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1. Other company and brand products are trademarks or registered trademarks of their respective holders This document may contain flaws omissions or typesetting errors no warranty is granted nor liability assumed in relation thereto unless specifically undertaken by DNR sales contract or order confirmation Information contained herein is periodically updated and changes will be incorporated into subsequent editions If you have encountered any error please contact DNR Contact us at 972 2 570 0818 USA Toll free number 1 866 300 4286 email support dnr is com Table of Contents 1 2 INTO UCI ii A 4 OVENVIEW omiri dette esiasaaisaide a a a a E 5 SV SECT OVE TVI CW enin a aa a a a a gh eeersiaee 5 Features and Denis a a Peper a ae a ee ren ee eee re 6 eMMe UME A A da 6 OptUcal Bench idos ooo 7 Thesm Dare Chambe Enamorada 7 UWDTIWE RS a N A AA 9 L ns and Illumination Control Panel aii A AS 9 Rea rP ane aanssaeenecteaiae naa ian aad aa a a a A 10 GECAD A e reer E O O E A A TS 10 Nere a e a lore aU ge eee eee ee i E EE EEE E E E EE OEE 11 ICONS aaa 12 Installing MiniLumi and GelCapture seseseseseseseseseseseoeseseseoeosoeoeseoeoessosososseosceceoeosoeoeoeosceceoe 13 SAFE REUNEN ES iia 13 Maime HON E ASE AAN 13 QUOTE BONA rado NA AS FeO PE aiii 14 A TS A Geass E 14 FOTO Ware Set to 15 Sofware INS EAN ed o le o La no 15 Installing GelCapture from CD Windows XP PrO occccccccccoooccccnnnncconanoconnnnnnnnnnaroc2. YA Systems Welcome to the MiniLumi System Web site http www dnr is com Email support dnr is com Important Notice Copyright 2009 DNR Bio Imaging Systems Ltd All rights reserved MiniLumi is a registered trademark of DNR Bio Imaging Systems Ltd The information contained in this document is proprietary and is subject to all relevant copyright patent and other laws protecting intellectual property as well as any specific agreement protecting DNR Bio Imaging Systems Ltd DNR rights in the aforesaid information Neither this document nor the information contained herein may be published reproduced or disclosed to third parties in whole or in part without the express prior written permission of DNR Such information is supplied solely for the purpose of assisting explicitly and properly authorized users of the MiniLumi DNR reserves the right without prior notice or liability to make changes in equipment design or specifications The text and graphics are for the purpose of illustration and reference only The specifications on which they are based are subject to change without notice Information in this user guide is subject to change without notice Corporate and individual names and data used in examples herein are fictitious unless otherwise noted The software described in this user guide is furnished under license The software may be used or copied only in accordance with the terms of that agreement
3. 536 gray levels so there will be a separate value for each gray level that can be stored and recovered CCD is one of two main types of image sensors used in digital cameras to create high quality low noise images Dynamic Range Dynamic range is the range that a sensor is capable of differentiating If the sensor can differentiate between two points in an image then each point is translated into a pixel of the image if the sensor is unable to differentiate then the two points will be pixels of noise Dynamic range is also referred to as Signal to Noise Ratio SNR Exposure Time The length of time light passes through the lens to form an image Fluorescence A process by which a fluorescent molecule is excited at one wavelength and triggers the emission of a photon with longer less energetic wavelength making it possible to detect image and measure the amount of fluorescence in samples as small as individual cells and with multiple fluorescent colors Gain A camera feature that increases or decreases the strength of an electrical signal When the gain is increased brightness also increases and so does any electronic noise This results in a brighter image with less clarity Iris A mechanical diaphragm that adjusts the lens aperture with high levels of illumination the iris should be minimized with low levels of illumination the iris should be maximized Pixel A pixel or picture element is the basic unit that t
4. Penand People Near Performance Personaliz Phone and Power Printers Input Devices Me Informatio Modem Options Y Problem Programs RealtekHD Regional and Scannersand Security Reports a and Features Audio M Language Cameras Center a ME laa a AZ E 3 Double click the System icon p e 2 S gg gt Control Panels Name Category Options AMES Penand People Near Performance Personaliz Phone and Power Printers Input Devices Me Informatio Modem Options Ya 90 0 Problem Programs Realtek HD Regional and Scannersand Security Reports a and Features Audio M Language Cameras Center MOI een r a Speech Symantec Sync Cente Tablet PC Taskbar and Text to Recogniti LiveUpdate i E ZE Control Panel Home e Classic View erung an ivien D A i View information about your computer and change settir performance and remote connections 2 SE User Welcome Windows Windows Windows Windows Windows Accounts Center Anytim CardSpace Defender Firewall Sidebar a Windows Windows SideShow Update 4 Select Device Manager from the left side of the window and click Continue in the next window 3 Installing MiniLumi and GelCapture Tasks View basic information about your computer PO Device Manager gt Windows edition y Re settings P O Windows Vista Business Copyright 2006 Microsoft Corporation All rights reserved j G Adv s
5. comect drive is selected below 12 Browse to the following location My computer gt gt Local Disc C gt gt Program Files gt gt DNR gt gt GelCapture gt gt drivers gt gt PGR and click Open y Locate File a er 229 20nnn Public Desktop 29 awnann Computer A Network Files of type Setup Information inf 29 3 Installing MiniLumi and GelCapture 13 Choose dnrcam from the PGR file and click Open de e e Lookin Ji PGR Name Date modif Type ES dnrcam Recent Places Desktop 20 Awana Ma Computer L a Network File name dnrcam Files of type Setup Information inf 14 Click OK al From Disk Insert the manufacturer s installation disk and then make sure that the corect drive is selected below Copy manufacturers files from C Program Files ONR GelCapture drivers PGR amp Windows can t verify the publisher of this driver software ss Don t install this driver software You should check your manufacturer s website for updated driver software for your device Install this driver software anyway Only install driver software obtained from your manufacturer s website or disc Unsigned software from other sources may harm your computer or steal information v See details 3 Installing MiniLumi and GelCapture 16 Choose DNR MiniLumi 14SOM again and click Next O Q Update D
6. for Epi WL illumination e Four UV light tubes for Trans UV illumination located underneath the UV Drawer Four UV light tubes for Trans UV illumination When the drawer is inserted correctly and the unit door is properly closed the Smart Dark Chamber becomes completely light proof The chamber is specifically designed with a user safety mechanism that automatically turns the UV lights off if the MiniLumi door is opened This safety feature is particularly important due to known risks of UV radiation and therefore places MiniLumi at an advantage point 2 Overview UV Drawer The UV drawer slides in to fit snuggly in its niche and can be pulled out fully which is a very helpful when cleaning the drawer surface or when needing to change a light tube The drawer is specifically designed with anti spill borders to prevent samples and sample buffers from spilling into the unit UV Drawer Lens and Illumination Control Panel The lens controls include zoom iris and focus switches which are located on the left side of the panel The Illumination control switches on the right side of the panel include a Trans UV Epi UV switch and an Epi WL ON OFF switch all designed to allow fast and accurate operation For opaque samples only Epi illumination should be turned on For transparent samples either Epi illumination WL UV or Trans UV illumination can be used Epi WL ON OFF switch Epit pity Lens control Epi UV Trans UV
7. the check boxes below to limit or expand the default search which includes local paths and removable media The best driver found will be installed Search removable media floppy CD ROM Include this location in the search Don t search will choose the driver to install AAA NAS Choose this option to select the device driver from alist Windows does not guarantee that the driver you choose will be the best match for your hardware d Select DNR MiniLumi 1 4 SOM or 2 0 SOM and click Next Hardware Update Wizard Select the device driver you want to install for this hardware a lt lt O Selectthe manufacturer and model of your hardware device and then click Next Ifyou have a disk that contains the driver you want to install click Have Disk Show compatible hardware Model EY Generic 1394 Desktop Camera DNR Camera DNR MiniLumi 1 4 SOM A This driver is not digitally signed Tell me why driver signing is important 24 3 Note Installing MiniLumi and GelCapture The system is provided with either the DNR MiniLumi 1 4 or the DNR MiniLumi 2 0 camera Depending on the camera you purchased with your system you will have to choose the appropriate one wherever you are prompted to select DNR MiniLumi camera DNR 1 4 SOM 2 0 SOM e Click Finish Hardware Update Wizard Completing the Hardware Update Wizard The wizard has finished installing the software for DNR Mini
8. Capture Vista Setup file and double click it to activate In the next window select Allow trust this program know where it s from or I ve used it before to allow the program to run 3 Installing MiniLumi and GelCapture 4 Click Next i gt Setup GelCapture sleet Welcome to the GelCapture Setup Wizard This will install GelCapture 5 1 on your computer t is recommended that you close all other applications before continuing Click Next to continue or Cancel to exit Setup 5 Click Next to install to the default location or click the Browse button to select a different location Please note that selecting a different location will change all the access paths to the application settings 5 Setup GelCapture Select Destination Location Where should GelCapture be installed A Setup will install GelCapture into the following folder To continue click Next ff you would like to select a diferent folder click Browse At least 25 0 MB of tree disk space is required 3 Installing MiniLumi and GelCapture 6 Click the combo box and select the MiniLumi component from the list i Setup GelCapture EL al Which components should be installed Select the components you want to install clear the components you do not want to install Click Next when you are ready to continue Micro BS MiniBIS MiniBls Pro Mini Lumi LumiBlS LumiBIS with HeptaLED ChemiBl5 0 5M FAChemiBlS 0 5M F Ch
9. GelCapture is equipped with a unique feature for advanced saving Advanced Save enables you to capture a sequence of images using Hardware Integration Hardware Integration captures and displays a series of images with different exposure times It captures each image for the full amount of time specified and allows as many photons of light which are emitted from the sample to hit the camera sensor This can be especially helpful if you are not sure of the ideal exposure time or if you want to detect kinetic experiments 4 Operating Instructions See the diagram below for an explanation on the Hardware Integration process using 1 2 and 3 minutes exposure times Hardware Integration Image 1 1 minute exposure time captured Image minute EXposure The image is captured for one minute Image 2 2 minute exposure time captured image 2 minute exposure The image is captured for 2 minutes Image 3 3 minute exposure time caplured Image 3 minute exposure The image is captured for 3 minutes 41 4 Operating Instructions To Set up Advanced Save with Hardware Integration 1 Click the Advanced Save button The Hardware Integration settings will be displayed on the left Live Off GelCapture Elle Edit View Help Pl DIEA ES Blo lh a Ee E iiin E 2 Use the Number of Images slider to select the number of images required 3 Set the Exposure time slide
10. Lumi 1 4 SOM CA Click Finish to close the wizard Finish 10 Verify that the yellow exclamation mark is no longer displayed in the Generic 1394 Desktop Camera line wolers day NEC OFC Compliant EEE 1394 Host Cortroler Keyboards Standard 101 102 Key or Morosoft Naturd PS 2 Keyboard y Moe and other pointing devices MD Network acapters MN 1394 Net Adapter DD Intel R PRO 2100 VE Network Connector 11 The MiniLumi camera driver is now installed and ready for use Installing the Camera Driver Windows Vista Business OS Before installing the camera driver you must first install GelCapture Vista software on your comp Note uter as described on page 18 Choose the camera according to the one you purchased with your system 3 Installing MiniLumi and GelCapture To Install the Camera Driver Windows Vista Business OS 1 Goto Windows Control Panel by clicking Start gt gt Settings gt gt Control Panel Control Panel gt E Network Connections E Printers and Faxes WB Taskbar and Start Menu EE ontrol Panel Control Panel Home e Classic View Administrat AutoPlay Backup and Color Default Hardware Tools Restore C Management i Programs Classic view 4 oy Device Ease of Folder Game Indexing Intel R GMA Manager Acce Options Controllers Options Driver EELKE Internet iSCSI Initiator Keyboard Mail Mouse Network and Offline Files Options Sharing Ce y EE GYHw
11. Lumi 1450M dh Browse for driver software on your computer Search for driver software in this location Include subfolders Let me pick from a list of device drivers on my computer This list will show installed driver software compatible with the device and all driver software in the same category as the device Select your device s type from the list below Common hardware types F Infrared devices Keyboards m Media Center Extender Medium Changer devices E Memory devices i Memory technology driver A Mice and other pointing devices 05 Microsoft Common Controller For Windows Class y MiniLumi Camera Driver O Mobile devices 3 Installing MiniLumi and GelCapture 10 Choose DNR MiniLumi 14SOM and click on Have Disk e D Update Driver Software Generic 1394 Desktop Camera Select the device driver you want to install for this hardware gt Select the manufacturer and model of your hardware device and then click Next If you ai have a disk that contains the driver you want to install click Have Disk Y Show compatible hardware DNR MiniLumi 1450M This driver is not digitally signed Tell me why driver signing is important Note Choose the camera according to the one you purchased with your system 11 Inthe Install From Disk window click Browse i A e a install From DSK tc o a le a a Insert the manufacturer s installation disk and then make sure that the
12. ard Setup has finished installing GelCapture on your computer The application may be launched by selecting the installed icons Click Finish to exit Setup 12 GelCapture Vista acquisition software is now installed on your computer Installing the Camera Driver Windows XP Pro Once you have successfully installed GelCapture you can proceed to install the camera driver Instructions for installing the camera driver on Windows Vista Business Operating System are provided on page 25 The system is provided with either the DNR MiniLumi 1 4 or the DNR MiniLumi 2 0 camera Depending on the camera you purchased with your system you will have to choose the appropriate one wherever you are prompted to select DNR MiniLumi camera DNR 1 4 SOM 2 0 SOM Note 3 Installing MiniLumi and GelCapture To Install the Camera Driver 1 Connect the camera to the correct PC port using the FireWire cable 2 On the Desktop right click on My Computer icon 3 Select Properties The System Properties window is displayed 4 Select the Hardware tab 5 Click Device Manager 6 Click Imaging Devices to expand and display the list of connected devices 7 Right click Generic 1394 Desktop Camera it is preceded by a yellow exclamation mark De ATAJATAP corr ollers y EEE 1394 Bue host contralers CI Complert IEEE 1394 Host Controle P Staxdad 101 102 Key of Ma oson Naur d PS 2 Keybowe Moe and other pointing devices Y Oefa
13. ational issues In order to install and operate both the MiniLumi unit and GelCapture software you must have the following e Processor Pentium Core due 1 6 GHz e Memory Minimum 512 MB RAM e OS Windows XP Pro English version OR English Windows Vista Business version e Minimum monitor resolution 1024 x 768 pixels recommended Note When the software is running the more RAM a PC has the better MiniLumi is based on FireWire technology A FireWire card is provided with the system you purchased and must be installed onto the PC that GelCapture will run on 14 3 Installing MiniLumi and GelCapture Hardware Setup The system must be switched OFF until you are instructed to turn it ON Install the FireWire card and its drivers into your computer Place the filter in the filter wheel BR WN e On the rear panel of the MiniLumi unit connect the power cord to the wall socket Note Connect the FireWire cable ONLY AFTER GelCapture is installed Software Installation After successful hardware setup and installation proceed to install the following software e Install GelCapture from the CD Windows XP Pro page 15 Windows Vista Business page 18 e Install the camera drivers Windows XP Pro page 22 Windows Vista Business page 25 Installing GelCapture from CD Windows XP Pro Note Before starting installation verify that you are logged in as Administrator 1 Insert the installation CD into the disk drive The in
14. d service technicians should open the unit Do not place the system near any motorized vibrating or magnetic equipment Unit protection can be impaired if used in a manner not specified by the manufacturer Maintenance To keep the MiniLumi unit in good working order observe the following guidelines Note The UV drawer must be cleaned every time a sample is removed Use a soft non abrasive lint free cloth First dampen with water and then with 70 Ethanol To clean MiniLumi surface first use the cloth dampened with water and then dampened with 70 Ethanol Do not operate while wearing gloves with talcum Calibrate the camera once a year as described in the Camera Calibration section Clean the filters annually with appropriate lens paper Turn the power off before any maintenance is performed 3 Installing MiniLumi and GelCapture Out of the Box The packaging includes the following items MiniLumi unit FireWire card Camera FireWire cable pre connected to the unit AC power cord European N America compatible UV drawer Yellow converter Orange filter Green filter O CON DW RAUN e GelCapture and image analysis software CDs Yellow Converter UV Drawer AC Power Cord Orange Filter Green Filter GelCapture and image analysis FireWire Card Software CDs Minimum PC Requirements It is important to follow the recommended specifications to attain optimal software performance and reduce installation and oper
15. e E 6 Under Imaging devices right click Generic 1394 Desktop Camera and select Update Driver Software a eee ee File Action View Help e E LANA 4 PROD_VISTA HE Computer H Disk drives A Display adapters i DVD CD ROM drives H Floppy disk drives i e Floppy drive controllers i ja Human Interface Devices y Eg IDE ATA ATAPI controllers 4 IEEE 1394 Bus host controllers ging devices Generic 1394 Des 6 Keyboards Update Driver Software a f Mice and other poi Disable lia Monitors Uninstall H A Network adapters i YF Ports COM amp LPT Scan for hardware changes i B Processors i a Sound video and ga y lt gt Storage controllers i J amp E System devices y e Universal Serial Bus controllers Launches the Update Driver Software Wizard for the selected device 7 Inthe Update Driver Software window select Browse my computer for driver software 27 3 Installing MiniLumi and GelCapture e mi Update Driver Software Unknown Device n Sh How do you want to search for driver software Search automatically for updated driver software Windows will search your computer and the Internet for the latest driver software for your device gt Browse my computer for driver software Locate and install driver software manually 8 Select Let me pick from a list of device drivers on my computer re Update Driver Software DNR Mini
16. e from Preview mode Enables capturing a sequence of images using hardware Integration Sets the exposure time Camera feature that increases or decreases the strength of an electrical signal Enables to brighten the image The captured image appears here 11 2 Icons Overview The most commonly used functions can easily be accessed with a single click of an icon Icon Toe i LY a e Name Open Image Save Save Image with Reference Copy Invert Image Pseudo color Over Exposure Zoom In Zoom Out Actual Pixels Fit to Window Full Screen Region of Interest Rotate Left Rotate Right To Open a previously captured and saved TIFF image Save the image Save one image of a sample that was dyed with both fluorescent and visible dyes Copy the image to the clipboard You can then paste the image in a number of Windows applications Display an inverse version of the image Show the image in Pseudo colors Show hide overexposed areas in red Zoom into the image Zoom out of the image Display the actual image size Resize the image to fit in the viewing area Display the image on the entire screen To return to GelCapture s main screen press Esc Select a specific area to work on within the image Rotate the image counterclockwise Rotate the image clockwise 3 Installing MiniLumi and GelCapture This chapter explains all the steps required for proper installation of y
17. e is placed inside the MiniLumi Unit Imaging of the sample is controlled and monitored using both GelCapture camera control and the MiniLumi unit manual lens illumination and filter wheel controls The sample image is previewed and saved and can then be exported to other software for analysis Insert a sample into the unit Detect and acquire the sample s image 2 Overview Features and Benefits The key features that make MiniLumi the choice system for bio imaging professionals include Reliable fluorescence and colorimetric gel documentation system High resolution 1 4 and 2 0 Mp CCD Camera and 16 bit file format Semi motorized high speed zoom lens iris focus and zoom Enhanced sensitivity maximum sample emitted light minimal geometric and light distortion Smart Dark Chamber technology that automatically turns the illuminator off when the door is opened This automated UV protection mechanism protects users from harmful UV radiation Detailed sample viewing made available by real time high magnification Click of a button software interface to perform most operations The MiniLumi Unit The MiniLumi is a state of the art bio imaging device with a 16 bit CCD camera The unit has the following main sections Optical Bench Smart Dark Chamber UV Drawer all three are located inside the unit the Lens Illumination Control Panel on the front and the Rear Panel at the back of the unit Optical Benc
18. emiBlS 0 5M with HeptaLED M ChemiBlS MF 4ChemiBls MF ChemiBl5 with Hepta LED FChemiBl5 M FAChemiBlS M with Hepta LED Select Components Which components should be installed Select the components you want to install clear the components you do not want ta install Click Next when you are ready to continue 20 3 Installing MiniLumi and GelCapture 8 Inthe Select Additional Tasks window choose if you want to create a GelCapture desktop icon Click Next to continue installation if Setup GelCapture Select Additional Tasks Which additional tasks should be performed Select the additional tasks you would like Setup to perform while installing GelCapture then click Next Icons Create desktop icon i Setup GelCapture Ready to Install Setup is now ready to begin installing GelCapture on your computer Click Install to continue with the installation or click Back if you want to review or change any settings Destination location C Program Files ONRNGelCapture Setup type Mini Lumi Selected components GelCapture 4 software Min Lumi 3 Installing MiniLumi and GelCapture 10 Click Install The installation progress window will be displayed Please wait while Setup installs GelCapture on your computer C Program Files DINAR GelCapture Windows XP KB885222 142086 EN U exe if setup GelCapture Sex Completing the GelCapture Setup Wiz
19. es Sample Detection The following section provides an explanation on how to prepare the system for sample detection The UV Drawer must be cleaned every time a sample is removed See the section on Note Maintenance for cleaning instructions To Detect the Sample 1 Turn the MiniLumi unit ON from the rear panel Open the MiniLumi door 3 Place the sample in the center of the UV Drawer If you pull the drawer completely out carefully push it back into place with the sample placed on it When working with visible dyes CBB Silver Stain etc place the yellow converter on the Note UV drawer and the sample on the converter Select the required filter in the optical bench and close the unit door 5 Select the appropriate type of illumination for your experiment Epi UV Trans UV or Epi WL illumination Epi WL Epi UV Epi WL Switch Epi UV Trans UV Switch 6 Start GelCapture Previewing an Image When you preview an image you can adjust and set several parameters such as Iris Focus and Zoom at the unit and Exposure time Gain and Brightness in GelCapture in order to attain the best results See the following section for a detailed explanation on capturing an image Always select the illumination type from the unit s Illumination Control Panel before Note starting to Preview in GelCapture 4 Operating Instructions To Preview an Image 1 In GelCapture s main screen click the Preview el icon Adju
20. etect an overexposed area in a sample you intend to send for analysis you should decrease the light intensity by closing the iris reducing the gain or reducing the brightness etc The GelCapture Overexposure tool displays overexposed areas in red To View an Image Using the Overexposure Tool 1 Click the Overexposure icon 2 Click the Overexposure icon again to revert to the original view of the image Region Of Interest ROI The ROI feature lets you perform various actions on a specific area of the sample either in Preview mode or in a saved image In Preview mode you can save copy or view the histogram of the selected area With a saved image you can also crop and revert To Define a Region of Interest r71 Lod 1 In Preview mode or in a saved image click the ROI icon A green frame will appear on screen as seen in the image below 2 Adjust the image size or position You can either stretch the pivot points on the frame or mouse left click and drag down to open a new frame of a region of interest N 4 Operating Instructions 3 Point the mouse anywhere within the green frame and right click to display the menu options Preview mode options Options with saved image dde Gor Loewe 5 Troubleshooting Before you contact support it is recommended that you read over this section to see if you can resolve the problem by yourself To make this as easy as possible we have created a list of the mos
21. h Rear Panel Rear Panel N Smart Dark Chamber UV Drawer Lens IIlumination Control Panel 2 Overview Optical Bench The MiniLumi optical bench houses a quality CCD camera with a high speed lens both sealed by design and the filter wheel The lens is controlled semi manually iris zoom and focus adjustments using the UP DOWN switches in the lens illumination control panel CCD Camera High speed Lens Filter Wheel The filter wheel can be modified to eight different positions which are set manually Samples are usually stained with specific dyes to make certain areas visible In order to make dyed area stand out other wavelengths must be blocked or filtered out thus the system only detects the light emitted from the dye stained sample The filter which is used for blocking other wavelengths is located just below the lens The system supports many filters and as standard is provided with orange and green filters For more information about available filters please contact your DNR representative The Smart Dark Chamber The Smart Dark Chamber houses the following lights for different illumination options e Two UV light tubes for Epi UV illumination optional located above and on either side of the UV Drawer EY Two UV light tubes for Epi UV illumination 2 Overview e Four White Light LEDs for Epi WL illumination located in four corners and above the UV lights Four White Light LEDs
22. he camera uses to build an image Image size is also measured in pixels Pseudo colors Using pseudo colors to color an image artificially can reveal textures and qualities within the image that may not have been apparent with the original coloring Essentially the pseudo color module populates the image based on its grayscale value which maps to the full RGB color range Therefore red and yellow warm colors indicate oversaturated areas and blue cold color indicates under saturated areas in the image Green indicates midrange levels 4 Operating Instructions Resolution The amount of detail that the camera can capture is called the resolution and it is measured in pixels The more pixels a camera has the more detail it can capture 7 Index Advanced Save with Hardware Integration 40 Brightness 11 Setting 35 Calibration Camera 31 CCD 50 Exposure 11 34 Setting 34 Gain 11 34 Setting 34 Image Statistics Graph 45 Imaging Tools Inverted Image 46 Overexposure 4 7 Pseudo Color 46 Using 45 Installing 13 Camera Drivers 22 GelCapture 15 Maintenance 13 Menu Bar 11 Buttons 12 Open An image 35 Preview 11 33 Requirements Minimum PC Requirements 14 Safety Requirements 13 Saving 36 Advanced Save 11 Hardware Integration 40 Options 40 Setup Hardware 15 Software 15
23. he image according to the defined settings Capturing progress and other parameters are displayed in the lower half of the screen gt Acquire image GelCapture File Edit View Help pe A Lal ses F j r PHA EN EII g Display Acquisition Parameters Camera Exposure 0 43 sec Gain 0 Brightness 0 gt 9 Abort i Quantity caw Grey Level Count 631805 Edge 46 3 Peak 256 Min 0 Max 528 Median 176 Min C gt Image tif Image2 tif Restore Original Contrast Stretching Set step size 100 12 Click Abort if you would like to stop running the process 13 Click Return to go back to GelCapture s main screen 44 4 Operating Instructions Imaging Tools GelCapture provides you with several imaging tools to alter the appearance of an image when portions of the image are too dull or too dark thereby making it unclear Use the Inverted Image Pseudo color and Overexposure settings to assist you in examining the quality of the image before sending it for analysis When you use Imaging Tools to make changes and then save the image the image is saved with its original information However when the image is reopened in GelCapture the changes you made and saved are displayed For example if you invert an image and then save it the next time you open the image in GelCapture the image appears inverted However if you open the same inverted and saved image in other image analysis s
24. ing of the image This option helps reveal low concentrations of biological samples in the gel Control the step size of each click on a given Min Max slider arrow by setting the step size to a value between 1 and 1000 Inverted Image Inverted image inverts the color scale i e light areas appear dark and dark areas appear light much like a negative This feature is particularly useful when you need to decipher close bands To Invert an Image 1 Click the Invert Image icon 2 Click the icon again to revert to the original view of the image Pseudo color Pseudo color lets you view an image in one of two ways 1 One color such as orange green or blue similar to the actual color of the sample For example samples dyed in Coomassie Brilliant Blue are colored blue with pseudo color 2 Color spectrum indicating the hot and cold areas of the image In this mode the colors are based on the image s grayscale where red refers to the maximum and blue refers to the minimum grayscale levels 3 ARF pand a O 4 Operating Instructions To View an Image in Pseudo color 1 Click the Pseudo color E icon 2 Click the Pseudo color icon again to revert to the original view of the image Overexposure Overexposure occurs when the camera lens receives too much light which usually results in white or bright areas that will produce faulty analysis results Therefore as soon as you d
25. ise Gain setting range 0 25 To Set the Gain e Move the Gain slider to the right in slow increments Gain 0 A 4 Operating Instructions Brightness The Brightness feature lets you display brighter images by changing the level of pixel energy detection Increasing brightness of an image will reduce its clarity As with the Gain feature start at a low setting and gradually increase brightness until you are satisfied with the resulting image Brightness setting range 0 255 To Set the Brightness e Move the Brightness slider to the right NA Open Image To Open an Image File 1 Click the Open image A icon 2 Select the image to open from the DNR File Open dialog window DNR File Open Look in eo Preload C e e Documents and Settings WINDOWS My Recent drivers Documents Eylam 1386 IBMTOOLS Icons MSOCache Program Files RECYCLER RRbackups SUPPORT SWSHARE S5WTOOLS System Volume Information My N File name Ime o Places Files of type tiff Files Cancel 3 Click Open The selected image appears in the viewing area 4 Operating Instructions Saving Features Most software programs have Save or Save As options for saving a file GelCapture has the Save and Advanced Save features for saving images in TIFF mode and Save Image with Reference for capturing images of a sample dyed with both fluorescent and visible dyes Saving When
26. nce image adjustment Copy the Reference and press Done when finished Darker Brighter 7 The combined image is shown in the main GelCapture screen A dialog box will ask you if you are Satisfied with the image s Display AY Previous Acaunito Parameter Came A om ae pos E Quantity Grey Level Count 1224324 Edge 3132 Peak 11712 Mir 0 Max 65520 Mediar 12528 A Are you satisfied with the image te GE E Restore Original Contrast Stretching Set step ace 100 4 Operating Instructions 8 Click Yes to continue the image merge process or click No if you would like to edit standards of the image Saving Options In addition to saving the image according to your settings GelCapture lets you define additional saving parameters which are selectable from the DNR File Save window My Network File name Image hd Places Save as type TIFF Files tf xj Cancel TIFF File Save Options Super resolution C 16 Bit Pixel Spot Filter 8 Bit Pixel Add Parameters To Image Select from the following options e Super resolution Increases the image resolution by four fold by software e Spot Filter Decreases grainy gel phenomenon e Add Parameters To Image Adds camera acquisition parameters to the image e 16 or 8 Bit Pixel Saves the image in 16 or 8 bit TIFF format Advanced Save with Hardware Integration In addition to the standard saving feature
27. nonnnnonanoconnnnos 15 Installing GelCapture from CD Windows Vista Business OS occccccnnncccnnnonaconnnononaccnnnonaronononanoss 18 Installing the Camera Driver Windows XP PrO ooocccccccnnccccncnnncccnncnnnccnnnnonanononononacnnnnonarocononanoss 22 Installing the Camera Driver Windows Vista Business OS oocnccnccnnnccnnncnnaccnnncnnnccnnnnonarocnnonanoss 25 Camera Call atl Ms laica 31 EA A O A o e E E O 32 OperatineInstruUctONS ii in cin Meacaaevee 33 Sample DELE De N 33 Previewmng an MAA A adas 33 CAPTAR TE AA A A A A 34 EO SUNS UII Me Sepa seeteces ecco a icacie eam oe serean tae dalidiiadces 34 A a e RC 34 BS HUMES S ir ais 35 OPENIMOTO Tere etre eT eI T CC TT OTIC ESAS ASA IAEA eC eres Teeter err cree eee 35 SAVINO FEO OS ta A AAA A OI 36 RA O 36 DAVIS OPIO Sada aia dio 40 Advanced Save with Hardware INtCQration ssscccccssssesecessnnssecccsaseccsssaeseecessausecssaaueeesssauneecessaens 40 imagino TOS RT A AS A A EIA 45 rs O NE 45 verte Pe de ty Tne a dl ee eee 46 Pseudo CO la Ni 46 OST A A O eee tenement T a neces 47 Rep ON OFInterestiROI na as 47 Troublesho0 NR oa cUenaoo 49 A A aoe duausnanes pouadenstoane aeseeaseee ease 50 1 Introduction The MiniLumi system is a semi automated versatile imaging workstation that supports both fluorescent and colorimetric visible dyes applications The system includes the MiniLumi unit and GelCapture an intuitive easy to use acquisition and operation soft
28. nter a name for the image select the required TIFF saving options and click Save BE DNR File Save Save in MiniLumi e ey Edy Name Date modif Type Size y Recent Places A Desktop This folder is empty 29 307 x Network File name mage v Save as type TIFF Files tif a TIFF File Save Options 16 Bit Pixel C 8 Bit Pixel 3 Follow the instructions in the window and click OK 1 Please Turn Off The UV Light If Any 2 Set The Epi WL Before Taking The Reference Image 4 Operating Instructions 4 The following will be displayed onscreen Reference Image Save Revert Cancel Copy Copy Inverted Reference image adjustment Copy the Reference and press Done when finished Darker Brighter 5 Use the adjustable green frame to select the area with the standards you want to save choose Darker or Brighter if necessary and click Copy or Copy Inverted to copy an image reference in inverted mode Reference Image Save J Copy Inverted Reference image adjustment Copy the Reference and press Done when finished Darker Brighter E J J 4 Operating Instructions 6 Click Done to finish saving the image with reference or click Revert to reset to the original image or click Cancel to cancel the entire Save Image with Reference process Reference Image Save Cancel Revert Copy Copy Inverted Refere
29. oftware the image appears as it did when you originally captured it i e not inverted Read the following section to learn more about Imaging Tools Image Statistics Graph The Image Statistics Graph provides you with an illustrated version of the image data to help you capture images optimally When you Preview an image the Image Statistics Graph is displayed on the left Other information is displayed below the graph Quantity Grey Level Count 67323 Edge 1944 1 Peak 65023 Min 12689 M ax 12799 M edian O Set step size foo 4 Operating Instructions Quantity Gray Level Count Edge Peak Min Max Median Min Max sliders Restore Original Contrast Stretching Set step size Gray level amount Gray level type 0 65 535 The number of gray levels in the image Refers to image sharpness The grayscale value with the highest number of pixels Indicates the lowest reading in the statistical curve Indicates the highest reading in the statistical curve A maximum of 65 535 indicates the highest rating The median grayscale is the value in the exact middle between the maximum grayscale and the minimum grayscale of the image Manually change the image stretch level by clicking the right or left green arrows or by moving the slider Moving the Min Max sliders will result in different image Min Max gray levels Restores any stretching actions to the original image values Auto increase the stretch
30. our system and includes safety requirements maintenance PC requirements software installation and more Once you have completed these steps your MiniLumi should be completely operational GelCapture installation instructions for Windows Vista Business Operating System are provided on page 18 The camera driver installation instructions for Windows Vista Business Operating System are provided on page 25 Safety Requirements When connecting the FireWire cable from the unit to the FireWire card installed in PC pay close attention to the cable connector shape at the unit end and connect it properly IMPROPER CONNECTION WILL RESULT IN IRREVERSIBLE DAMAGE TO THE CAMERA Ensure the AC power outlet is properly grounded to protect both the personnel and the equipment Verify that all devices are turned off before making any connections Place the MiniLumi unit at least 30 cm 12 inches away from walls and ceiling Do not store below 2 C The recommended operating conditions for MiniLumi are 25 C 5 78 F 15 5 and 55 relative humidity Maximum ambient temperature 28 c maximum ambient humidity 80 Do not store the system in direct sunlight or in the direct flow of the air conditioner Do not clean the system with harmful solvents Only use a soft cloth dampened with water and then with 70 Ethanol Only use a 4A fuse for an acceptable range of 100 240V Do not open the unit Due to the danger of exposure to high voltage only traine
31. pen Tiff Image Save image Print Ctrl F Print Preview Print Setup Follow the instructions in the window and click OK to start calibration To turn the Light Table OFF switch the Epi UV Trans UV switch and the Epi WL switch off as displayed in the image below UV amp WL switched OFF Epi WL Epi uv 1 Please Turn Off The Light Table 2 Close The Iris 3 Remove the sample if any 4 Close The System Door OK Gancel 5 The CCD Calibration Progress window appears and displays the Bias images and Dark images calibration progress while the system creates reference pictures for the CCD camera CCD Calibration Progress 6 After calibration is completed the GelCapture successful calibration window will be displayed Calibration files have been created successfully Ready to Start Your MiniLumi system is now set up and ready for use The following chapter will provide detailed explanations on how to operate the system Read the rest of this guide before using your MiniLumi unit For your convenience the system is provided with a Quick Reference Guide that includes the operating instructions 4 Operating Instructions The MiniLumi and GelCapture system lets you configure and fine tune various features to optimally capture different sample types This chapter provides detailed explanations on how to preview capture and save an image Note The unit automatically shuts off after 5 idle minut
32. performed Select the additional tasks you would like Setup to perform while installing GelCapture then click Next 5 Verify that the installation information is correct before you click Install 5 Setup GelCapture Ready to Install Setup le now ready to begin installing GelCapture on pour computer Click Install to continue with the installation or click Back if you want to review or change any settings Destination locations C Program Files OM A GelCapture Setup type MiniLumi Selected components GelCapture 4 software MinLurmi Additional tasks Icons Create desktop icon Cancel 17 3 Installing MiniLumi and GelCapture 6 Once installation is completed click Finish to exit Setup 5 Setup GelCapture Completing the GelCapture Setup Wizard Setup has finished installing GelCapture on your computer The application may be launched by selecting the installed icons Click Finish to exit Setup Installing GelCapture from CD Windows Vista Business OS To install GelCapture Windows Vista Business OS 1 In the CD right click the installation file GelCaptureVistaSetup exe and select Run as administrator The drop down list will close after the selection is made Open Run as administrator Scan for Viruses Always Available Offline Restore previous versions Send To Cut Copy Create Shortcut Delete Rename Properties In the CD again locate the Gel
33. r to the preferred starting time and click Start Time on the left Our example uses 0 70 seconds for the Start time of the first image 0 88 seconds for the second image 1 06 seconds for the third and so on Delay between images 4 Operating Instructions 4 Set the Exposure time slider to the preferred ending time and click End Time on the right 5 Our example shows an End Time of 1 42 seconds for the last image in the process 6 After setting the exposure times for all the images in the series you can then change the exposure time for a specific image by left clicking the Exposure box for that image BEN 088 ec 10sec isee 10sec 8 After the box is checked you can change the delay of any image by left clicking the Delay box of that image Oc l 9 Click the Continue button in the bottom left of the screen 4 Operating Instructions 10 The DNR File Save window will be displayed In the Save As dialog box enter a name for the image and select the preferred TIFF File Save Options DNR File Save Save in MiniLumi er FA 4 My Recent Documents Desktop My Documents y My Computer D My Network File name Image X es Places Save as type TIFF Files tif Cancel TIFF File Save Options Super resolution 16 Bit Pixel Spot Filter C 8 Bit Pixel Add Parameters To Image Crop Image to view size 11 GelCapture will begin to capture and then save t
34. river Software Generic 1394 Desktop Camera Select the device driver you want to install for this hardware Select the manufacturer and model of your hardware device and then click Next f you NOT have a disk that contains the driver you want to install click Have Disk Y Show compatible hardware Model DNR Camera DNR MiniLumi 14SOM A This driver is not digitally signed Tell me why driver signing is important 17 After successfully completing the driver update the successful update window will be displayed Click Close e Som WW Q Update Driver Software DNR MiniLumi 1450M Windows has successfully updated your driver software Windows has finished installing the driver software for this device DNR MiniLumi 1450M Vy 18 Close the Device Manager and Control Panel windows 19 The MiniLumi camera driver is now installed and ready for use Camera Calibration After the unit and software are set up the camera must be calibrated before it can be used Calibration must also be performed any time a different computer is connected to the MiniLumi unit It is also advised to calibrate the system annually as part of preventive maintenance procedures To Calibrate the Camera 1 Open GelCapture by double clicking the desktop icon 2 From the File menu select Camera Calibration 3 mie Procedure Edit wiew He Installing MiniLumi and GelCapture Live Off GelCapture O
35. st the lens using the iris focus and zoom controls on the MiniLumi unit This can only be done manually using the MiniLumi lens buttons and the changes are immediately seen in GelCapture s screen 3 In GelCapture set the camera parameters Exposure Time Gain and Brightness GelCapture is now ready to save an image of the sample 5 Save the image or click Preview to recapture or start with a new image An explanation on how to save an image is provided further below Capturing an Image This section will describe how to use the Exposure Time Gain and Brightness sliders Exposure Time Exposure time is basically the amount of time available for the camera sensor to collect emitted light from the sample to form an image Therefore increased exposure time means more time for light to reach the camera sensor to display sections of the image that were not visible with a lower exposure time To Set the Exposure Time e Move the Exposure slider to the right to increase exposure time Exposure times range from 10 milliseconds up to 30 seconds C Gain Gain essentially means an increase or decrease in strength of an electrical signal in a camera Increase in gain will brighten darker areas of the image as well as any electronic background noise When adding gain start at a low setting and gradually increase the gain until you are satisfied with the resulting image Slow increments in gain will minimize any possible background image no
36. stallation wizard starts automatically In the Welcome window click Next to continue ie Setup GelCapture Welcome to the GelCapture Setup Wizard This will install GelCapture 5 0 on pour computer lbs recommended that you close all other applications before continuing Click Next to continue or Cancel to exit Setup i Cancel 3 Installing MiniLumi and GelCapture 2 Inthe Select Destination Location window select the preferred destination to install to or click Next to continue By default the system is installed to C Program Files DNR GelCapture ic Setup GelCapture Sele Select Destination Location Where should GelCapture be installed Setup will install GelCapture into the following folder To continue click Nest IF you would like to select a different folder click Browse Browse Ab least 23 8 MB of free disk space is required 3 From the drop down menu select MiniLumi and click Next is Setup GelCapture Select Components Which components should be installed Select the components you want to install clear the components you do not want to install Click Next when you are ready to continue Cancel 3 Installing MiniLumi and GelCapture 4 Inthe Select Additional Tasks window choose if you want to create a GelCapture desktop icon Click Next to continue installation ie Setup GelCapture Ea fx Select Additional Tasks Which additional tasks should be
37. switch switches 2 Overview Rear Panel The power connection safety fuses and cables are all located in the rear panel of the unit On Off switch Powers the unit ON or OFF Two 4 ampers safety fuses MiniLumi uses both fuses to operate if one of the fuses blows it must be replaced AC power connector This cable powers the unit The unit is supplied with destination specific cable either 110V or 220V FireWire cable Camera voltage and communication cable GelCapture The GelCapture application seamlessly integrates with the MiniLumi unit thereby giving you complete control of configuration capturing and saving sample images on your PC for analysis The friendly GUI lets you perform common actions with a single click of a button or icon The following image displays the application s main screen Live Off GelCapture Menu Bar rk Icons Toolbar gt bel EME S Bee ltt ds ak Preview Advanced Save _____ Blo sue TE Brightness 0 Brightness E m Viewing area 2 Overview Application Features Menu Bar Icons Toolbar Preview Adv Save Exposure Time Gain Brightness Viewing Area The drop down menus contain all of the software s features Commonly used functions can be triggered with a click of an icon from the top toolbar Preview the image in live mode make adjustments before capturing or save the imag
38. t common problems and their possible solutions The camera is not recognized after turning MiniLumi on Possibly due to an improper camera FireWire card cable connections e Verify that the FireWire cable is stable in the appropriate PC port My captured images are extremely fuzzy or blurry Possibly due to faulty camera and lens adjustments or improper illumination and filter settings e First adjust the zoom according to the sample size then adjust the iris and focus Settings e Be sure that the illumination source and the chosen filter are appropriate for the examined sample dye e Check the viability of the lamp if the bulb edges are black the bulb must be replaced The images taken with my MiniLumi are very dark Possibly due to improper camera and lens settings or improper filter or illumination settings e Open the Iris e Increase the exposure time e Verify that the illumination source and filter settings are appropriate for the examined sample The image is partially black Possibly the filter wheel is not positioned properly e Rotate the filter wheel to the proper position 6 Glossary CCD A charge coupled device CCD is a light sensitive integrated circuit that stores and displays the data for an image in such a way that each pixel in the image is converted into an electrical charge with intensity relative to a gray level in the grayscale The MiniLumi system has a black and white sensor with 65
39. uit Moritor MD Network acapters MR 1394 Net Adapter MD intel FRO 100 VE Network Connector Ports COMA LPT Ad Communications Port COM2 ort PT 2 System devices A Universal Se al Bue cora cliers 8 Click Update Driver 9 Install the driver as follows a Inthe Hardware Update Wizard window choose No not at this time and click Next Hardware Update Wizard Welcome to the Hardware Update Wizard Windows will search for current and updated software by looking on your computer on the hardware installation CD or on the Windows Update Web site with your permission Read our privacy policy Can Windows connect to Windows Update to search for software O Yes this time only O Yes now and every time connect a device 3 Installing MiniLumi and GelCapture b Inthe next window select Install from a list or a specific location Advanced and click Next Hardware Update Wizard This wizard helps you install software for Generic 1394 Desktop Camera If your hardware came with an installation CD or floppy disk insert it now What do you wantthe wizard to do O Install the software automatically Recommended Click Next to continue c Select Don t search will choose the driver to install and click Next Hardware Update Wizard Please choose your search and installation options SS Y C Search for the best driver in these locations Use
40. ware to provide a compact and fully integrated imaging solution The MiniLumi system is packaged with a CD containing both a Quick Reference Guide and this User Manual To better utilize your system read Chapter 3 on Installing MiniLumi and GelCapture before proceeding with the rest of the manual Once your system is installed and operational you can then familiarize yourself with the system s different features and procedures Everything you need to know about your MiniLumi system is included in this manual The highlighted chapter below contains information you may need to refer to in your day to day use of the MiniLumi system and is therefore also provided as a Quick Reference Guide for your convenience Chapter 1 Introduction 2 Overview 3 Installing MiniLumi and GelCapture 4 Operating Instructions 5 Troubleshooting 6 Glossary 7 Index Topics Covered An introduction to the manual and the topics covered in it A brief look at the system s key features A step by step guide for installing your system Operating instructions from basic to advanced A list of the most common issues and how to resolve each one A list of terms used in this guide and their meaning 2 Overview The MiniLumi unit houses a high resolution CCD camera which is fully controlled by the GelCapture software The lens zoom iris and focus illumination and filter wheel are controlled manually at the unit System Overview The gel sampl
41. you simply want to save an image click the Save icon from the toolbar When you need advanced saving abilities choose the Advanced Save option Read the following sections to learn more about saving To Save an Image 1 Detect the image in Preview mode after setting your preferences 2 Click the Save z icon or the Save 3 The DNR File Save dialog window appears DNR File Save F fe e Ed Save Ii research a My Recent Documents Desktop my document gs me compte hi H elwork File name Ime sss Save as Ippe TIFF Fies rti o Cancel TIFF File Save Options Super resolution 16 BkPixal Spot Filter f B Bit Prel Add Parameters To Image Browse to where you want the image to be saved 5 Enter a name for the image in the DNR File Save window and select the required Saving Options see page 40 for an explanation about these options 6 Click Save 7 The file is saved to the selected directory Save Image with Reference Normally in order to detect samples that were dyed with both fluorescent and visible colorimetric dyes you would need more than one image With the unique Save Image with Reference feature you only need to save one image of a multi dyed sample thus making your work more efficient 4 Operating Instructions To Save an Image with Reference 1 Click the Preview icon and wait for the image to be displayed E 2 Click the Save Reference icon In the File Save window e
42. ys settings Device Manager Y Advanced system setting Upgrade Windows Vista O system protection System Rating Windows Experience Index Processor Intel R Core TM 2 Duo CPU E7400 2 80GHz 2 53 GHz Memory RAM 2037 MB System type 32 bit Operating System Computer name domain and workgroup settings Computer name Prod_VISTA Change settings See also Full computer name Prod_VISTA Windows Update Computer description Security Center Workgroup WORKGROUP Performance Windows activation 5 Turn your MiniLumi unit ON and connect the camera FireWire cable from MiniLumi to your computer s FireWire port The Device manager should recognize the newly connected device and alert you r Ey Device Manager HE neck File Action View Help es OB mee NE Sg PROD_VISTA Computer sq Disk drives AE Display adapters 3 DVD CD ROM drives 23 Floppy disk drives ol Floppy drive controllers Bi Human Interface Devices C IDE ATA ATAPI controllers IEEE 1394 Bus host controllers 2 Imaging devices Device i Generic 1394 Desktop Camera lio eyboards ef Be Be PY Mice and other pointing devices A Monitors EP Network adapters J Ports COM amp LPT Bp Processors a Sound video and game controllers lt gt Storage controllers g amp l System devices Universal Serial Bus controllers Manager Alert EEE B
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