Page 3: Table Of Contents
Table of Contents Prologue ........................i I. Revision History....................i II. Contact Addresses....................i III. Certificate of Conformity.................. ii IV. Warranty ......................ii V. Trademarks ......................ii VI. Intended Use...................... ii VII. License Statements for the Instrument ............ii VIII. Software License Agreement ................ii IX.
Page 4 3.1 Starting the Scanner, Control Unit, and Instrument Software .....80 3.2 Loading Microarray Slides ..............81 3.3 Specifying Parameters ................81 3.4 Scanning....................81 3.5 Reviewing Images ..................82 3.6 Instrument Software Workspace ............82 4. Index ........................84 ii | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 5: Prologue
Every effort has been made to ensure that all the information contained in the NimbleGen MS 200 Microarray Scanner Operator’s Manual is correct at the time of printing. However, Roche NimbleGen, Inc. reserves the right to make any changes necessary without notice as part of ongoing product development.
Page 6: Certificate Of Conformity
V. Trademarks NIMBLEGEN is a trademark of Roche. Other brands or product names are trademarks of their respective holders. VI. Intended Use The NimbleGen MS 200 Microarray Scanner is designed to read fluorescently labeled DNA microarrays on 1 x 3 inch standard glass laboratory slides for experiments in research laboratories.
Page 7: Preamble
Maintenance and care Troubleshooting X. Use of the Instrument Operator’s Manual This Operator’s Manual describes the operation of the NimbleGen MS 200 Microarray Scanner and contains the following chapters: Chapter A, Overview, provides an introduction to the instrument’s capabilities and specifications for the instrument, control unit, and microarray slides.
Page 8: Conventions Used In This Manual
Caution: Possibility of instrument damage or data loss if instructions are not followed. Warning – Risk of Danger. Risk of personal injury to the operator or a safety hazard to the instrument or surrounding area. iv | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 9: Warnings And Precautions
Read and understand all information in this document. Failure to read, understand, and follow its instructions could result in damage to the instrument, injury to operating personnel, or poor instrument performance. Observe all (Warning) and (Caution) statements in this document. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 10 Safety and information labels found on the rear of the Microarray Scanner warn of potential hazard or highlight important information. These labels refer to issues that must be taken into account when using this instrument. vi | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 11: Disposal Of The Instrument And Consumables
Because components of the Microarray Scanner could be exposed to potentially infectious chemical samples, toxic or corrosive chemicals, or radioactive chemicals, perform appropriate waste management to ensure there is no risk of contamination. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | vii...
Page 12 Treat used consumables and all substances in accordance with good laboratory practice guidelines. Inquire about appropriate collecting points and approved methods of disposal in your country, state, or region. viii | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 13: A Overview
The Microarray Scanner produces single- or multi-image Tagged Image File Format files (TIFF, .tif) that can be read by software packages available from Roche NimbleGen and other vendors. Following is a description of the instrument’s key functionality and components:...
Page 14 (PMTs) with very high sensitivity and low electronic noise are used to convert the light energy into electric current that can be measured. The resulting current is proportional to the incident emission light at the photodetector. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 15 24 lines per second, parallel mode, autogain turned off, and scan length of 62mm. File size and processing time will vary if a different scan speed or scan length is specified. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 16 The ILC module checks whether the Microarray Scanner is operating according to determined parameters within defined limits. The ILC module should be run on a regular basis. Roche NimbleGen recommends a period of time of 2 weeks. Once you initiate the ILC run, the ILC module runs fully automated with no user intervention.
Page 17 Geometric Linearity Test. Checks for X and Y axes and if necessary, recalibrates (Y axis only) the image linearity within scanned images. Defined straight line patterns on the ILC slide are scanned to evaluate the image linearity in the X and Y directions. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 18: Specifications
Mechanical Scanner Linear movement with cone-rod principle Slide holder 3-axis high-precision module for scanning and automatic alignment of exact focus position Stacker cover Opens upon pressing of the insert/eject magazine button NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 19 Storage: 10 - 80% non-condensing Overvoltage category Pollution degree Method of disposal Electronic waste (infectious waste) Physical Outer dimensions Width: 60cm (23.6in) Height: 46.6cm (18.5in) Depth: 61.8cm (24.4in) Weight Approximately 38kg (84.0lb) NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 20: Specifications Of The Control Unit
2, 5, 10, 20, and 40μm. The scan and barcode dimensions could vary due to experimental and/or manufacturer settings. If a barcode area is designated on the slide, the effective scan area is smaller. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 21 “blank” spots be placed on the slide to check for variation of the background in the experiment. Figure 2: Scan Area Dimensions (in mm) on Standard Slides with Maximal Barcode Area Definition NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 22 Notes 10 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 23: B System Description
The original shipping boxes must be transferred unopened to the installation site. On delivery, carefully inspect the boxes. Report any suspected damage immediately to Roche NimbleGen and to the shipping agent before accepting the product. Use only the original packaging for transportation or relocation of the equipment.
Page 24: System Description
2.1 Description of the Instrument The following illustrations identify the outer attributes of the Microarray Scanner. An overview of the Microarray Scanner’s functions is provided in subsequent sections. Figure 3: Front Figure 4: Rear 12 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 25: Slide Magazine
For instructions on how to unlock and lock the latch, refer to the “Inserting Slides into the Slide Magazine” section on page 14. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 13...
Page 26: Slide Magazine Box
Wear powder-free gloves or equivalent when handling slides. Avoid touching the microarray area. If a slide is not coded or labeled, consider a defined orientation to ensure comprehensible image acquisition. 14 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 27 When finished inserting slides, release the flap’s flange, which causes the latch to automatically lock so that slides do not slip out of the slide magazine. Figure 8: Inserting Slides into the Slide Magazine (Upright) NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 15...
Page 28 Figure 10: Inserting the Slide Magazine into the Microarray Scanner 16 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 29 (Figure 11). Avoid stacking or piling slides on each other. Improper slide handling and insertion into the slide magazine could lead to array damage, data loss, and possibly instrument damage. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 17...
Page 30 Never force or wedge a slide into the slide magazine. Be careful when carrying and when inserting the slide magazine into the Microarray Scanner. Do not unlatch the flap, or slides could slip out. 18 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 31: Installation
Microarray Scanner to another site, allow it to stand for at least 3 hours to avoid electrical or optical failure caused by condensation. It is recommended that a Roche NimbleGen Account Manager, Field Service Engineer, or Field Application Consultant performs the first installation of the Microarray Scanner.
Page 32: Environmental Requirements
Microarray Scanner only in the specified conditions. Care should be taken to maintain a low-dust, low-vibration environment. Keep liquids and vapors away from the Microarray Scanner. 20 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 33: Installation Of The Control Unit
Connect the computer, monitor, and Microarray Scanner to a clean uninterruptable power supply. 3.6 Installation of the Instrument Software Following is information to be aware of before you install the instrument software and details the installation procedures. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 21...
Page 34 Be familiar with good laboratory practice guidelines. Have read and understood the instructions in this document. Only users that meet the qualifications prescribed here are eligible to run the instrument software described in this documentation. 22 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 35 Microarray Scanner. Refer to “Specifications of the Control Unit” on page 8 for detailed computer specifications. 3.6.3 Who Should Install the Software? A person with administrator rights or a Roche NimbleGen Account Manager, Field Service Engineer, or Field Application Consultant should install the instrument software.
Page 36 3.6.7 Installation Directory The instrument software will be installed into the C:\Program Files (x86)\Roche Diagnostics\NimbleGen MS 200 directory by default. Roche NimbleGen recommends accepting this directory as the default drive/directory. However, you can install the instrument software into a different drive/directory.
Page 37: Starting The Control Unit, Microarray Scanner, And Instrument Software
Start the control unit and log into your user account. The following is a preconfigured account. Your system administrator may set up additional accounts. • Account: msOperator • Password: 1-msOperator NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 25...
Page 38 Figure 14: Top of Instrument Software Workspace Showing Laser Buttons 26 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 39: Performing System Verification: The Initial Ilc Test
After you install the Microarray Scanner, control unit, and instrument software, perform an initial ILC test. After the initial test, Roche NimbleGen recommends you perform the ILC test every 2 weeks. Running the ILC test requires the ILC slide be installed in the Microarray Scanner.
Page 40 Figure 17: Inserting the ILC Slide Click OK in the instrument software. The Microarray Scanner removes the ILC slide from the slide magazine and places it in the ILC bay. 28 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 41 (PASS or FAIL, Figure 18). If you encounter problems, contact your Roche NimbleGen Account Manager or Roche Microarray Technical Support for technical and installation support to resolve any known issues. For more information on the checks that occur during the ILC test, refer to “ILC Module”...
Page 42 Notes 30 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 43: C Operation
C Operation 1. Introduction This chapter describes how to use the instrument software and how to make use of its functionality. The instrument software is a comprehensive application to control the Microarray Scanner. It automates data and image acquisition from the scanning of various microarrays including NimbleGen high-density arrays.
Page 44: Starting The Instrument Software
The instrument software consists of various input and output options. Its workspace is arranged to help you focus on specifying scan parameters (Figure 19, top figure) and viewing images (Figure 19, bottom figure). 32 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 45 Figure 19: Components of the Instrument Software Workspace NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 33...
Page 46 Roche button. Click to display the Application menu, which provides file- related commands for creating, opening, or saving the session file that contains parameters used for a scanning experiment. The Application menu also enables you to open an image file, access the software’s options, and exit the software.
Page 47: Understanding Sessions
Within a session, you can customize the tasks to be performed by adjusting parameters (Parameter Control and File Settings Control) and areas (Area Definition Control) for each slide. These parameters can also be saved in several different files for future use. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 35...
Page 48 The parameter file is stored in XML format. You will learn more about setting parameters in the “Specifying Scan Parameters” section on page 41. 36 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 49: Using The Help Viewer
At the top of the Help Viewer, you find buttons that enable printing, navigating to the previous or next page, and setting options. In the left pane, the Contents, Index, and Search tabs provide browse and search functionality. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 37...
Page 50: Setting Software Options
Options. The Options window opens (Figure 23). Figure 23: Options Window Review the default file location to which files are saved. To specify a different directory, click Browse and select the new location. 38 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 51: Specifying Parameters
To specify a different length of time, type the value in the text box. Review the default file format. Currently “Roche Format” is the only available format. Click OK to save any changes. Or, click Cancel to exit without saving changes.
Page 52 A red box indicates the instrument software is in the process of checking the status of the slide position. Select Scan. Select the checkbox to choose the slide for scanning. 40 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 53: Specifying Scan Parameters
( ) in the Magazine Control (Figure 24). If not already open, the Parameter Control opens and provides options and controls for specifying all scan parameters. The following figure identifies the components of the Parameter Control. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 41...
Page 54 Figure 25: Magazine Control (Left) and Parameter Control (Right) Review and as necessary adjust the scan parameters: Slide Type. The only selection available is “Roche NimbleGen.” Additional selections could be available in the future. Resolution. Select from 2, 5, 10, 20, and 40μm resolutions.
Page 55 To save any changes to the settings, click Apply. Or, click Reset to cancel changes and leave the parameter settings unchanged. If desired, click Save to save settings to a parameters file for future use. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 43...
Page 56 To assign using a parameters file: You can apply the settings from an existing parameter file to the selected slide(s). Highlight the slide row in the Magazine Control (Figure 24). 44 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 57 If open, close the Parameter Control by clicking the Close Parameter Control button ( , Figure 25). Go to the slide row in the Magazine Control (Figure 24), right-click, and select Delete Cycle. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 45...
Page 58: Specifying Image File Settings
Choose between the following option buttons: • Single-TIFF: Generates one image file in Tagged Image File Format (TIFF, .tif) per channel. • Multi-TIFF: Generates one image file in TIFF containing both channels. 46 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 59 TIFF option button. If necessary, change the path to which the images files will be saved. The default path is E:\Data\NimbleGen MS 200. To make changes, click Browse to open a dialog box to specify a location in the directory and click OK to confirm.
Page 60: Specifying Scan, Barcode, And Autogain Areas
In the Parameter Control, click the Open/Close Area Definition Control button ( ) to open the Area Definition Control (Figure 25). The following figure identifies the components of the Area Definition Control: 48 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 61 Parameter Control (Figure 25). Do not adjust the barcode area if using NimbleGen arrays. The default location and size of the barcode area has been designated specifically for these arrays. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 49...
Page 62 If necessary, highlight the slide row in the Magazine Control (Figure 24). If necessary, open the Parameter Control (Figure 25). If necessary, open the Area Definition Control (Figure 28). Select the Single Area option button. 50 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 63 To use an existing array image as a template for your area layout: Choose between the following: To load an image from a file, click the Roche button ( ), select Open Image, and choose the image to open. The image appears in the Image View.
Page 64 Click Apply to confirm your selection. 6.2 Specifying Multiple Scan Areas If you are using NimbleScan software for data analysis, Roche NimbleGen recommends specifying a single scan area instead of multiple scan areas. For NimbleGen multiplex arrays, you use the software’s burst functionality to create individual image files for the...
Page 65 This is used to set size and shape of all other scan areas. Drag a corner handle or a side handle until that bounding rectangle matches the desired feature size. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 53...
Page 66 Alternatively, click the Display Images button ( ) in the Magazine Control in your current session or open a session to retrieve an image. Then click Show Image to display the image in the Area Definition View. 54 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 67 Drag the barcode rectangle to the desired position on the array. The barcode rectangle is a fixed size of 22 x 7mm. Click Apply to confirm your settings. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 55...
Page 68 Size the rectangle by dragging the side and corner handles. The following figure provides guidance as to the size of and where to locate the autogain area for NimbleGen arrays. 56 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 69 Figure 30: Examples of Setting the Autogain Area for NimbleGen Arrays Click Apply to confirm your settings. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 57...
Page 70: Starting And Aborting A Scan
Or, click Cancel to return to the instrument software workspace. Selecting to continue the run before the lasers have warmed up could affect data quality. Figure 31: Laser Warmup Time Active Window 58 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 71 After the scanning experiment is completed, the light in the upper-left corner of the insert/eject magazine button becomes green (Figure 10). Microarray Scanner unlocks the stacker cover, and you can remove the slide magazine. Figure 32: Run-Time Window NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 59...
Page 72: Aborting A Scan
In the Image Control, select the respective channel to see the immediate effects on the acquired signal. If you adjust the PMT gain value(s) during the scan, Roche NimbleGen recommends to rescan the slide using the new settings. For NimbleGen arrays: If using NimbleScan software to extract and...
Page 73: Reviewing Images
Select a scan area and zoom out or drag the magenta frame in the Slide View to display an enlarged detail of the captured features in the Image View (Figure 34). NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 61...
Page 74: Displaying Intensity Data For A Feature
You can adjust contrast and brightness using the Image Control (Figure 35) to have a better view of features on the image. Adjusting these settings allows faint features to be more easily seen. Figure 35: Image Control 62 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 75: Displaying A Histogram Or Line Profile
Linear and Logarithmic Base 10 option buttons allow you to select the scale on the Y axis for the histogram. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 63...
Page 76 Figure 36: Histogram Generated During the Run Figure 37 shows a histogram generated after the scanner experiment in which the channels are balanced. 64 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 77 Logarithmic Base 10 option buttons allow you to select the scale on the Y axis for the line profile. A line profile is not available for 2μm scans during the run but is available post run. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 65...
Page 78: Choosing The Channel(S) To Display
8.6 Choosing the Channel(s) to Display The Overlay, Channel 1, and Channel 2 option buttons in the Image Control (Figure 35) enable you to view images in single channel or overlay mode. 66 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 79: D Maintenance And Care
1. ILC Test If this is the first time you are running the ILC test, refer to page 27 for more detailed instruction. Roche NimbleGen recommends you perform an ILC test every 2 weeks. Switch on the Microarray Scanner. Start the instrument software.
Page 80: Liquid Spill Cleanup
The need for replacing the ozone filter units may vary with the usage of the microarray scanner. To ensure optimal performance, replacement of the ozone filter units will be included in the annual maintenance by your Roche Field Service Engineer or is available upon request.
Page 81 If a slide remains in the instrument, potential jamming or fragmentation of the slide could damage the instrument. If the original packaging is lost or damaged, contact Roche NimbleGen for replacement packaging. Complete the Certificate of Decontamination (refer to page 71) and affix to the outside of the package.
Page 82: Instrument Disinfection
Perform the same disinfection procedure on the slide magazine. Repeat the disinfection procedure on any accessories. Complete the Certificate of Decontamination (refer to page 71) and affix to the outside of the package. 70 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 83 Contact person............................... Company: ................................. Function: ................................... Phone/Fax: ................................Email: ..................................Date of decontamination: ........................... Method of decontamination applied:............................................................................................................................................................................................................Date:................................... Signature: ................................. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 71...
Page 84 Notes 72 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 85: E Appendix
Corrective Measure(s) column. The elimination of more complicated malfunctions or errors is usually performed by Roche NimbleGen according to separate instructions. For these situations, the Corrective Measure(s) column directs you to contact Roche NimbleGen.
Page 86 Microarray Scanner. Check recognize a slide in slides for damages and correct that slot. positioning in slots. Reload and initialize the slide magazine. If the problem persists, contact Roche Microarray Technical Support. 74 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 87 (For NimbleGen arrays, refer to the NimbleGen Arrays User’s Guide for instructions.) Repeat scan. NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 75...
Page 88 Check the quality of the etched barcode. Barcode area Check and/or adjust the barcode specified in the position in the Area Definition instrument software Control. does not match barcode position on slide. 76 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 89 Switch off power to the Microarray Scanner. Unscrew the two stacker locks at the rear of the instrument to release the front cover (Figure 39). Figure 39: Unlocking the Stacker Locks NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 77...
Page 90 Close the instrument’s front cover (Figure 42). Gently push the front cover into place, making sure to push it all the way into place. Two bolts and a pin secure the cover. Figure 42: Closing Front Cover 78 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 91: Ordering Information
2. Ordering Information To place an order, contact your Roche NimbleGen Account Manager. Go to www.nimblegen.com/arraysupport for contact information. The following items are included with the purchase of a NimbleGen MS 200 Microarray Scanner system. Catalog No. Product 05394341001...
Page 92: Quick Start
Technical Support If you have questions about how to use the Microarray Scanner, contact your Roche NimbleGen Account Manager or Roche Microarray Technical Support. Go to www.nimblegen.com/arraysupport for contact information. 3. Quick Start The quick start provides a general description of a typical workflow:...
Page 93: Loading Microarray Slides
Start scanning all selected slides by clicking Start/Stop Scan in the Scan Control. Store collected data in the default directory (E:\Data\NimbleGen MS 200) or specify another location in the File Definition Control (Chapter Operation). NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 81...
Page 94: Reviewing Images
The instrument software workspace offers menus and a variety of options for viewing and editing scan specifications. Its controls are arranged to help you focus on setting scan parameters and reviewing scanned images (Chapter C, Operation). 82 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 95 NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 83...
Page 96: Index
Blank spots, non-NimbleGen microarrays ..................9 Brightness, adjusting ........................63 Certificate of Decontamination.....................71 Channels, specifying for a scan......................43 Cleanup, liquid spill ........................68 Computer specifications ........................8 Contrast, adjusting .........................63 Conventions used in this manual ....................iv 84 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 97 Help Viewer, using ......................... 37 Histogram Availability of the histogram during a scan................64 Displaying a histogram ......................63 Using the histogram to adjust PMT during scan ..............64 Icon, MS 200 ........................... 26 NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 85...
Page 98 Troubleshooting .........................75 Zooming in and out of images ....................61 Information labels, rear panel ......................vi Installation, control unit ........................21 Installation, instrument Humidity conditions........................21 Power requirements ........................20 Space requirements ........................19 Temperature conditions ......................21 86 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 99 Availability of the line profile during a scan................65 Displaying a line profile......................65 Log files, saving..........................60 Magazine Control, components....................40 Manual conventions............. See Conventions used in this manual Manufacturer............................. i Monitor specifications ........................8 NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 87...
Page 100 Quick start, instrument software....................80 Read speed, description........................3 Reference spots, non-NimbleGen microarrays ................9 Relocating the instrument......................68 Resolution, specifying for a scan ....................42 Revision history, operator’s manual ....................i Roche button...........................34 Safety labels, rear panel ........................vi 88 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...
Page 101 Inserting or removing the slide magazine from the instrument ..........16 Inserting slides into the slide magazine ..................14 Slide magazine box......................... 14 Slide transport, removing slide from .................... 77 Space requirements, instrument ....................19 Specifications, control unit......................8 NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0 | 89...
Page 102 Symbol conventions ........................iv Technical support, contact information ..................80 Text conventions..........................iv Trademarks ............................ii Troubleshooting ..........................73 Unpacking the instrument ......................19 Voltage ranges, instrument......................20 Warranty ............................ii Workspace, instrument software....................32 Zooming in and out, images ......................61 90 | NimbleGen MS 200 Microarray Scanner Operator’s Manual v1.0...

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