHOTT that he was very happy with low evaporation properties offered by Nexterion®
                                 ®
Printing Buffer: Nexterion Spot LE          Spot LE, but did express some concern with spot sizes using Micropot 10K split pins.

Probe: Operon 70mer                         Print Buffer Selection – How to Obtain the Desired Spot Size
oligonucleotides                            The customer was looking to obtain smaller spot sizes than he had initially obtained
Immobilization Protocol: SCHOTT             with Nexterion® Spot LE, as he was unable to achieve the density he required for his
70mer oligo arraying kit protocol           application (Spot LE is a low evaporation spotting buffer containing a fixed amount of
                                            detergent which meets the needs of most customers). Mr. Mlakar consulted with
Arrayer: GS MicroGrid                       SCHOTT to address this issue and Ruediger decided to send him a Nexterion® LEB
Pin Type: Microspot 10K split pin           Kit. This kit was designed to accommodate the needs of customers that require specific
                                                                                        ®
                                            spot sizes and comprises the Nexterion Spot LE printing buffer, plus a detergent
Printing Conditions: 60% RH                 solution that allows the customer – guided by additional information about the
Hyb Protocol: Tecan optimized               correlation of the detergent concentration to the spots size in a worksheet - to add the
protocol provided by SCHOTT                 appropriate detergent concentration to Spot LE to obtain the desired spot size. Vid
                                            Mlakar was able to quickly establish the appropriate detergent concentration for his
Hyb Station: Tecan HS480                    high density array, achieving a spot size of 60 – 70µm. When scanning at 4 µm
Scanner: Tecan LS200                        resolution with his Tecan scanner, he was now able to see 80-100 data points, which
                                            he felt was sufficient for reliable data analysis. He was now in a position where he felt
Software: ArrayPro                          very confident using the Nexterion® 70-mer Oligo Arraying Kit for his new application.

                                            Selecting Optimal Hybridization Conditions with the Tecan Hyb Station
                                            Now that the printing issues on Nexterion® Slide E had been addressed to the
 “I would like to inform you that we        customer’s satisfaction, Mr. Mlakar expressed an interest in working with SCHOTT to
 successfully printed 162 arrays with       ascertain the optimal hybridization conditions for his application. He uses an automated
 your chemistry. We have also               hybridization system from Tecan, which enables him to standardize this process, but
 performed a successful hybridization       the original Slide E protocol only included instructions for customers performing manual
 with these slides using the Tecan          hybridizations. In order to benefit from using the hyb station, Mr. Mlakar was interested
 HS400 hybridization station and the        in finding out more information from SCHOTT on buffers, incubation times, flow rates
 protocol that you provided…So thanks
                                            etc., which would enable him to obtain the same, or even better, results than he had
 again for all the help you provided I am
 now very happy with the arrays.”
                                            previously seen with his lower density arrays. Fortunately SCHOTT had already
                                            developed a modified version of the standard protocol for the use of hyb stations and
 Vid Mlakar,      the   University    of    this protocol worked extremely well in Vid Mlakar’s hands. He was able to consistently
 Ljubljana                                  obtain low background and see a nice distinction between spots and background.

                                            Conclusion
                                            The University of Ljubljana is a good example of a successful technical support
                                            collaboration with a customer. Although it is very difficult to solve all customer
                                            troubleshooting issues in this manner, SCHOTT has been able to support many
                                            customers over the years, thanks to its strong commitment to offering full-time
Microarray Solutions                                                                                                   page 8


                                                                           ®
                                          technical support to all Nexterion slide users. We now have a wealth of knowledge
                                          and experience, both from work that has been carried out in-house and from our
                                          interactions with customers willing to share their experiences and know-how. SCHOTT
  For your enquiries please contact       customers should therefore feel free to contact SCHOTT either before, during or after
            Jami Lomax                                                       ®
                                          their experiments with Nexterion slides knowing that they will get an immediate
    (jami.lomax@us.schott.com)
                                          response (typically the same day, or worst case within 2 business days). Whether it be
                                          protocol optimization, troubleshooting or any other technical issue, SCHOTT
                                          Microarray Solutions is here to support you and ensure that you are able to obtain
                                          optimal performance from our microarray slides and accessories.




                                      SCHOTT Microarray Solutions News
                                          Increase in Nexterion® Slide E Batch Sizes
                                          Despite the extremely low batch-to-batch variation observed with SCHOTT slides,
                                          some customers prefer to purchase all their slides for a specific project or print run
                                          from a single production batch. We are pleased to announce that we have successfully
                                          implemented an upgrade in the Nexterion® Slide E production process. The upgrade
                                                                                                      ®
                                          will allow us to provide customer with up to 4,000 Nexterion Slide E slides from one
                                          coating batch. Please contact SCHOTT for further details.
                                                           ®
                                          New Nexterion Slide H 25-slide Mailer Boxes
                                          SCHOTT is pleased to announce that Nexterion® Slide H will now be supplied to
     Fig.: 5                              customers in new 25-slide mailer boxes (see figure 5). These boxes replace the 5 x 5-
              ®
     Nexterion Slide H in 25 slide box    slide mailer boxes previously used. This change will greatly reduce the slide, and box
                                          handling required during the setting up of large print runs.




                           Conference and Exhibition Calendar 2007/08


Event                      Location                 Date                    Weblink
Discovery-2-               Philadelphia, PA /       September 17 - 19,      www.ibclifesciences.com/D3176/6097.xml
Diagnostics                USA                      2007
ASHG Annual meeting        San Diego, CA / USA      October 23 - 27, 2007 www.genetics.faseb.org/genetics/ashg/menu-
                                                                          annmeet.shtml
LabAutomation              Palm Springs, CA /       January 27-29, 2008     www.labautomation.org/LA08/
                           USA
Statusseminar              Frankfurt / Germany      January 31 -            www.events.dechema.de/events/Tagungen/
Chiptechnologie 2008                                February 1, 2008        Statusseminar+Chiptechnologien.html
ISAFG 2008                 Edinburgh/UK             April 7 – 9, 2008       www.ark-genomics.org/ISAFG/
Advances in Microarray Barcelona/Spain              May 7 - 8, 2008
Technology


                                          If you are interested in presentations given by SCHOTT at past conferences please
                                          contact us (coatedsubstrates@us.schott.com).

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Microarray Solutions newsletter #3

  • 1. Microarray Solutions The Nexterion® Newsletter Edition # 3 / September 2007 SCHOTT LAUNCHES A NEW RANGE OF NITROCELLULOSE SLIDES, NEXTERION® SLIDE NC, IN PARTNERSHIP WITH SARTORIUS STEDIM BIOTECH …read more on pages 4-5 Also featured this edition: page 3 INTERVIEW WITH DR. RUEDIGER DIETRICH Microarray Solutions talks to SCHOTT’s Director of R&D and Tech Support page 6 CUSTOMIZED AND OEM PRODUCTS FROM SCHOTT Looking for a supplier of gold coated substrates? Interested in having a company logo on your microarray slides? Microarray Solutions outlines ® some of the custom products and features now available in the Nexterion product range. page 7 TECHNICAL SUPPORT IN FOCUS – THE UNIVERSITY OF LJUBLJANA page 8 LATEST NEWS FROM SCHOTT Microarray Solutions SCHOTT North America Inc. 5530 Shepherdsville Road Louisville, KY 40228 USA Phone: +1- 502-657-4417 Fax: +1- 502-966-4976 E-Mail: coatedsubstrate@us.schott.com www.us.schott.com/nexterion
  • 2. Microarray Solutions page 2 General Manager Talk Dear Reader, Welcome to the latest edition of the “Microarray Solutions” newsletter, my first as General Manager of the Microarray Solutions business at SCHOTT. You may recall my name from a previous edition of the newsletter, in my capacity as Production Manager. I recently took over the role of General Manager from Dr. Lutz Wehmeier, who has been promoted to General Marketing & Sales Manager for SCHOTT Borofloat & Aerospace. I very much look forward to being a part of the hugely successful “Microarray Solutions” publication, as we continue to provide our readers with the latest information on developments at SCHOTT Microarray Solutions and highlight some of the interesting applications being developed by our customers. Since the last edition of the newsletter, we have been working hard behind the scenes to develop new, innovative products to further strengthen our position as the leading supplier of microarray slides and accessories for DNA and protein microarrays. This ® edition of “Microarray Solutions” will focus on SCHOTT’s new range of Nexterion Slide NC nitrocellulose slides, as we continue to expand our range of slide surfaces ® Christian Jabschinsky dedicated to protein microarraying. Nexterion Slide NC (nitrocellulose) was developed General Manager in conjunction with Sartorius Stedim Biotech and the partnership has allowed SCHOTT Nexterion – Microarray Solutions to rapidly introduce a high quality nitrocellulose slide to the market, complementing our range of already well established substrates for protein microarrays. The article on pages 4 and 5 expands on our relationship with Sartorius Stedim and provides details of the nitrocellulose product range that we will offer from September 2007. We are very confident that this will become a hugely popular product in the SCHOTT portfolio, and we look forward to a long and successful partnership with Sartorius Stedim Biotech. Other highlights from this edition of the newsletter include; an interview with SCHOTT Microarray Solutions’ Director of Research & Development, information about our customized products, and an interesting story about how our technical customer support was able to assist a customer at the University of Ljubljana. I hope that you enjoy reading this edition of “Microarray Solutions”, and thank you for choosing SCHOTT as your preferred microarray substrate supplier. Regards, Christian Jabschinsky General Manager – SCHOTT Microarray Solutions
  • 3. Microarray Solutions page 3 SCHOTT Profile – Dr. Ruediger Dietrich – Director of R&D and Technical Support at Microarray Solutions MS: What are your responsibilities as Director of R&D at Microarray Solutions? RD: The R&D Group at Microarray Solutions has three key responsibilities; provide support to current and potential SCHOTT customers, identify and research new market trends, and develop new products in collaboration with the marketing department. Being successful with these three tasks requires close consultation and cooperation with both the SCHOTT Sales Managers and Technical Support Specialists, who deal directly with customers, and operate in the market on a daily basis. This allows my R&D group to obtain feedback from the market very quickly. In addition to focusing on customers and the market, it is also my responsibility to manage the R&D group and create an exciting, challenging and innovative atmosphere to ensure that the group enjoy their work and are motivated to produce the best possible results. MS: What are the key projects you and your team have been working on in 2006? RD: In R&D we continue to work on improving the sensitivity, reproducibility and overall quality of our substrates and there were several projects in 2006 that reflected this ® philosophy. There were two new product launches in 2006, Nexterion HiSens substrates and Nexterion® MTP-96. The HiSens optical interference coating was something we have worked on for some time, and we were really pleased by how well it was received in the market. The MTP-96 microplate was really an extension of SCHOTT’s desire to offer solutions for higher throughput microarraying and our microtiterplate system was developed in conjunction with one of our key customers in the U.S. Developing substrates suitable for protein microarraying was identified as a key goal for R&D in 2006, and this resulted in the co-development of a new nitrocellulose slide with Sartorius Stedim Biotech. We also continue to work behind the scenes to improve our current portfolio of microarray substrates e.g. increase batch sizes (for further details see the news section), develop improved QC methods, improved packaging etc. Developing accessories that will help users to obtain optimal results with our slides, such as the new low evaporation buffers, the 70mer oligo microarraying kit and new and improved protocols is another important area of focus for my group. Dr. Ruediger Dietrich joined MS: And what kind of projects will you be working on in 2007/08? SCHOTT as Director of R&D RD: We will continue to focus on developing new protein array surfaces, and optimized around 2 years ago, after reagents, to ensure that SCHOTT is a leading player in supplying substrates for as previously having worked in many protein array applications as possible. Resources will also be allocated to academia at the Institute of developing optimized protocols and kits, and possibly new slide surfaces, for Array Molecular Biotechnology in CGH as this has been identified as an increasingly popular application among our Jena, and the Max Planck customers. SCHOTT R&D has also received a number of requests for customized Institute for Biophysics in products in recent months, and we will continue to dedicate resources to this, in Göttingen. addition to several other projects that at this stage have to remain confidential! MS: From an R&D standpoint, what are the main challenges facing SCHOTT at Microarray Solutions asks present? What is SCHOTT doing in response to these challenges? Ruediger about the work of his RD: I would not say that there are any specific challenges that we have to confront R&D team over the past year right now. We obviously have to continue to work hard to support our customers as and sheds light on his R&D much as possible, and develop new and innovative products that will help SCHOTT goals for the future… become the number one microarray substrate supplier. As with most R&D departments, we have a wealth of ideas and projects to work on to ensure that we can maintain our edge over the competition. MS: What are the key trends you have noticed in the microarray world since you joined SCHOTT? How has SCHOTT R&D responded to these trends? RD: The microarray world seems to be constantly evolving with many customers starting to focus on new applications such as miRNA arrays, aCGH, glycan arrays and demanding more from substrate suppliers, both in terms of consistency and new surfaces to offer superior performance. Examples of this include gold coatings for SPR detection technology, optical interference coatings for increased sensitivity and substrates with defined wells that allow analysis of several target samples simultaneously, both in slide and microtiterplate format, for higher throughput microarraying. It has also been noticeable from interaction with our customers that microarrays are moving closer to becoming accepted as a diagnostic tool, with some products already having received FDA or other regulatory approval. This means that we have to strive to offer the highest quality substrates and develop certification and quality assurances systems such as the ISO 9001 certification gained by SCHOTT last year. With a view to our products being used in diagnostics, for example, we worked hard to ensure that the CVs for our MTP-96 product were well below 10%, a figure that has impressed several customers in the diagnostic field.
  • 4. Microarray Solutions page 4 SCHOTT Partners with Sartorius Stedim Biotech to Develop New Range of Nitrocellulose Coated data / images Protein Microarrays • Insert Slides for Building on its position as the leading supplier of glass substrates for DNA microarrays, SCHOTT is pleased to announce the launch of a new range of nitrocellulose slides as part of its ongoing commitment to providing high quality slide surfaces for protein microarrays. SCHOTT has partnered with Sartorius Stedim Biotech to develop the new Nexterion® Slide NC range, and will officially launch the product at the Discovery to Diagnostics (D2D) conference in Philadelphia, on 17 – 19 September 2007. Protein Microarray Market Protein microarray technology provides a robust way to study protein function in a rapid, economical, and system-wide fashion. The protein microarray market is growing Fig. 1: rapidly as a result of the increased understanding of the involvement of proteins in SCHOTT Nexterion® Slide NC-W and disease, and their use as diagnostic markers. Consequently, there is considerable ® SCHOTT Nexterion Slide NC-D commercial and academic interest in developing protein microarrays for diagnostic White and dark grey single pad applications and there has been a significant increase in demand for suitable glass nitrocellulose slide substrates over the past 18 months. However, many protein microarray applications (see figure 2), such as ELISA format assays and reverse phase (micro-Western) arrays using cell or tissue lysates, are difficult to perform on conventional two-dimensional coated slides, for example Epoxy- or Amino-silane. SCHOTT Substrates for Protein Microarrays Fig. 2: Typical application for Nitrocellulose SCHOTT launched its first dedicated slide surface for protein microarrays in 2004 with slides: the introduction of Nexterion® Slide H. This permeable, three dimensional thin film coating preserves the native three-dimensional structure of proteins, thereby • ELISA format (sandwich assay) maintaining protein stability and functionality, and SCHOTT believed that the experiments using antibody arrays exceptionally low non-specific binding made possible by this slide surface would make • Reverse phase (micro-Western) it a very attractive alternative to nitrocellulose slides. In addition to Nexterion® Slide H, arrays using cell or tissue lysates SCHOTT customers have also been successful in using standard two-dimensional • Purified protein arrays slide surfaces, such as Epoxy, Aldehyde or Aminosilane for antibody and peptide • Carbohydrate arrays arrays. • Lipids While these slide surfaces have been successfully used for certain protein array • Glycoproteins such as Lectins applications, the slide surface of choice for many protein applications is undoubtedly nitrocellulose. Nitrocellulose membranes have proven to be a reproducible substrate for protein detection for decades, with applications ranging from Western Blots to diagnostic tests. After extensive market research SCHOTT decided the time was right ® to add a range of high quality nitrocellulose slides to the Nexterion slide portfolio. Alistair Rees, Product Manager at Partnership with Sartorius Stedim Biotech SCHOTT Microarray Solutions commented: When SCHOTT decided to launch a range of nitrocellulose slides, it was agreed that the fastest way to market would be to partner with a company with extensive expertise “The Nexterion® Slide NC range was in Nitrocellulose manufacturing. Sartorius Stedim Biotech quickly emerged as a leading developed in response to customers candidate for such a partnership thanks to over seventy years experience in approaching SCHOTT looking for a nitrocellulose production and its significant expertise in membrane production for high quality alternative to the diagnostic applications, such as lateral flow diagnostic tests. SCHOTT believed that nitrocellulose slides currently on the this kind of technical expertise would prove invaluable, particularly as microarray slides market. We are confident that this move into the demanding diagnostic arena. product range will have a real impact in the market”. Product Development The performance of nitrocellulose-coated slides is strongly dependent on the internal membrane structure as well as surface quality and SCHOTT and Sartorius Stedim Biotech focused heavily on combining competencies to address this issue. The ® Nexterion NC slides use a nitrocellulose coating developed by Sartorius Stedim Biotech specifically for protein microarray applications and this is applied to high quality ® Nexterion glass substrates. The three-dimensional structure and pore size has been
  • 5. Microarray Solutions page 5 optimized to offer a high binding affinity for proteins and to better stabilize their active conformation. The slide membranes are also manufactured using a newly developed casting process, where solvents evaporate from a mix of different cellulose nitrate polymers and additives to form the unique micro-porous structure. The thickness and physical characteristics of the coating are tightly controlled during manufacture and this, together with a sophisticated surface finishing process, enables us to produce slides with exceptional reproducibility. With many nitrocellulose slide users feeling disillusioned with their current nitrocellulose slide suppliers, typically complaining of poor product reproducibility and consistency and long lead times, SCHOTT is now able to fill this void by offering a new range of nitrocellulose slides demonstrating outstanding consistency and performance. Innovative Dark Grey Membrane Fig. 3: The new SCHOTT Nitrocellulose slides In addition to the standard white nitrocellulose surface typically used for protein have significantly lower background signals microarray applications, SCHOTT can now offer an innovative dark grey membrane than the market leading slide slide (see figure 1). This newly developed surface offers a very low, and homogenous auto-fluorescence to achieve a significantly improved dynamic range. Conventional white nitrocellulose films scatter and reflect large amounts of excitation and emission light, leading to high background fluorescence. To overcome this problem, Sartorius Stedim Biotech has developed a new process to generate grey membranes which absorb the scattered light, significantly reducing the background auto-fluorescence thus offering a very low and homogenous auto-fluorescence to achieve a significantly improved dynamic range (see figure 3). Product Range SCHOTT will initially offer Nexterion® Slide NC (Nitrocellulose) slides in two formats, single pad and 16-pad slides. The pad dimensions and locations conform to the industry standard, with the well spacing of the 16 array pads making the NC-W/D slide fully compatible with standard microarray printing instruments (see figure 4). Both these formats will be available with either dark grey or white Nitrocellulose pads (Ordering details are shown in the table below). Outlook SCHOTT will consult closely with the market over the next few months with a view to developing the next generation of Nexterion® Slide NC products. In line with our commitment to offer customers solutions for high throughput microarraying, this might include a 96-pad Nitrocellulose SBS microplate format or other slide formats such as 2- pad or a barcoded 14-pad slide. Fig. 4: ® By adding the Nexterion® Slide NC range to our product portfolio, SCHOTT is now able Dimensions of Nexterion Slide NC to offer the most diverse range of high quality glass substrates for DNA and protein microarraying. It also demonstrates our commitment to developing new and innovative slide surfaces for protein microarray applications, complementing the already widely used Nexterion® Slide H and traditional two-dimensional slide surfaces. Item Color of nitrocellulose Number Size of Code Quantity Material of pads pads 128 per pack number per [mm] label slide Barcode ® Nexterion Slide NC-W White 1 21 x 51 Yes 20 1178057 Nexterion® Slide NC-D Dark grey 1 21 x 51 Yes 20 1178058 ® Nexterion Slide NC-W 16 White 16 6x6 No 10 1178059 ® Nexterion Slide NC-D 16 Dark grey 16 6x6 No 10 1178060 ® 5-slide evaluation packs of all slides in the Nexterion Slide NC range will soon be available. Please contact your local Nexterion® sales representative or distributor for further information.
  • 6. Microarray Solutions page 6 Did you know that SCHOTT can offer Glass Substrates in Custom Formats, or as an OEM Product? The manufacture of special technical glasses is one of the SCHOTT group’s core competencies. SCHOTT produces an extremely wide range of technical glasses, including borosilicate type, optical, and fused silica. In addition, SCHOTT has extensive experience in high technology glass processing methods. SCHOTT Microarray Solutions is able to take full advantages of SCHOTT’s entire product range and facilities to offer customers in the life science market substrates in custom formats or OEM products tailor-made for specific applications. The customization may range from simply supplying a unique barcode sequence on ® standard Nexterion slides, to a custom coated substrate for a microfluidic chip application. Glass Types and Formats The SCHOTT group produces several hundred different types of glass. Typical glasses used in life science products include, BOROFLOAT® 33, D263T, BK7, B270, and fused silica wafers. The format of these substrates tends to be standardized around SBS microplate, microscope slide, or coverslip formats, presumably as a result of standardized laboratory hardware. SCHOTT can offer these standard formats, as well as other sizes in rectangular, square or circular shapes. The range of glass thicknesses available is very wide, ranging from 0.03 up to 25.4 mm (depending on the Examples of custom products include: glass type). Substrates may be laser cut into the final size, or partially diced to allow • Glass bottomed microplates the separation of individual components at a later time. • Glass plates for gel electrophoresis • Microfluidic chip substrates Further Glass Processing • Coated coverslips for DNA analysis, Along with the more traditional glass processing methods, such as cutting, grinding, sequencing or gene expression polishing and water jet cutting. SCHOTT has invested heavily in new technologies, • Optical coated substrates for label free such as ultrasonically enhanced drilling for high precision circular holes (400•m up to detection systems 3 mm). SCHOTT also has sand blasting capabilities, allowing us to create round and • Conductive Maldi substrates rectangular holes, caverns and channels in the glass ranging from 30•m up to 1.5 mm. • SPR biosensors • Small microarray substrates for use in Custom Coatings microfuge tubes Applying thin-film coatings to glass is another SCHOTT core competence. Production takes place in a class 100 clean room environment at the SCHOTT Microarray Solutions facility in Jena, Germany. Our quality control system also conforms to the ISO 9001-2000 standard, guaranteeing extremely high quality standards for surface finish, flatness, parallelism and absence of surface defects. The coating technologies available include dip coating, chemical vapour deposition (CVD), sputter, solvent based reactor method, and spin-coating. Any of the standard microarray slide format ® Nexterion functional coatings can be applied to just about any custom format. SCHOTT Microarray Solutions is also able to coat glass with coating chemistries developed by third parties, allowing you the opportunity to outsource this function to SCHOTT. Over the past 12 months, SCHOTT has received an increasing number of enquiries about inorganic coatings on glass, such as gold and other metallic coatings. These can be used as conductive MALDI substrates, or for surface plasmon resonance (SPR) biosensors. SCHOTT’s long-standing reputation for excellence in optics has lead to the development of optical and reflective multi-layer dielectric coatings optimised for enhancement of signals from the fluorescent dyes typically used in life science ® research (for example Nexterion HiSens). SCHOTT has also been building up expertise in the area of nanoparticle technology, working with customers and our corporate R&D facility in Mainz, Germany to develop the next generation of glass substrates. Logos, Fudicial Marks, and Barcodes Finally, SCHOTT can offer customers the opportunity to customise their slides and substrates with graphics, logos, company names, barcodes or 2-D barcodes. These Please contact us to find out how markings may be added at any location on or within the glass surface, and may feature we can help you to develop a a combination of items, for example a logo with a barcode. SCHOTT can offer a custom product tailored to your number of methods for marking the glass substrates. The laser bonded foil method specific requirements! produces robust surface markings in black and other colours. A method of printing with hydrophobic ink can be used to produce graphics, logos, as well as multi-well patterns. The Laser ablation process produces marks on the surface of the glass. A four method, called laser-induced internal marking, introduces markings by the creation of micro cavities within the glass. Markings applied by any of these four methods are robust enough to withstand standard hybridisation and washing procedures.
  • 7. Microarray Solutions page 7 Technical Support in Focus – University of Ljubljana and the use of the SCHOTT Nexterion® 70mer Oligo Kit ® Nexterion 70-mer Oligo Arraying Kit “Microarray Solutions” looks back on an interesting technical support troubleshooting case addressed by Dr. Ruediger Dietrich with the University of In 2005, SCHOTT Microarray Solutions Ljubljana in Slovenia earlier this year. Vid Mlakar, a long-term user of SCHOTT’s ® ® and OPERON Biotechnologies pooled Nexterion Slide E epoxysilane coated substrate in the Nexterion 70mer oligo together their technical expertise in the kit, contacted Ruediger for advice with a new project where he intended to microarray field to develop a complete produce an array with 13600 spots on one slide. His project was to look for kit-based solution for high quality self- cancer and apoptosis marker gene expression for medical diagnosis. For Mr. spotted microarrays, comprising of oligonucleotide sets, optimized Mlakar, this would be a higher density array than he had worked on in the past microarray slides and reagents. and consequently a number of issues came to the fore, including printing buffer selection and the consequent effect on spot size and evaporation, spot The 70mer Oligo Arraying Kit morphology and the number of pre-spots required if working with a viscous components cover the most important printing buffer. steps of the microarray process chain: spotting, blocking, hybridization and Print Buffer Selection – How to Control Evaporation Over Long Printing Runs washing. All the reagents were The Nexterion® 70-mer Oligo Arraying Kit from SCHOTT provides the user with optimized for the use of OPERON 70mer probes (although the kit can also be printing, blocking and hybridization solutions that have been optimized for Nexterion® used with oligo probe sets from other Slide E. Mr. Mlakar purchased such a kit from SCHOTT and, in close consultation with manufacturers). the company, began an evaluation using the standard 70-mer kit low evaporation spotting buffer, Nexterion® Spot LE. The customer’s print run was expected to last several days and therefore a low evaporation printing buffer, which keeps the concentration of the oligos more or less constant, appeared to be the perfect solution. University of Ljubljana Set-Up Ruediger Dietrich advised the customer on optimal printing conditions, recommending a printing humidity of 60 - 65% to help reduce evaporation without having a detrimental ® Slide Surface: Nexterion Slide effect on the slide surface. Vid Mlakar found 60% to be optimal and reported back to E(poxysilane) SCHOTT that he was very happy with low evaporation properties offered by Nexterion® ® Printing Buffer: Nexterion Spot LE Spot LE, but did express some concern with spot sizes using Micropot 10K split pins. Probe: Operon 70mer Print Buffer Selection – How to Obtain the Desired Spot Size oligonucleotides The customer was looking to obtain smaller spot sizes than he had initially obtained Immobilization Protocol: SCHOTT with Nexterion® Spot LE, as he was unable to achieve the density he required for his 70mer oligo arraying kit protocol application (Spot LE is a low evaporation spotting buffer containing a fixed amount of detergent which meets the needs of most customers). Mr. Mlakar consulted with Arrayer: GS MicroGrid SCHOTT to address this issue and Ruediger decided to send him a Nexterion® LEB Pin Type: Microspot 10K split pin Kit. This kit was designed to accommodate the needs of customers that require specific ® spot sizes and comprises the Nexterion Spot LE printing buffer, plus a detergent Printing Conditions: 60% RH solution that allows the customer – guided by additional information about the Hyb Protocol: Tecan optimized correlation of the detergent concentration to the spots size in a worksheet - to add the protocol provided by SCHOTT appropriate detergent concentration to Spot LE to obtain the desired spot size. Vid Mlakar was able to quickly establish the appropriate detergent concentration for his Hyb Station: Tecan HS480 high density array, achieving a spot size of 60 – 70µm. When scanning at 4 µm Scanner: Tecan LS200 resolution with his Tecan scanner, he was now able to see 80-100 data points, which he felt was sufficient for reliable data analysis. He was now in a position where he felt Software: ArrayPro very confident using the Nexterion® 70-mer Oligo Arraying Kit for his new application. Selecting Optimal Hybridization Conditions with the Tecan Hyb Station Now that the printing issues on Nexterion® Slide E had been addressed to the “I would like to inform you that we customer’s satisfaction, Mr. Mlakar expressed an interest in working with SCHOTT to successfully printed 162 arrays with ascertain the optimal hybridization conditions for his application. He uses an automated your chemistry. We have also hybridization system from Tecan, which enables him to standardize this process, but performed a successful hybridization the original Slide E protocol only included instructions for customers performing manual with these slides using the Tecan hybridizations. In order to benefit from using the hyb station, Mr. Mlakar was interested HS400 hybridization station and the in finding out more information from SCHOTT on buffers, incubation times, flow rates protocol that you provided…So thanks etc., which would enable him to obtain the same, or even better, results than he had again for all the help you provided I am now very happy with the arrays.” previously seen with his lower density arrays. Fortunately SCHOTT had already developed a modified version of the standard protocol for the use of hyb stations and Vid Mlakar, the University of this protocol worked extremely well in Vid Mlakar’s hands. He was able to consistently Ljubljana obtain low background and see a nice distinction between spots and background. Conclusion The University of Ljubljana is a good example of a successful technical support collaboration with a customer. Although it is very difficult to solve all customer troubleshooting issues in this manner, SCHOTT has been able to support many customers over the years, thanks to its strong commitment to offering full-time
  • 8. Microarray Solutions page 8 ® technical support to all Nexterion slide users. We now have a wealth of knowledge and experience, both from work that has been carried out in-house and from our interactions with customers willing to share their experiences and know-how. SCHOTT For your enquiries please contact customers should therefore feel free to contact SCHOTT either before, during or after Jami Lomax ® their experiments with Nexterion slides knowing that they will get an immediate (jami.lomax@us.schott.com) response (typically the same day, or worst case within 2 business days). Whether it be protocol optimization, troubleshooting or any other technical issue, SCHOTT Microarray Solutions is here to support you and ensure that you are able to obtain optimal performance from our microarray slides and accessories. SCHOTT Microarray Solutions News Increase in Nexterion® Slide E Batch Sizes Despite the extremely low batch-to-batch variation observed with SCHOTT slides, some customers prefer to purchase all their slides for a specific project or print run from a single production batch. We are pleased to announce that we have successfully implemented an upgrade in the Nexterion® Slide E production process. The upgrade ® will allow us to provide customer with up to 4,000 Nexterion Slide E slides from one coating batch. Please contact SCHOTT for further details. ® New Nexterion Slide H 25-slide Mailer Boxes SCHOTT is pleased to announce that Nexterion® Slide H will now be supplied to Fig.: 5 customers in new 25-slide mailer boxes (see figure 5). These boxes replace the 5 x 5- ® Nexterion Slide H in 25 slide box slide mailer boxes previously used. This change will greatly reduce the slide, and box handling required during the setting up of large print runs. Conference and Exhibition Calendar 2007/08 Event Location Date Weblink Discovery-2- Philadelphia, PA / September 17 - 19, www.ibclifesciences.com/D3176/6097.xml Diagnostics USA 2007 ASHG Annual meeting San Diego, CA / USA October 23 - 27, 2007 www.genetics.faseb.org/genetics/ashg/menu- annmeet.shtml LabAutomation Palm Springs, CA / January 27-29, 2008 www.labautomation.org/LA08/ USA Statusseminar Frankfurt / Germany January 31 - www.events.dechema.de/events/Tagungen/ Chiptechnologie 2008 February 1, 2008 Statusseminar+Chiptechnologien.html ISAFG 2008 Edinburgh/UK April 7 – 9, 2008 www.ark-genomics.org/ISAFG/ Advances in Microarray Barcelona/Spain May 7 - 8, 2008 Technology If you are interested in presentations given by SCHOTT at past conferences please contact us (coatedsubstrates@us.schott.com).