Qiagen PyroMark Q96 ID User manual

Version 5 January 2016
Sample & Assay Technologies
PyroMark®Q96 ID User Manual

Contents
PyroMark Q96 ID User Manual 01/2016 Contents-1
Contents
1Safety Information 1-1
1.1 Proper use 1-1
1.2 Electrical safety 1-2
1.3 Chemical hazards 1-3
1.4 Mechanical hazards 1-3
1.5 Heat hazards 1-4
1.6 Symbols used on the PyroMark Q96 ID 1-4
2Introduction 2-1
2.1 About this user manual 2-1
2.2 General information 2-2
2.2.1 Technical assistance 2-2
2.2.2 Policy statement 2-2
2.2.3 Version management 2-2
2.3 Intended use of the PyroMark Q96 ID 2-3
2.3.1 Requirements for PyroMark Q96 ID users 2-4
3General Description 3-1
3.1 PyroMark Q96 ID definitions 3-1
3.2 Pyrosequencing principle 3-1
3.3 PyroMark Q96 ID principle 3-3
3.4 External features of the PyroMark Q96 ID 3-5
3.5 Internal features of the PyroMark Q96 ID 3-6
3.6 Process chamber 3-6
3.7 Dispensing unit 3-6
3.8 Controls and indicators 3-7
3.8.1 Front panel 3-7

Contents
Contents-2 PyroMark Q96 ID User Manual 01/2016
3.8.2 Rear panel 3-7
3.9 Computer and software 3-8
4Installation Procedures 4-1
4.1 Instrument delivery and installation 4-1
4.2 Requirements 4-1
4.3 Moving the PyroMark Q96 ID 4-3
4.4 Reinstalling the PyroMark Q96 ID: Stand alone 4-4
4.5 Reinstalling the PyroMark Q96 ID: Network installation 4-4
4.6 Connecting mains power 4-5
4.7 Setting up network properties 4-5
4.7.1 Used IP addresses f or instrument and computer 4-5
5Operating Procedures 5-1
5.1 Required items 5-1
5.2 Starting the system 5-1
5.2.1 Starting the PyroMark Q96 ID 5-1
5.2.2 Starting the PyroMark Q96 Software 5-2
5.3 Preparing a run 5-2
5.3.1 Setting up an assay 5-2
5.3.2 Setting up a run 5-3
5.3.3 Managing instrument parameters 5-4
5.4 Sample preparation 5-6
5.4.1 Assembly of the PyroMark Q96 Vacuum Workstation 5-7
5.4.2 DNA amplification 5-7
5.4.3 Immobilization of the PCR product to beads 5-8
5.4.4 Strand separation 5-9
5.4.5 Annealing of sequencing primer to samples 5-14
5.4.6 Reagent preparation 5-14
5.5 Run 5-15
5.5.1 Loading the PyroMark Q96 Plate Low 5-15

Contents
PyroMark Q96 ID User Manual 01/2016 Contents-3
5.5.2 Loading the reagent cartridge 5-16
5.5.3 Starting the run 5-17
5.5.4 Monitoring the run 5-17
5.6 Post-run procedures 5-18
5.6.1 Analyzing the run 5-18
5.6.2 Viewing the analysis results 5-19
5.6.3 Analysis reports 5-22
5.7 Finishing work 5-23
5.7.1 After a run is finished 5-23
5.7.2Leaving the instrument on 5-23
5.7.3 Exiting PyroMark Q96 Software 5-24
5.7.4 Cleaning the instrument 5-24
5.7.5 Emptying the waste container and troughs 5-24
6PyroMark Q96 Software 6-1
6.1 System requirements 6-1
6.1.1 Operator’s and office computers 6-1
6.1.2 Printer 6-1
6.1.3 Data storage device 6-1
6.2 Installing PyroMark Q96 Software 6-1
6.3 Uninstalling PyroMark Q96 Software 6-2
6.4 Upgr ading from PyroMark Q96 ID Sof tware 6-2
6.4.1 Installing the PyroMark Data Converter Tool 6-3
6.4.2 Using the PyroMark Data Converter Tool 6-3
6.5 Data backup 6-5
6.6 Installation testing 6-5
7Maintenance 7-1
7.1 Shutdown procedure 7-2
7.2 Routine maintenance of the PyroMark Q96 ID 7-2
7.3 Cleaning the lens array 7-3