ABI Prism® 7900HT Sequence Detection System ... - OpenWetWare

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Section: Maintaining the Plate Handler In This Section This section contains the following information: Automation Module Components Topic See Page Adjusting the Sensitivity of the Plate Sensor Switch 7-28 Aligning the Plate Handler 7-32 Aligning the Fixed-Position Bar Code Reader 7-40 Cleaning and Replacing Gripper Finger Pads 7-46 Refer to the figure below for the components discussed in this section. Plate stack Expansion stacks Zymark Twister Microplate Handler Fixed-position bar code reader Plate Stack Positions The Zymark Twister Microplate Handler alignment is performed using the Zymark® Twister Software. The software refers to the positions of the plate stacks differently than the Automation Controller Software. The following diagram lists the positions defined by the Zymark Twister Software and the Automation Controller equivalents. (front of instrument) 2 1 3 0 4 7 5 GR2014a 6 Plate-sensor switch (cross-sectional view of the gripper) Bar code Well A1 Zymark Twister Software Adjustment knob Gripper Automation Controller Position 0 Output Position 1 (unused) Position 2 Instrument Position 3 (unused) Position 4 Stack 1 Position 5 Stack 2 Position 6 Stack 3 Position 7 Stack 4 System Maintenance 7-27
Adjusting the Sensitivity of the Plate Sensor Switch When to Perform The plate sensor switch located underneath the arm of the Zymark Twister Microplate Handler requires adjustment under the following circumstances: ♦ When changing sample block module formats ♦ If the plate handler is having difficulty sensing plates Materials Required The following materials are required to adjust the plate sensor switch: Adjusting the Switch The dimensions of different plate formats can place different requirements on how the plate handler grips plates. To ensure smooth operation of the automation accessory, adjust the plate sensor switch when changing consumable formats. 7-28 System Maintenance Material Part Number ABI PRISM Optical Reaction Plate (of the current sample block format) See page D-1 To adjust the plate sensor switch: Step Action 1 Turn off the Zymark Twister Microplate Handler. ! WARNING PHYSICAL HAZARD. The Zymark Twister Microplate Handler must be turned off at all times during the following procedure. Failure to comply can result in physical injury to the user or damage to the plate handler. 2 Clear the switch position by turning the thumb wheel all the way to the Up extreme (as indicated on the side panel). GR2014a Thumb wheel Plate-sensor switch 3 Begin the adjustment of the sensor switch as follows: a. Grasp a 96- or 384-well ABI PRISM Optical Reaction Plate by the sides making sure not to place pressure in the center of the plate to deform it. b. Place the plate between the fingers of the gripper assembly and align it to the middle of the centering device. c. While holding the plate in position, slowly turn the thumb wheel to lower the switch onto the reaction plate until the switch: – Contacts the top of the plate, and – Emits a soft, audible “clicking” noise IMPORTANT The sound emitted by the sensor switch is very faint and may be difficult to hear. To make the adjustment easier, place your ear close to the sensor switch while making the adjustment and listen for the switch to engage.
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ABI PRISM ® 7900HT Sequence Detect
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© Copyright 2001, Applied Biosyste
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iv Section:PlateDocumentSetup......
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vi A Theory of Operation Fluorescen
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Attention Words and Warning Labels
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About Waste Profiles A waste profil
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Safe Instrument Use Before Operatin
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Product Overview 2 In This Chapter
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Section: Getting to Know the Hardwa
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Interchangeable Thermal Cycler Bloc
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Computer Description The computer c
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Zymark Twister Microplate Handler D
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Instrument Connections Electrical C
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Section: Getting to Know the Softwa
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Managing Sequence Detection System
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Getting Started 3 In This Chapter T
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Using the SDS Software Online Help
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Turning on the ABI PRISM 7900HT Seq
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Using the SDS Software Workspace La
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Using the General Toolbar Using the
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Basic Software Skills Tutorial Abou
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Exercise 3: Opening a Plate Documen
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Lesson 2: Viewing and Resizing Pane
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Exercise 2: Selecting Multiple Well
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Lesson 4: Using the Hand-Held Bar C
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Using SDS Plate Documents Using Mul
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Run Setup and Basic Operation 4 In
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Setup Checklists Experiments/Runs P
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Section: Plate Document Setup In Th
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Step 2 - Applying Detectors and Mar
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Creating an Allelic Discrimination
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Step 3 - Configuring the Plate Docu
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Step 4 - Programming the Plate Docu
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To create a method for the absolute
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Step 5 - Saving the Plate Document
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Step 7 - Applying Sample and Plate
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Section: Running an Individual Plat
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Preparing and Running a Single Plat
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Operating the 7900HT Instrument Usi
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After the Run Analyzing the Run Dat
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Section: Running Multiple Plates Us
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Adding a Plate Document to the Plat
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To create plate documents from a te
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Adding Plates to the Plate Queue Re
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Loading Plates To load plates onto
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End-Point Analysis 5 In This Chapte
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Section: Allelic Discrimination In
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Algorithmic Manipulation of Raw All
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Before You Begin Using SDS Online H
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Analyzing a Completed Allelic Discr
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Calling Allele Types To call allele
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Scrutinizing the Allele Calls To an
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After the Analysis Changing the Pla
Page 109 and 110: Real-Time Runs on the 7900HT Instru
Page 111 and 112: Overview About Absolute Quantificat
Page 113 and 114: Before You Begin Using SDS Online H
Page 115 and 116: Analyzing the Run Data Configuring
Page 117 and 118: Setting the Baseline and Threshold
Page 119 and 120: Eliminating Outliers For any PCR, e
Page 121 and 122: Viewing the Standard Curve 6-14 Rea
Page 123 and 124: 6-16 Real-Time Analysis
Page 125 and 126: Overview About Dissociation Curve A
Page 127 and 128: Analysis Checklist WhereYouArein th
Page 129 and 130: Determining T m Values for the Anal
Page 131 and 132: After the Analysis Changing the Pla
Page 133 and 134: Recommended Maintenance Schedule Ma
Page 135 and 136: Replacing the Sample Block When to
Page 137 and 138: 7-6 System Maintenance To remove th
Page 139 and 140: 7-8 System Maintenance To replace t
Page 141 and 142: 7-10 System Maintenance To replace
Page 143 and 144: Cleaning the Sample Block Wells 7-1
Page 145 and 146: Prepare a Background Plate Document
Page 147 and 148: Extracting the Background 7-16 Syst
Page 149 and 150: Materials Required The following ma
Page 151 and 152: Extracting Pure Dye Information fro
Page 153 and 154: Constructing a Custom Pure Dye Plat
Page 155 and 156: Verifying Instrument Performance Us
Page 157: Preparing and Running an RNase P Pl
Page 161 and 162: Testing the Adjustment 7-30 System
Page 163 and 164: Aligning the Plate Handler When to
Page 165 and 166: 7-34 System Maintenance To align th
Page 167 and 168: Re-checking the Input Stack 1 7-36
Page 169 and 170: Defining the Positions of the Remai
Page 171 and 172: Aligning the Fixed-Position Bar Cod
Page 173 and 174: 7-42 System Maintenance To position
Page 175 and 176: 7-44 System Maintenance
Page 177 and 178: General Computer Maintenance Mainte
Page 179 and 180: Maintaining the SDS software Admini
Page 181 and 182: Troubleshooting Table 8-2 Troublesh
Page 183 and 184: Low Precision or Irreproducibility
Page 185 and 186: Writing on the Reaction Plates Fluo
Page 187 and 188: Background Runs Background Troubles
Page 189 and 190: Pure Dye Runs Pure Dye Troubleshoot
Page 191 and 192: 8-12 Troubleshooting Troubleshootin
Page 193 and 194: Software and 7900HT Instrument Trou
Page 195 and 196: 8-16 Troubleshooting Troubleshootin
Page 198: User Bulletins 9 9 About This Chapt
Page 201 and 202: Fluorescent-Based Chemistries Funda
Page 203 and 204: Fluorescence Detection and Data Col
Page 205 and 206: Normalization of Reporter Signals A
Page 207 and 208: Determining Initial Template Concen
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Calculating Threshold Cycles A-10 T
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Importing and Exporting Plate Docum
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Configuring the Setup Table File wi
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About the Setup Table File Format S
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Setup Table Elements (continued) Nu
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Exporting Plate Document Data Expor
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Designing TaqMan Assays C In This A
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Design Probes and Primers The follo
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Design Tips for Allelic Discriminat
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Kits, Reagents and Consumables D In
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Consumables and Disposables The ABI
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TaqMan Pre-Developed Assays and Rea
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Contacting Technical Support F Serv
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G-2 Limited Warranty Statement No a
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A(continued) Automation Controller
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I(continued) installing plate adapt
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Q quantifying probes and primers C-
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Headquarters 850 Lincoln Centre Dri
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