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abi 7500 User Manual

abi 7500
260 pages
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Applied Biosystems
7500/7500 Fast
Real-Time PCR System
Relative Standard Curve and
Comparative C
T
Experiments
Getting Started Guide

Table of Contents

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abi 7500 Specifications

General IconGeneral
Instrument TypeReal-Time PCR System
Detection MethodFluorescence
Sample Capacity96-well plate
Temperature Accuracy±0.25°C
Temperature Uniformity±0.5°C
Number of Channels5
Detection Channels5
ManufacturerApplied Biosystems
Thermal Range4°C to 100°C
Ramp RateMax 3.5°C/sec
Heating Rate3.5°C/sec
Cooling Rate2.5°C/sec
Software Versionv2.3
Power Requirements100-240 V, 50/60 Hz

Summary

Get Started

About the 7500/7500 Fast System

Introduces the Applied Biosystems 7500/7500 Fast Real-Time PCR System and its capabilities.

Supported Consumables

Lists the consumables supported by the 7500 and 7500 Fast systems.

About Relative Standard Curve and Comparative CT Experiments

Explains relative standard curve and comparative CT (ΔΔCT) experiments in real-time PCR.

How to Use This Guide

Explains how to use this guide as a tutorial and for performing own experiments.

Design the Relative Standard Curve Experiment

Chapter Overview

Explains how to use the Design Wizard to set up the relative standard curve example experiment.

Create a New Experiment

Describes how to create a new experiment using the Design Wizard in the 7500 software.

Define the Experiment Properties

Enter identifying info, select instrument type, and experiment type.

Define the Methods and Materials

Select quantitation method, reagents, ramp speed, and PCR template.

Set Up the Targets

Enter number of targets and set up the assay for each target.

Set Up the Standards

Enter number of points and replicates for standard curves.

Prepare the Relative Standard Curve Reactions

Chapter Overview

Explains how to prepare PCR reactions for the relative standard curve example experiment.

Prepare the Template

Prepare template for PCR reactions using the High-Capacity cDNA Reverse Transcription Kit.

Prepare the Sample Dilutions

Perform sample dilutions before adding samples to the final reaction mix.

Prepare the Reaction Mix

Prepare reaction mix using components and volumes calculated by the 7500 software.

Run the Relative Standard Curve Experiment

Chapter Overview

Explains how to perform a run on the Applied Biosystems 7500/7500 Fast Real-Time PCR System.

Prepare for the Run

Open example experiment file and load sealed reaction plate into the instrument.

Start the Run

Starts the 7500/7500 Fast instrument run after preparation.

Monitor the Run

View run progress in real time and check available plots for problems.

Analyze the Relative Standard Curve Experiment

Chapter Overview

Explains how to review analyzed data and publish it, and troubleshoot questionable results.

Analyze the Experiment

Analyzes the experiment and displays results in analysis screens.

View the Standard Curve

Displays the standard curve and calculates quantity of unknown target.

View the Amplification Plot

Displays amplification of all samples in selected wells, showing plots.

Design the Comparative CT Experiment

Chapter Overview

Explains how to use Design Wizard for comparative CT (ΔΔCT) example experiment setup.

Create a New Experiment

Describes creating a new experiment using the Design Wizard in the 7500 software.

Define the Experiment Properties

Enter identifying info, select instrument type, and experiment type for the study.

Define the Methods and Materials

Select quantitation method, reagents, ramp speed, and PCR template.

Set Up the Targets

Enter number of targets and set up the assay for each target.

Set Up the Samples

Enter number of samples, replicates, and negative controls.

Prepare the Comparative CT Reactions

Chapter Overview

Explains how to prepare PCR reactions for the comparative CT example experiment.

Prepare the Template

Prepare template for PCR reactions using the High-Capacity cDNA Reverse Transcription Kit.

Prepare the Sample Dilutions

Perform sample dilutions before adding samples to the final reaction mix.

Prepare the Reaction Mix

Prepare reaction mix using components and volumes calculated by the 7500 software.

Run the Comparative CT Experiment

Chapter Overview

Explains how to perform a run on the Applied Biosystems 7500/7500 Fast Real-Time PCR Systems.

Prepare for the Run

Open example experiment file and load sealed reaction plate into the instrument.

Run the Experiment

Performs the run by following procedures from Chapter 4.

Analyze the Comparative CT Experiment

Chapter Overview

Explains how to review analyzed data, publish it, and troubleshoot results.

Analyze the Experiment

Analyzes the experiment and displays results in analysis screens.

View the Gene Expression Plot and Well Table

Displays relative quantitation results in gene expression profile and well table.

View the Amplification Plot

Displays amplification of all samples in selected wells, showing plots.

Publish the Data

Describes ways to publish experiment data, like saving or printing plots.

View the QC Summary

Displays software flags, frequency, and location for the open experiment.

Omit Wells from the Analysis

Removes wells with insufficient amplification or outliers from analysis.

View the Multicomponent Plot

Displays spectral contribution of each dye in a selected well over PCR duration.

View the Raw Data Plot

Displays raw fluorescence for each optical filter during each PCR cycle.

Perform a Study of Multiple Experiments

Combines analysis of experiments using the comparative CT method.

Appendix A Alternate Experiment Workflows

Advanced Setup Workflow

Sets up an experiment using Advanced Setup for custom design.

QuickStart Workflow

Runs reactions with no reaction plate setup information.

Template Workflow

Uses a template to create new experiments with same setup information.

Export/Import Workflow

Sets up a new experiment using setup data exported from another experiment.