Gel Doc XR and ChemiDoc XRS Systems Hardware Instruction Manual Rev A

Important Please read these instructions before attempting to install or operate the Molecular Imager® Gel Doc™ XR or ChemiDoc™ XRS. Note: This instrument is suitable for research use only. It must be used, therefore, only by specialized personnel that know the health risks associated with UV radiation, and with the reagents that are normally used with this instrument. Use of the acrylic screen does not guarantee protection of the user from UV radiation. The use of protective eyeglasses or mask and gloves, is strongly recommended.

Wichtig Bitte lesen Sie die Anweisungen und machen Sie sich mit der Bedienungsweise vertraut, bevor Sie den Hood benutzen. Anmerkung: Dieses Geraet ist nur fuer Forschungszwecke geeignet. Ausserdem ist die Benutzung nur fuer spezialisiertes Personal gedacht, das mit den Gesundheitsrisiken vertraut ist, die an die UV-Strahlung gebunden sind und den Reagentien, die normalerweise mit diesem Geraet benutzt werden.Die Benutzung eines Plexiglasschutzschildes garantiert dem Benutzer keinen Schutz vor UV-Strahlung. Die Benutzung von Schutzbrille oder Schutzmaske ist strengstens empfohlen.

Warranty The Gel Doc XR and ChemiDoc XRS systems are warranted against defects in materials and workmanship for 1 year. If any defect occurs in the instrument during this warranty period, Bio-Rad Laboratories, Inc. will repair or replace the defective parts at its discretion without charge. The following defects, however, are specifically excluded: • Defects caused by improper operation • Repair or modification done by anyone other than Bio-Rad Laboratories, Inc. or an authorized agent • Use of spare parts supplied by anyone other than Bio-Rad Laboratories, Inc. • Damage caused by accident or misuse • Damage caused by disaster • Corrosion caused by improper solvents or samples

Garantie Die Garantie fuer den Hood betraegt 1 Jahr auf Herstellungs- und Materialfehler. Bei Auftreten von Fehlern waehrend der Garantiezeit repariert oder ersetzt Bio-Rad Laboratories, Inc. die fehlerhaften Teile auf eigene Kosten. Die folgenden Schaeden sind in jedem Falle ausgeschlossen: • Schaeden durch unsachgemaesse Bedienung bedingt • Instandsetzungen oder Veraenderungen durch nicht authorisiertes Personal von Bio-Rad Laboratories, Inc. • Benutzung von Ersatzteilen, die nicht von Bio-Rad Laboratories, Inc. geliefert wurden • Schaeden durch Naturkatastrophen verursacht • Schaeden durch unsachgemaessen und fehlerhaften Gebrauch verursacht • Korrosionsschaeden durch ungeeignete Loesungen oder Proben

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Regulatory Notice IMPORTANT: The Gel Doc XR and ChemiDoc XRS systems are designed and certified to meet EN61010, the internationally accepted electrical safety standards, EMC regulations, and TUV. Certified products are safe to use when operated in accordance with the instruction manual. This instrument should not be modified or altered in any way. Modification or alteration of this instrument will: • Void the manufacturer’s warranty • Void the regulatory certifications • Create a potential safety hazard NOTE: Bio-Rad Laboratories, Inc. is not responsible for any injury or damage caused by use of this instrument for purposes other than those for which it is intended or by modifications of the instrument not performed by Bio-Rad Laboratories, Inc., or an authorized agent.

Richtlinien WICHTIG: Dieses Geraet, von Bio-Rad Laboratories, Inc. konstruiert, besitzt das Zertifikat ENC1010 anerkannt von dem internationalen elektrischen Sicherheitsstandard EMC und unterliegt dessen Richtlinien und TUV. Die Geraete sind sicher im Gebrauch, wenn die vorliegende Bedienungs- anleitung beachtet wird. Dieses Geraet darf auf keinen Fall veraendert werden. Eventuelle Veraenderungen fuehren zu: • Ungueltigkeit der Herstellergarantie • Ungueltigkeit des Zertifikats • Eventuelles Sicherheitsrisiko Bemerkung: Bio-Rad Laboratories, Inc. haftet nicht fuer Verletzungen an Personen oder Sachschaeden, hervorgerufen durch eine nicht vorhergesehene Benutzung des Geraetes. Ebenso uebernimmt Bio-Rad Laboratories, Inc. keine Haftung fuer Veraenderungen, die von nicht authorisierten Personen durchgefuehrt wurden.

General Precautions • • • • • •

Please read the instruction manual carefully The instrument must be used only for the intended purpose of gel documentation in research laboratories The instrument must be connected to a power source line which MUST BE grounded and protected by a circuit breaker Do not pour liquids directly on or inside the instrument Switch off all the lights immediately after use Clean the transilluminator platen after use

Generelle Vorsichtsmassnahmen • • • • • •

Bitte die Bedienungsanleitung aufmerksam lesen Das Geraet darf nur fuer die vorgesehenen Applikationen eingesetzt werden, d.h. Geldokumentation in Forschungslaboratorien Fuer die Stromversorgung des Hood muss eine geerdtete Steckdose benutzt werden Keine Fluessigkeiten auf oder in das Geraet giessen Die Lampe sofort nach dem Gebrauch ausschalten Den UV-Filter des transilluminators nach Gebrauch reinigen 4

TABLE OF CONTENTS SECTION 1 INTRODUCTION ...6 1.1 COMPUTER REQUIREMENTS ...6 SECTION 2 IMPORTANT SAFETY INFORMATION ...7 2.1 IMPORTANT NOTICE ...7 2.2 POWER SAFETY INFORMATION ...7 SECTION 3 PRODUCT DESCRIPTION...8 3.1 CCD CAMERA AND LENSES ...8 3.2 DARKROOM ENCLOSURE, EMISSION FILTERS, AND ILLUMINATION SOURCES ...8 3.3 USB AND FIREWIRE CONNECTIONS ...9 3.4 QUANTITY ONE SOFTWARE ...9 3.5 PRINTER (OPTIONAL) ...9 3.6 UNPACKING THE SYSTEM...10 SECTION 4 GETTING STARTED...14 4.1 SELECTING A LOCATION ...14 4.2 ASSEMBLING THE SYSTEM ...14 4.2.1 ASSEMBLING THE UNIVERSAL HOOD II ...14 4.3 GEL DOC XR SYSTEM ...15 4.3.1 INSTALLING THE GEL DOC XR CAMERA ...15 4.3.2 INSTALLATION OF QUANTITY ONE SOFTWARE FOR GEL DOC XR...16 4.3.3 GEL DOC XR SYSTEM CABLE CONFIGURATION ...20 4.4 CHEMIDOC XRS SYSTEM ...22 4.4.1 INSTALLATION OF QUANTITY ONE SOFTWARE FOR CHEMIDOC XRS ...23 4.4.2 CHEMIDOC XRS SYSTEM CABLE CONFIGURATION...28 4.4.3 FIREWIRE CARD INSTALLATION ...29 4.5 INSTALLING THE WHITE LIGHT TRANSILLUMINATOR (OPTIONAL)...29 4.6 INSTALLING THE OPTIONAL 17 MM OR 25 MM WIDE-ANGLE LENSES (CHEMIDOC XRS SYSTEM ONLY) ...30 4.7 DESCRIPTION OF SYSTEM FUNCTION AND SYSTEM INITIALIZATION ...32 4.7.1 CONTROL PANEL ...32 SECTION 5 OPERATION OF THE UNIVERSAL HOOD II ...39 5.1 OPERATING THE UNIT ...39 5.1.1 SWITCH ON THE UNIVERSAL HOOD II ...39 5.1.2 POSITION YOUR GEL...39 5.1.3 ACQUIRING AN IMAGE ...39 5.1.4 ACQUIRING AN IMAGE WITH FLAT FIELDING ...39 5.2 CUTTING GELS ...41 SECTION 6 TROUBLESHOOTING ...42 SECTION 7 ACCESSORIES AND REPLACEMENT PARTS ...43 SECTION 8 MAINTENANCE AND PARTS REPLACEMENT ...45 8.1 EPI ILLUMINATION LAMP REPLACEMENT ...45 8.2 FUSE REPLACEMENT ...45 8.3 UV TRANSILLUMINATOR ...46 8.4 LAMP REPLACEMENT...46 APPENDIX A: TECHNICAL SPECIFICATIONS ...48

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Section 1 Introduction The Bio-Rad Gel Doc™ XR and ChemiDoc™ XRS gel documentation systems are easy-to-use, highperformance systems. They use a charge coupled device (CCD) camera to capture images in real time, which allows you to more accurately position and focus the image. With Bio-Rad Quantity One® software, acquired images can be optimized, annotated, analyzed and printed. The Bio-Rad Gel Doc XR and ChemiDoc XRS systems utilize an enclosure (Universal Hood II) that is light-tight and contains UV illumination and white light illumination. Please note that both the Gel Doc XR and ChemiDoc XRS cameras have external power supplies.

1.1 Computer Requirements This software will run under Windows XP, Vista Ultimate, or Mac OS X. The amount of computer memory required for using the program is mainly determined by the size of the images you will scan and analyze. Images scanned at high resolution can be quite large. For this reason, we recommend that you archive images on a network file server or removable storage media. Specifications

PC

MAC

Operating system

Windows XP or Vista Ultimate

Mac OSX 10.5.x

Base unit

Intel Core 2 Duo, minimum 2.0 Power PC G4 or better GHz RAM >2 GB >2GB Cache memory >2 MB > 2 MB Hard disk space >120 GB >120 GB Video card 128 MB video memory minimum, 128 MB video memory minimum, capable of generating minimum capable of generating minimum 1024 x 768 pixels 1024 x 768 pixels Camera connection ports One full height empty PCI slot Available FireWire port required (ChemiDoc XRS only) (ChemiDoc XRS only) Communication ports 4 USB 2.0 ports 4 USB 2.0 ports

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Section 2 Important Safety Information 2.1 Important Notice Both the Gel Doc™ XR and ChemiDoc™ XRS imaging systems are intended for laboratory use only. Use of the Gel Doc XR, and ChemiDoc XRS systems involve UV illumination. Proper precautions must be taken to avoid eye and skin exposure to the UV radiation. This instrument is meant for use only by trained personnel that know the health risks associated with UV radiation and with reagents that are normally used with this instrument. The acrylic shield provides some UV protection. However, it does not guarantee complete protection, and it is designed to shield only the person working in front of the system. WARNING: The operator should wear appropriate safety glasses, or a protective mask and gloves, in addition to using the UV safety shield provided with this instrument. Anmerkung: Dieses Geraet ist nur fuer Forschungszwecke geeignet. Ausserdem ist die Benutzung nur fuer spezialisiertes Personal gedacht, das mit den Gesundheitsrisiken vertraut ist, die an die UV-Strahlung gebunden sind und den Reagentien, die normalerweise mit diesem Geraet benutzt werden. Die Benutzung eines Plexiglasschutzschildes garantiert dem Benutzer keinen Schutz vor UV-Strahlung. Die Benutzung von Schutzbrille oder Schutzmaske ist strengstens empfohlen.

2.2 Power Safety Information a) Voltage Setting Information: The Universal Hood II has a power supply that automatically chooses the correct voltage for your country or region. b) Fusing: The Universal Hood II has two user-serviceable fuses, F1 and F2, which are located on the bottom rear panel and are a part of the power entry module (see below). Fuse F1 and F2 are located in this drawer. Use a screwdriver and pull the drawer out to see the fuses.

Main power entry module

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Section 3 Product Description 3.1 CCD Camera and Lenses A CCD camera is placed on top of the Universal Hood II for capturing images. The camera comes with a motorized zoom lens (MZL) that allows a remote adjustment of the lens control functions (zoom, focus, and iris). For ChemiDoc™ XRS systems optional lenses with low f-numbers are available that offer extreme light collection efficiency for low-light applications like chemiluminescence. Lens f/0.95, 25 mm, wide-angle Lens f/0.95, 17 mm, wide-angle

catalog #170-8072 catalog #170-8073

3.2 Darkroom Enclosure, Emission Filters, and Illumination Sources The Universal Hood II is designed to capture fluorescent and chemiluminescent images without using a photographic darkroom. The enclosure has built-in white light epi-illumination and UV transillumination. An optional white light transilluminator (catalog #170-7950) or a white light conversion screen (catalog #170-8001) may also be used with the system. For easy sample loading, the UV transilluminator is located in the drawer of the Universal Hood II and can be accessed from the front of the enclosure. For your convenience, the lights in the darkroom enclosure turn off automatically after about 15 minutes. This time period can be extended indefinitely by pressing the Hold button. The Universal Hood II has a three-position filter slider that offers the flexibility of using two different emission filters for fluorescent applications as well as the ability to image chemiluminescent samples (no filter). Bio-Rad Laboratories, Inc. offers a selection of filters and illumination sources. Standard Filter 580AF120 62 mm

Comes with each system. Ethidium Bromide filter

Catalog # 170-8081

Optional Filters 520DF30 62 mm

Can be purchased for optimal performance. Optional filter for SYBR Green/SYBR Gold/GFP/ fluorescein Optional filter for Cy3/rhodamine Optional filter for SYPRO Ruby Optional filter for Hoechst/coumarin

170-8074 170-8075 170-8076 170-8077

560DF50 62 mm 630BP30 62 mm 480BP70 62 mm

Optional Illumination Sources White light transilluminator White light conversion screen 302 nm UV lamps, 6 (shipped standard with each system) 254 nm UV lamps, 6 365 nm UV lamps, 6

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170-7950 170-8001 170-8097 170-8098 170-6887

3.3 USB and FireWire Connections The Universal Hood, common to both Gel Doc XR and ChemiDoc XRS systems, requires a USB connection in order to communicate with the PC. The Gel Doc XR camera has a USB connection that connects to the Hood. However, the ChemiDoc XRS camera is directly connected to the PC and will need a FireWire port to communicate with the PC, which is where the user interface software is installed. In case of PCs that do not offer a FireWire (IEEE1394) interface, in order to connect the ChemiDoc XRS system, a FireWire card (included as an accessory) needs to be installed in the host computer to communicate with the camera. Note: Read and follow the instructions for installing the USB cable (Gel Doc XR) or FireWire cable (ChemiDoc XRS), card, drivers, and software in the following sections.

3.4 Quantity One® Software Each system ships with a full version of Quantity One 1-D Analysis Software and unlimited copies of Quantity One Basic software for data sharing. The software can be used to annotate and document images, analyze molecular weights, print, and perform a host of other applications. See the software manual for detailed instructions on how to install and operate the software. Note: Read and follow the instructions in the following pages prior to installing Quantity One software.

3.5 Printer (Optional) For your convenience, Bio-Rad offers an optional USB printer for use with the Gel Doc XR and ChemiDoc XRS systems: Mitsubishi P93DW Thermal Printer

catalog #170-8089

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3.6 Unpacking the System Gel Doc XR Components The Gel Doc XR and ChemiDoc XRS systems consist of multiple components. Each of them may be in a separate box or in one box with a label describing the catalog numbers and its contents. Please make sure that all the system components are in your shipment. Please unpack each component carefully and verify that you have the correct one. Each system includes the following: Catalog # 170-8170 170-8162 170-8169 170-8080 170-9600

Descriptions Gel Doc XR System PC/Mac Universal Hood II with TLUM 100/240 V Gel Doc XR Camera w/MZL(motorized zoom lens) Kit Accessory, Universal Hood II Quantity One Software PC/Mac

Universal Hood II with TLUM 100/240V

Gel Doc XR camera with MZL & power supply 10

……… 6 ft USB cable

10 ft USB cable

580 AF 120 Band Pass Filter (EtBr)

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Quantity One software

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ChemiDoc XRS Components Catalog # 170-8070 / 1708071 170-8162 170-8099

170-8173 170-8080 170-8008 170-9600 170-8177

Descriptions ChemiDoc XRS System PC/Mac Universal Hood II with TLUM 100/240 V ChemiDoc XRS camera with MZL (including camera controller cable and power supply) FireWire card (PC system only) Kit accessory, Universal Hood II Fluorescent reference plate Quantity One software PC/Mac FireWire cable

ChemiDoc XRS Camera with MZL and Power Supply

Firewire card

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Section 4 Getting Started 4.1 Selecting a Location The Gel Doc™ XR and ChemiDoc™ XRS systems can be placed on any benchtop. The best position is near the computer where Quantity One® is operating. Remember to leave space to easily access the power switch on the Universal Hood II, which is located at the rear bottom-left side of the enclosure.

4.2 Assembling the System 4.2.1 Assembling the Universal Hood II Important: It is recommended that the Universal Hood II be carried by at least two people holding the instrument from the bottom side. Be sure that the door and the drawer are completely closed. Wichtig: Es wird empfohlen, dass mindestens zwei Personen den Hood transportieren und dabei das Geraet am Geraeteboden halten.

1. 2. 3. 4. 5.

Lift the top lid off the main box. Open the accessory box and review the unpacking instructions. Lift off the top foam. Lift the cardboard enclosure off the pallet. Remove the plastic wrapping and carefully lift the enclosure from the bottom foam, and place it in a suitable location.

Note: Please do not connect the power cable to a power source until all connections are made. The power source has to be grounded and protected by a circuit breaker.

6. Locate the band pass filter in the accessory kit and thread it onto one of the two 62 mm rings of the Filter Slider (inside of the hood). The filter slider facilitates the selection between two filters and an open position for chemiluminescence. 7. The three selectable positions are indicated by NO FILTER, FILTER 1, or FILTER 2. on the right side of the camera support. Note the position of the 580 AF 120 Ethidium Bromide filter for future use. See picture below.

Three positions sliding filter 14

4.3 Gel Doc XR System If you have purchased the ChemiDoc XRS System, proceed to page 22 for installation insructions.

4.3.1 Installing the Gel Doc XR Camera 1. Place the camera on the bench sideways as shown. Take out the lens cap and put it a safe place. Take out the thumb screw from the box and assemble it to the camera bracket exactly as shown. 2. Place the thumb screw as shown.

Gel Doc XR camera with bracket, MZL, and thumb screw

3. Place the Camera over the Universal Hood II by inserting the lens into the hole in gasket and seating the lens on the gasket while the thumb screw is positioned on the camera bracket as shown. The thumb screw slides through the slot in the vertical camera bracket on the Hood. 4. Secure the thumb screw (see pictures below). Make sure that the camera/lens is fully seated on the gasket and is upright. 5. The camera position can be fine adjusted in all directions; loosen the two Phillips head screws and move the entire assembly, along with the bracket.

Thumb screw

Phillips head screws

Closeup of Gel Doc XR camera mounted with thumb screw 15

4.3.2 Installation of Quantity One Software for Gel Doc XR Quantity One ships with the CD and the HASP key.

HASP key

For a PC computer – Quantity One installation

1. Insert CD for Quantity One. 2. When the Installer launches, select Install Quantity One.

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3. The Select Features screen has Quantity One and HSK Support selected as default. 4. In addition, select Gel Doc XR drivers.

5. Click on the pull down arrow, next to X on Gel Doc XR Drivers. 6. Select “Will be installed on local hard drive.”

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7. Finish Installation. 8. Insert the HASP key in the USB port. 9. Restart the computer. For MAC computer – Quantity One installation

1. Insert CD. It appears as an icon on the desktop. 2. Open the CD by clicking on the icon. 3. Select Install Quantity One.

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4. Select Custom Install.

5. Select Quantity One and Gel Doc XR drivers, users guide is optional.

6. Click on Install. 7. Insert the HASP key in the USB port. 8. Shut down and restart the computer.

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4.3.3 Gel Doc XR System Cable Configuration Camera connections

Power supply connector

USB connector

Connecting the cabling harnesses 1. Locate the 6 ft USB cable. Connect one end of the USB cable connector to the USB port on the camera. Connect the other end to the corresponding port on the rear panel on the Universal Hood that says ‘TO CAMERA’. 2. The camera power supply cable should be plugged into the CCD camera power connector. 3. Connect the MZL (Motorized Zoom Lens, page 13) cable connector to the connector labeled LENS on the rear panel of the Universal Hood. 4. Connect the 10 ft USB cable from the Universal Hood to the PC. 5. The main power cable that connects the Universal Hood to the power outlet. The following table describes the cable/connectors and their designations. Label 10 ft USB connector/cable 6 ft USB connector/cable Camera power supply cord/power supply MZL (motorized zoom lens) cable Power cable

Instrument/Connection From hood to PC From camera to hood Camera/PWR connector Hood/LENS Din connector Connects the Hood to the power outlet on the wall

See the cabling diagram on the following page.

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Power cable from power supply

USB cable

Figure 1

MZL cable To main power outlet 110/240 VAC

USB cable

This completes the installation of the Gel Doc Camera and Quantity One software. Proceed to Section 4.7 on page 32 for a description and initial test for the Universal Hood II.

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