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

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Handling the Sample Block Removing the Sample Block The interchangeable sample blocks are delicate pieces of equipment containing several fragile components that can break if handled improperly. The figure below illustrates the correct locations for handling the interchangeable sample block module. (Bottom of module) To remove the sample block: GR2028 Circuitry and connections to the instrument (Do Not Touch) Heat sinks Hold sample block module from the sides Step Action 1 Launch the Automation Controller Software and perform the following tasks: a. Click the Thermal Status tab, and confirm the function of the current module. The module is operating normally if the software is receiving a temperature reading. b. Click Open/Close to rotate the instrument tray to the OUT position. 2 From the File menu, select Exit to close the Automation Controller Software. 3 Turn off and unplug the 7900HT instrument. ! WARNING PHYSICAL HAZARD. The instrument must be unplugged and turned off at all times during the following procedure. Failure to comply can result in serious physical injury to the user or damage to the instrument. 4 Wait 20–30 min for the heated cover to cool. ! CAUTION PHYSICAL HAZARD. During instrument operation, the temperature ofthesampleblockcanbeashighas100°C. Before performing this procedure, wait until the sample block reaches room temperature. 5 If the instrument tray is in the OUT position (outside of the instrument), push it into the instrument to provide an open work space. 6 If using a Zymark Twister Microplate Handler remove the covers for the fixed-position bar code reader and the underlying platform. GR2009 7 Push the instrument tray within the instrument, and remove the thermal cycler access cover to permit access to the sample block. Note The thermal cycler access cover is secured to the instrument by non-locking pins and may require force to remove it (no tools are required). GR2023b Fixed-position bar code reader and underlying platform covers System Maintenance 7-5
7-6 System Maintenance To remove the sample block: (continued) Step Action 8 Using a 5/16 inch Hex key, turn the sample block locking bolt counter-clockwise until it is very loose, but still attached to the sample block locking bar. Note Some instruments may require the use of an adjustable crescent wrench to loosen the sample block locking bolt. 9 Loosen the thumb screw securing the sample block locking bar to the instrument chassis (may be a 5/32 Hex bolt on some instruments). GR2025b GR2024 GR2024b Sample block locking bar Sample block locking bolt 10 Lift the sample block locking bar up and out of the instrument. GR2025b Thumb screw 11 Remove the sample block from the instrument as follows: a. Rotate the release lever at the base of the sample block 90 degrees. GR202 b. Being careful of the cooling fins on the bottom of the sample block, slide the sample block out of the instrument and place it on a clean, level surface. GR2027
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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
Page 86 and 87: To create plate documents from a te
Page 88 and 89: Adding Plates to the Plate Queue Re
Page 90 and 91: Loading Plates To load plates onto
Page 92 and 93: End-Point Analysis 5 In This Chapte
Page 94 and 95: Section: Allelic Discrimination In
Page 96 and 97: Algorithmic Manipulation of Raw All
Page 98 and 99: Before You Begin Using SDS Online H
Page 100 and 101: Analyzing a Completed Allelic Discr
Page 102 and 103: Calling Allele Types To call allele
Page 104 and 105: Scrutinizing the Allele Calls To an
Page 106: 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: Replacing the Sample Block When to
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 and 158: Preparing and Running an RNase P Pl
Page 159 and 160: Adjusting the Sensitivity of the 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
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Background Runs Background Troubles
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Pure Dye Runs Pure Dye Troubleshoot
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8-12 Troubleshooting Troubleshootin
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Software and 7900HT Instrument Trou
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8-16 Troubleshooting Troubleshootin
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User Bulletins 9 9 About This Chapt
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Fluorescent-Based Chemistries Funda
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Fluorescence Detection and Data Col
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Normalization of Reporter Signals A
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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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