S1000™ Thermal Cycler Instruction Manual Catalog #184-2000 #185-2196 #185-2197 #185-2148 #185-2138
S1000 Thermal Cycler Manual Copyright ©2009 Bio-Rad Laboratories, Inc. Reproduction in any form, either print or electronic, is prohibited without written permission of Bio-Rad Laboratories, Inc. Windows XP and Windows Vista are trademarks of Microsoft Corporation. LICENSE NOTICE TO PURCHASER This base unit, Serial No.
S1000 Thermal Cycler Manual Bio-Rad Laboratories Resources Table 1 lists Bio-Rad resources and how to locate what you need. Table 1. Bio-Rad resources Resource How to Contact Local Bio-Rad Laboratories representatives Find local information and contacts on the Bio-Rad Laboratories website by selecting your country on the home page (www.bio-rad.com).
S1000 Thermal Cycler Manual Safety Warning Labels Warning labels posted on the instrument and in this manual warn you about sources of injury or harm. Refer to Table 2 to review the meaning of each safety warning label. Table 2. Instrument safety warning labels Icon Meaning CAUTION: Risk of danger! This symbol identifies components that pose a risk of personal injury or damage to the instrument if improperly handled.
S1000 Thermal Cycler Manual Safety and Regulatory Compliance This instrument has been tested and found to be in compliance with all applicable requirements of the following safety and electromagnetic standards (Table 4). Table 4. Conditions for safe use Usage Aspect Conditions for Safe Use Rated input power 100–240 VAC, 50–60 Hz Fuses 10 A, 250 V, 5 x 20 mm, fast blow (qty.
S1000 Thermal Cycler Manual reasonable protection against harmful interference when the equipment is operated in a commercial environment. This equipment generates, uses, and can radiate radio frequency energy and, if not installed and used in accordance with the instruction manual, may cause harmful interference to radio communications.
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S1000 Thermal Cycler Manual Table of Contents Bio-Rad Laboratories Resources . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ii Warranty . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ii Safety and Regulatory Compliance. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ii Chapter 1. Introduction to the S1000™ Thermal Cycler . . . . . . . . . . . . . . . 1 System Overview. . . . . . .
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S1000 Thermal Cycler Manual 1 Introduction to the S1000™ Thermal Cycler Read this chapter for information on setting up the S1000 thermal cycler.
S1000 Thermal Cycler Manual • Test port — for service testing only USB B port Test port USB A ports Fuses Power switch Power input Cooling vents Figure 2. Back panel of the S1000 thermal cycler.
S1000 Thermal Cycler Manual The top of a reaction module lid includes a lid lever, lid force knob, and status LED. • Lid lever — opens and closes the lid • Lid force knob — sets lid force and seals the reaction • Status LED — turns on to indicate that the block is selected or running Figure 4 shows the components of a 96-well fast reaction module. Lid Lid force knob Lid lever Status LED Cooling fins Figure 4. Components of a reaction module.
S1000 Thermal Cycler Manual 4. Turn on the thermal cycler using the power switch on the back panel of the thermal cycler base. NOTE: Before operating the thermal cycler, be sure to read the safety specifications (Safety and Regulatory Compliance on page ii) and operating requirements. 5. When the S1000 thermal cycler starts up, it goes through two screens: the black booting and the self-test screens. Once the self-test is run to verify proper functions, the main menu is displayed.
S1000 Thermal Cycler Manual result in damage to the reaction vessels. If this happens, decrease the lid force by turning the lid force knob counterclockwise 1 full turn. Re-apply the correct lid force by following the instructions above. Main Menu The main menu (Figure 5) provides access to all thermal cycler operations and displays the status of the reaction module and the name of the thermal cycler. Name of thermal cycler Options Status message Figure 5. The main window of the S1000 thermal cycler.
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S1000 Thermal Cycler Manual 2 Creating and Editing Protocols Read this chapter for information on creating and editing protocols. • Creating a new protocol (page 7) • Editing an existing protocol (page 10) • Sample volume and lid temperature (page 12) Creating a New Protocol NOTE: The internal memory of the S1000™ thermal cycler can hold up to 400 two-step protocols. To create a protocol: 1. Select NEW from the main menu. Press ENTER to confirm the selection. 2.
S1000 Thermal Cycler Manual 3. Using the arrow keys, select TEMP to enter a temperature step or GRAD to enter a gradient temperature step in the protocol file. Press ENTER to continue to the next screen. NOTE: The first step in a protocol must be either a TEMP or GRAD step. 4. Enter the target temperature between 0 (zero) and 100.0°C for the temperature step. Press ENTER to continue to the next screen. 5. Enter the hold time (TIME) in minutes and seconds using the numeric keys.
S1000 Thermal Cycler Manual In Figure 7, step 5 is a GOTO step. Figure 7. A GOTO step is selected. NOTE: The GOTO step cannot be the first or the last step in the protocol. 13.Enter the step number for the first step in the GOTO repeats using the numeric keys. Press ENTER to continue to the next screen. 14.Enter the number (between 1 and 9999) for the additional repeats (ADDTNL REPEATS) in the GOTO step. Press ENTER to continue to the next screen.
S1000 Thermal Cycler Manual Adding an Option to a Temperature Step To add an option: 1. Select OPTION using the arrow keys. Press ENTER to continue to the next screen. 2. Select the option you want to add to the protocol step using the arrow keys. Press ENTER to continue to the next screen. 3. Enter the option value using the numeric keys. 4. To confirm the parameters of the protocol step, select YES and then press ENTER. To change the parameters, select NO and then press ENTER.
S1000 Thermal Cycler Manual Deleting a Protocol Step 1. Select EDIT from the main menu. Press ENTER to confirm the selection. 2. Using the arrow keys, select the folder that contains the protocol file to be edited. Press ENTER to continue to the next screen. 3. Select a protocol step to delete using the arrow keys. Press ENTER to continue editing the step. 4. Select DEL to delete the selected protocol step. Press ENTER to continue to the next screen.
S1000 Thermal Cycler Manual 8. Press ENTER to finish changing parameters in the step and to continue editing the protocol. Sample Volume and Lid Temperature The sample volume and lid temperature influence the outcome of a PCR protocol. • Sample volume — determines the temperature control mode, which influences the amount of time the samples are held at the target temperature • Lid temperature settings — determine the temperature of the heated lid and when it cuts off.
S1000 Thermal Cycler Manual 3 Running Protocols Read this chapter for information on setting up the S1000™ thermal cycler. • Preparing to run a protocol (page 13) • Monitoring the protocol run (page 14) • Canceling a run (page 15) • Incubating samples (page 15) Preparing to Run a Protocol NOTE: You can run a protocol in a secure folder without entering the password first. See Securing Files in a Folder on page 19 for more information about files in secure folders. To run a protocol: 1.
S1000 Thermal Cycler Manual 4. Select BLOCK A or BLOCK B using the right and left arrow keys. Press ENTER to continue to the next screen. In Figure 10, BLOCK A is selected. NOTE: When a block is selected, the LED on the reaction module lights up. In a dual 48/48-well reaction module, BLOCK A appears on the left side. Figure 10. Block A is selected. 5. Press the numeric keys to enter a new sample volume. Press ENTER to continue to the next screen.
S1000 Thermal Cycler Manual . Protocol steps (by temperature) Hold time for current step (counts up) Target temperature for the current step Flashing thick bar shows current step Figure 12. The graphical screen is displayed. 2. When the S1000 thermal cycler completes running the protocol, the PROTOCOL COMPLETE screen is displayed. After viewing this screen, press ENTER to return to the main menu. Canceling a Run To cancel a running protocol: 1.
S1000 Thermal Cycler Manual 4. Enter the incubation temperature. Press ENTER to accept the default incubation temperature of 75°C, or use the numeric keys to type a new incubation temperature between 0 and 100°C. NOTE: Press PAUSE (.) to enter a decimal point. To delete a number, press CANCEL. In Figure 13, the incubation temperature is 95°C. Figure 13. Enter the incubation temperature. 5. Press ENTER to start the incubation. TIP: During incubation, use any options in the main menu except RUN.
S1000 Thermal Cycler Manual 4 Managing Protocol Files and Folders Read this chapter for information on managing protocol files and folders. Managing Protocol Files and Folders To manage protocol files and folders, select FILES from the main menu to open the file library (Figure 14). The menu of functions in the file library provides options for managing files and folders; it changes based on what is selected in the file library. Folder functions Protocol file functions Figure 14.
S1000 Thermal Cycler Manual 4. Using the arrow keys, select the destination folder. In Figure 15, the copied file is placed into the GRANT folder. Press ENTER to confirm that the protocol was successfully copied. Figure 15. Select the destination folder. 5. Type a new name for the protocol copied file by pressing the up and down arrows to select letters and the numeric keys to type numbers. Press ENTER to accept the selection.
S1000 Thermal Cycler Manual 2. Select RENAME using the arrow keys. Press ENTER to confirm the selection. 3. Using the arrow keys, select the folder that contains the protocol file to be renamed, then press the right arrow key to select the appropriate file. Press ENTER to continue to the next screen. 4. Enter a new protocol file name using the up and down arrows to select letters and the numeric keys to type numbers. Press ENTER to accept the new name and return to the main menu.
S1000 Thermal Cycler Manual move all protocol files before deleting the folder. Once a folder is deleted, it is permanently removed. To delete a folder: 1. Select FILES from the main menu. 2. Select DELETE using the arrow keys. Press ENTER to confirm the selection. 3. Using the arrow keys, select the folder to be deleted. Press ENTER to continue to the next screen. 4. To delete the folder, select YES, then press ENTER to return to the main menu. Select NO to cancel the deletion.
S1000 Thermal Cycler Manual 5 Advanced Tools and Functions Read this chapter for information on advanced tools and functions on the S1000™ thermal cycler. • TOOLS options (page 21) • Controlling S1000 thermal cyclers with a C1000™ or C1000 TouchTM thermal cycler (page 21) TOOLS Options To see the list of instrument settings and tools: 1. Select TOOLS from the main menu.
S1000 Thermal Cycler Manual When connected to a C1000 Touch thermal cycler, the S1000 thermal cyclers can be controlled by either the C1000 Touch thermal cycler or CFX Manager™ software, 2.0 or higher. Connecting S1000 Cyclers Directly to a C1000 or C1000 Touch Cycler To connect up to three S1000 thermal cyclers directly to a C1000 or C1000 Touch thermal cycler, follow these instructions: 1. Plug a high quality, shielded USB cable into the USB B port on the back of the S1000 thermal cycler. 2.
S1000 Thermal Cycler Manual 6 Maintenance and Troubleshooting Read this chapter for information on maintaining the S1000™ thermal cycler and troubleshooting problems on the thermal cycler. • Cleaning and maintaining the S1000 thermal cycler (page 23) • Maintaining sufficient airflow (page 25) • Replacing fuses (page 26) Cleaning and Maintaining the S1000 Thermal Cycler The S1000 thermal cycler requires little maintenance for proper operation and precise thermal control.
S1000 Thermal Cycler Manual WARNING! Do not use abrasive detergents or rough material since they scratch the control panel. • Clean the reaction module bay. Clean with a damp soft cloth to remove debris and spilled liquids. Cleaning the bay allows precise heating and cooling of the reaction block WARNING! Never use cleaning solutions that are corrosive to aluminium. Avoid scratching the surface of the bay, which interferes with precise thermal control.
S1000 Thermal Cycler Manual • Clean the outer lid surface of the reaction module. Use a damp cloth or tissue to clean spills off the outside case. If needed, use a mild soap solution and rinse the surface with a damp cloth. Cleaning the cover prevents corrosion Maintaining Sufficient Airflow The S1000 thermal cycler requires sufficient airflow to precisely heat and cool to the correct target temperature.
S1000 Thermal Cycler Manual Replacing Fuses Fuses on the S1000 thermal cycler are designed to blow in case of severe power surges or other causes of an electrical short. This process protects both the user and the instrument from excessive electric charge. Fuses on the S1000 thermal cycler rarely need to be replaced. However, some institutions prefer to replace fuses on a regular basis to maintain uninterrupted operation.
S1000 Thermal Cycler Manual A air flow cleaning air vents, increasing, 25 maintaining, 25 testing for, 25 air vents cleaning, 23 23 B Bio-Rad Laboratories contact information, ii technical support, ii C C1000 Manager software, 21, 22 C1000 thermal cycler connecting to S1000 cyclers, 22 operating S1000 cyclers, 22 warranty, ii cancelling a run, 15 cleaning the cycler, 23 command keys, 2 CONTRAST, 21 control panel, 2 cleaning, 23 liquid crystal display (LCD), 2 on the C1000 thermal cycler, 21 self-test sc
S1000 Thermal Cycler Manual changing the sample volume, deleting a protocol step, 11 inserting a protocol step, 10 10 F file tree, 9 folder creating new, 19 deleting, 19 password, 19 renaming, 20 fuses replacing, 26 G GOTO step entering, GRADCALC, 8 21 H hold time, 8 extending in a temperature step, I incubating samples, 15 inserting reaction module, instrument tree, 22 3 L LAST RUN screen, 21 LCD, 2 LED, 3 lid lever, 3 lid temperature role in PCR outcome, M main menu list of functions, options, 5
S1000 Thermal Cycler Manual maintenance reaction modules, 24 managing protocol files, 17 managing protocol folders, 17 monitoring a run PROTOCOL COMPLETE screen, Running screen, 14 15 N NAME, 21 navigation keys, numeric keys, 2 2 P password changing, 19 securing a folder, 19 plugging in thermal cycler, 3 PORT, 21 protocol copying, 17 deleting, 18 managing files, 17 managing folders, 17 moving, 18 renaming, 18 PROTOCOL COMPLETE screen, 15 R reaction block reaction vessels, 2 reaction module bay cleani
S1000 Thermal Cycler Manual sample block, 2 specifications, 2 status LED, 3 recommended sample volumes, renaming folder, 20 protocol file, 18 repeats additional, 9 reviewing a protocol, 14 running a protocol, 13 2 S S1000 thermal cycler air flow, 25 safety compliance, iv warning labels, iii sample block, 2 sample volume role in PCR outcome, 12 securing files, 19 SELF TEST, 21 self-test screen, 4 service testing test port, 2 specifications for safe use of instrument, regulatory compliance, iv iv T techn
S1000 Thermal Cycler Manual U unpacking thermal cycler, USB A ports, 1 USB B port, 1, 22 USB cable, 22 3 V VERSION, 21 W warning labels on instrument, warranty, ii iii 31
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