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Thermo Scientific Applied Biosystems SeqStudio Genetic Analyzer User Manual

Thermo Scientific Applied Biosystems SeqStudio Genetic Analyzer
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For Research Use Only. Not for use in diagnostic procedures.
SeqStudio
Genetic Analyzer Instrument and
Software
USER GUIDE
for use with:
SeqStudio
Data Collection Software v1.2
SeqStudio
Plate Manager
SeqStudio
Remote Monitoring App
SAE Administrator Console v2.0
SeqStudio
Genetic Analyzer Cartridge (Cat. No. A33671)
SeqStudio
Genetic Analyzer Cartridge v2 (Cat. No. A41331)
Publication Number MAN0018646
Revision A.0

Table of Contents

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Thermo Scientific Applied Biosystems SeqStudio Genetic Analyzer Specifications

General IconGeneral
BrandThermo Scientific
ModelApplied Biosystems SeqStudio Genetic Analyzer
CategoryMeasuring Instruments
LanguageEnglish

Summary

Product Information

Instrument Overview

Provides a description of the Applied Biosystems SeqStudio Genetic Analyzer and its capabilities.

Parts of the Instrument

Details the front and interior components of the SeqStudio Genetic Analyzer.

SeqStudio™ Genetic Analyzer Consumables

Lists available consumables for the SeqStudio Genetic Analyzer, including cartridges and buffer containers.

Software Features

Describes the functionalities of the SeqStudio software applications like Data Collection and Plate Manager.

Network Connection Options

Explains the different ways the SeqStudio Genetic Analyzer can connect to a network or computer.

Prepare the Samples and the Instrument

Precautions for Use

Highlights safety hazards and precautions associated with operating the instrument.

Prepare the Samples

Provides guidelines for sample preparation for fragment and sequence analysis.

Prepare the Instrument

Details steps for preparing the instrument, including checking consumables status.

Use the Instrument with the Connect Cloud-Based Platform

Understanding Instrument and Connect Cloud-Based Platform Interaction

Explains the interaction between the instrument and the Connect cloud-based platform.

Link the Instrument to Your Connect Cloud-Based Platform Account

Provides instructions on how to connect the instrument to the Connect cloud-based platform account.

Connect Cloud-Based Platform Administrators for an Instrument

Details the roles and functions of administrators for instruments on the Connect platform.

Use the Instrument with the Security, Auditing, and E-signature (SAE) v2.0 Module

Overview of the Security, Auditing, and E-signature (SAE) v2.0 Module Components

Describes the three main components of the SAE v2.0 module: Console, Server, and Client.

Sign In with SAE Enabled

Explains how to sign in to the instrument when the SAE module is enabled.

E-signature Requirements When You Start a Run

Details the e-signature requirements that may be enforced before starting a run.

Create or Modify a Plate Setup from the Plate Manager

Overview of Plate Setup Settings

Explains the various settings available for plate setup in the Plate Manager.

Set Up a Plate Using Default Settings (Plate Manager)

Guides users on creating a new plate setup using default settings via the Plate Manager.

Additional Plate Settings (Plate Manager)

Covers advanced plate settings like specifying replicate injections in the Plate Manager.

Create or Modify a Plate Setup from the Instrument

PSM and CSV Plate Setup Files for Import into the Instrument

Describes the PSM and CSV file formats for importing plate setups into the instrument.

Set Up a Plate Using Default Settings (Instrument)

Instructions for creating or importing a plate setup directly on the instrument.

Set Optional Plate Settings (Instrument)

Details how to configure optional settings for a plate setup on the instrument.

Start and Monitor a Run

Load the Plate or the Tube Assembly

Steps for loading plates or tubes into the instrument's autosampler.

Select a Plate Setup and Start a Run

Guidance on selecting a plate setup and initiating a run on the instrument.

Monitor a Run from the Instrument

How to view the status and results of a run directly on the instrument's touchscreen.

View and Analyze Results

View Results on the Instrument

Instructions for viewing run results and analyzing data on the instrument.

Analyze Data

Guidance on using secondary analysis software to analyze exported data.

Export Results from the Instrument (Sample Data Files and QC Reports)

Steps for exporting data files and quality control reports from the instrument.

Manage the Software (Plate Manager)

Manage Run Modules

Instructions for managing and creating run modules within the Plate Manager software.

Manage Size Standards

Details on managing size standard definitions used for fragment analysis.

Manage Analysis Settings

Guidance on managing analysis settings for sequencing and fragment analysis.

Manage the Software (Instrument)

Connect the Instrument to a Network Drive

Steps for connecting the SeqStudio Genetic Analyzer to a network drive.

Link the Instrument to Your Connect Cloud-Based Platform Account

Instructions for linking the instrument to the Thermo Fisher Connect cloud platform.

Manage Run Settings (Instrument)

Details on managing run modules, read lengths, and run times for the instrument.

Maintain the Instrument

Regular Maintenance Tasks

Covers routine maintenance procedures for the instrument, including buffer checks.

Manage the Cartridge

Information on cartridge storage, handling, and history tracking.

Install Cathode Buffer

Instructions for installing and assembling the SeqStudio Genetic Analyzer Cathode Buffer Container.

APPENDIX A Troubleshooting

Troubleshooting Workflow

Provides a general workflow for troubleshooting instrument issues.

Data Quality Alerts

Explains common data quality alerts and their recommended actions.

Instrument Troubleshooting

Addresses common problems and solutions related to instrument operation.

Sample and Data Troubleshooting

Covers troubleshooting steps for issues related to samples and data analysis.

APPENDIX B Link the Instrument to Your Connect Cloud-Based Platform Account—Detailed Instructions

Workflow: Set Up the Instrument for Connect Cloud-Based Platform Access

Outlines the steps to set up instrument access for the Connect cloud-based platform.

Link the Instrument from a Mobile Device

Instructions for linking the instrument to the Connect platform using a mobile device.

Link the Instrument Using a Link Code

Steps to link the instrument to the Connect platform using a unique link code.

APPENDIX C Dye Calibration and Install Standard Checks

Calibrate Dyes

Procedures for performing system dye calibration and managing custom dyes.

Perform an Install Run

Instructions for performing install runs to ensure instrument performance.

APPENDIX D Create and Run an HID Plate

HID Analysis Requirements

Details the requirements and components needed for HID analysis.

Workflow: HID Analysis

Provides a step-by-step workflow for performing HID analysis.

Manage Kits (HID Applications Only)

Instructions for managing kit files for HID applications in the software.

E Run Modules

Run Modules, Read Lengths, Size Ranges, and Run Times

Information on available run modules, their read lengths, size ranges, and run times.

F Parts and Materials

Required Materials Not Supplied

Lists software, equipment, consumables, and reagents not included with the instrument.

G Instrument Specifications and Layout

Instrument Dimensions

Provides the physical dimensions and weight of the SeqStudio Genetic Analyzer.

Environmental Requirements

Specifies the acceptable environmental conditions for instrument operation.

Electrical Requirements

Details the electrical specifications, including voltage, power, and protective devices.

Safety Requirements

Outlines safety practices and required safety equipment for laboratory personnel.

H Safety

General Safety

Provides essential general safety guidelines for using the instrument and handling chemicals.

Instrument Safety

Details safety precautions related to instrument operation, electrical hazards, and lasers.

Chemical Safety

Guidelines for the safe handling, storage, and disposal of chemicals.

Biological Hazard Safety

Information on safely handling biological samples and preventing infectious disease transmission.

Documentation and Support

Related Documentation

Lists related user guides, bulletins, and other documentation for the SeqStudio system.

Customer and Technical Support

Provides contact information and resources for technical support and product inquiries.

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