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Table of Contents
Related Manuals for Thermo Scientific Ion Torrent S5
Summary of Contents for Thermo Scientific Ion Torrent S5
- Page 1 USER GUIDE ™ ™ Ion Torrent S5 and Ion Torrent S5 Sequencer Catalog Numbers A27211, A27213 Publication Number MAN0010811 Revision A.0 For Research Use Only. Not for use in diagnostic procedures. CONFIDENTIAL — For Life Technologies Internal Use Only. Do Not Distribute.
- Page 2 The information in this guide is subject to change without notice. DISCLAIMER LIFE TECHNOLOGIES CORPORATION AND/OR ITS AFFILIATE(S) DISCLAIM ALL WARRANTIES WITH RESPECT TO THIS DOCUMENT, EXPRESSED OR IMPLIED, INCLUDING BUT NOT LIMITED TO THOSE OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE, OR NON-INFRINGEMENT. TO THE EXTENT ALLOWED BY LAW, IN NO EVENT SHALL LIFE TECHNOLOGIES AND/OR ITS AFFILIATE(S) BE LIABLE, WHETHER IN CONTRACT, TORT, WARRANTY, OR UNDER ANY STATUTE OR ON ANY OTHER BASIS FOR SPECIAL, INCIDENTAL, INDIRECT, PUNITIVE, MULTIPLE OR CONSEQUENTIAL DAMAGES IN CONNECTION WITH OR ARISING FROM THIS DOCUMENT, INCLUDING BUT NOT LIMITED TO THE USE THEREOF.
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Page 3: Table Of Contents
CHAPTER 4 Instrument operation ........16 ™ ™ Power the Ion Torrent S5 or Ion Torrent S5 XL Sequencer on or off ....16 Power on . - Page 4 ™ Ion Torrent S5 Sequencer alarms and events ........26 Chip Check .
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Page 5: About This Guide
“Safety” appendix in this document. Revision history Revision Date Description ™ ™ Ion Torrent S5 and Ion Torrent S5 XL Instrument November 2014 User Guide for compliance testing. Purpose of the guide ™ ™ The Ion Torrent S5 and Ion Torrent S5 XL Instrument User Guide (Pub. -
Page 6: Chapter 1 Product Information
Product information Contents ™ ™ The Ion Torrent S5 and Ion Torrent S5 XL Systems (Catalog nos. A27212, or A27214) contain the following boxes and components. ™ Ion Torrent S5 System (Catalog no. A27212) Components Catalog no. ™ Ion Torrent S5... -
Page 7: Required Materials And Equipment
Chapter 1 Product information Required materials and equipment Required materials and equipment The following tables list required materials and equipment that are not provided with ™ the Ion Torrent S5 Systems. Table 1 Required materials and equipment for sequencing Description Supplier Catalog no. -
Page 8: Update The Software
IMPORTANT! Significant vibration during sequencing may add noise and reduce the ™ quality of the measurements. The Ion Torrent S5 System must be installed on a bench that is free from vibrations or in contact with equipment that can cause vibrations to the bench (freezers, pumps, and other similar equipment). -
Page 9: Chapter 2 System Components
System must be connected to the Ion Torrent ™ Server by a standard Category 6 Ethernet cable. We do not troubleshoot data transfer issues associated with an indirect connection between the Ion Torrent S5 ™ ™ Sequencer and the Ion Torrent Server. -
Page 10: Internet Connectivity
Thermo Fisher Scientific field service engineer to correct the problem at your own expense. In providing outbound access to the internet from the server, you enable the Thermo Fisher Scientific support team to provide inbound support. Both the Ion Torrent S5 ™ ™... -
Page 11: System Component Positions
(FAQ) and the Torrent Server Administrator Guide in the Torrent Suite section of the Ion Community website (http:// ioncommunity.lifetechnologies.com). The FAQ provides information that you can use to prepare Ion Torrent S5 ™ Systems and servers within the umbrella policies of your site. -
Page 12: And Ion Torrent S5
Chapter 2 System components Ion Torrent S5 ™ and Ion Torrent S5 ™ XL Sequencer input and output connections ™ ™ Ion Torrent S5 and Ion Torrent S5 XL Sequencer input and output connections USB ports – Connects the barcode reader On/off switch –... -
Page 13: Chapter 3 Create A Planned Run
You create planned runs using the Torrent Browser and then select the appropriate ™ ™ plan in the Select Planned Run screen of the Ion Torrent S5 or Ion Torrent S5 Sequencer when you are ready to perform the run (see t_Start the sequencing run). -
Page 14: Planned Run Wizard: Key Fields
Select the instrument and kit used to prepare the templated Ion ™ ™ Ion Sphere Particles. ™ Sequencing Kit Select the Ion Torrent S5 Sequencing Kit. Chip Type Select the chip type you are using. Flows Enter the appropriate number of flows for the sequencing kit and read length. - Page 15 Thresholds Sequence. In the Ion Proton Torrent Browser Monitor4Runs in Progress tab, an alert is displayed if the values for a run fall below the selected thresholds. Ion Torrent S5 ™ andIon Torrent S5 ™ XL Instrument User Guide CONFIDENTIAL — For Life Technologies Internal Use Only. Do Not Distribute.
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Page 16: Chapter 4 Instrument Operation
XL Sequencer on or ™ Power on Note: If the Ion Torrent S5 Sequencer is powered on, and the touchscreen is blank, touch the screen to "wake" the touchscreen. 1. Locate the power switch on the back of the instrument and turn to the on (|) position. -
Page 17: Select The Planned Run And Perform The Run
Note: You can also select Planned Run (none), then enter your run information on the following screen, but selecting a predefined planned run is recommended. 3. Confirm the pre-populated settings are correct, or make changes using the buttons and drop-down lists if necessary. Ion Torrent S5 ™ andIon Torrent S5 ™... -
Page 18: Update The Ion Torrent S5 ™ System Software
Suite Browser to review the results. ™ Update the Ion Torrent S5 System software ™ Note: An internet connection is required for the Ion Torrent S5 System to receive alerts that software updates are available. ™ If an update to the Ion Torrent S5 Sequencer software is available, the red “Alarms... -
Page 19: Clean The Instrument
4. Using absorbent paper soak up as much liquid as possible, then wash the affected area with 10% bleach solution. 5. Wipe the affected surfaces with IPA wipes, then allow to air-dry. Ion Torrent S5 ™ andIon Torrent S5 ™... -
Page 20: Ion Torrent S5 ™ Andion Torrent S5 ™ Xl Instrument User Guide
• The Run program walks you through steps leading up to and through sequencing, including: – Placing a loaded chip on the instrument. – Selecting a planned run created in the Torrent Server Software. – Performing sequencing. Ion Torrent S5 ™ andIon Torrent S5 ™ XL Instrument User Guide... -
Page 21: Appendix A Touchscreen Reference
Note: It is not necessary/recommended to shut down the instrument overnight or over the weekend. If necessary to shut down the instrument, see “Power off“ on page 16. Ion Torrent S5 ™ andIon Torrent S5 ™ XL Instrument User Guide... -
Page 22: Touchscreen Gauges
If the icon is red, see . LAN (local area network) status. Icon turns red when instrument is not connected to the network. Instrument status. Green (shown) = ready to use. Red (pulsing) = in use. Ion Torrent S5 ™ andIon Torrent S5 ™...
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