LabChip GX/GXII User Manual

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Data Analysis 40How the Software Analyzes Protein Data(Continued)Figure 9. Standard Curve - Protein6 A Lower Marker is the internal standard used to align the ladderdata with data from the sample wells. Figure 10 shows anexample of the assigned Lower Marker peak (marked LM) in asample well.Figure 10. Markers - ProteinP/N 127170 Rev. 00 LabChip GX User Manual Caliper Life Sciences, Inc.
Data Analysis 41How the Software Analyzes Protein Data(Continued)NOTEThe software performs alignment by default. Turning alignment offsuspends data evaluation until you turn it on again.7 Before calculating either the protein size or concentration, thesample data is processed relative to the two ladders thatbracket every 12 samples. First, all of the data is aligned to thelower marker and then stretched, relative to the highestmolecular weight protein in the ladder.8 The concentration of the sample proteins is determined relativeto the bracketed ladders. There are seven proteins in the ladder(not including the lower marker). The ladder concentration isspecified in the assay and cannot be changed. View the settingson the Analysis Tab of the Assay Analysis Window (seepage 156).NOTES• The seven proteins are assumed to represent the averagestaining behavior of proteins and are used to determine anaverage peak area per g/mL of protein. This factor is used toconvert sample peak areas into relative concentration. The totalrelative concentration of all proteins is calculated by addition ofthe relative concentration of the individual proteins and isdisplayed in the Well Table View (see page 140).• Since the conversion factor is determined for each ladder, thefactor can be linearly interpolated for each sample and thusaccount for any assay drift.• The software allows you to define the lower marker. Changingthe selection of the marker will lead to quantitative changes inthe calibration procedure, and therefore in the entire dataevaluation.P/N 127170 Rev. 00 LabChip GX User Manual Caliper Life Sciences, Inc.
Page 1 and 2: LabChipGX/GX IIUser ManualCopyright
Page 3 and 4: Preface 3For support in Europe cont
Page 5 and 6: Preface 5Table 1. Important Symbols
Page 7 and 8: Instrument Safety 7Required Trainin
Page 9 and 10: Instrument Safety 9Laser SafetyWARN
Page 11 and 12: Instrument Safety 11InternationalAl
Page 13 and 14: Table of Contents 13Viewing the EFs
Page 15 and 16: Table of Contents 15Login Window...
Page 17 and 18: Introduction 17IntroductionThis man
Page 19 and 20: Introduction 19Principles of Operat
Page 21 and 22: Operation 21OperationThis section i
Page 23 and 24: Operation 23Running an AssayTo star
Page 25 and 26: Operation 25Running an Assay (Conti
Page 27 and 28: Operation 27Monitoring the RunThe f
Page 29 and 30: Operation 29Continuing a Stopped Ru
Page 31 and 32: Operation 31Saving Data Files (Cont
Page 33 and 34: Operation 33Adding a New Plate (Con
Page 35 and 36: Data Analysis 35Data AnalysisAfter
Page 37 and 38: Data Analysis 37How the Software An
Page 39: Data Analysis 39How the Software An
Page 51 and 52: Data Analysis 51Opening a Data File
Page 53 and 54: Data Analysis 53Selecting the Wells
Page 55 and 56: Data Analysis 55To import the sampl
Page 57 and 58: Data Analysis 57Using Expected Frag
Page 59 and 60: Data Analysis 59Forcing Expected Pe
Page 61 and 62: Data Analysis 61Viewing the EFs/EPs
Page 63 and 64: Data Analysis 63Changing the Peak F
Page 65 and 66: Data Analysis 65Merging Two PeaksIf
Page 67 and 68: Data Analysis 67Using the Default L
Page 69 and 70: Data Analysis 69Upper and Lower Mar
Page 71 and 72: Data Analysis 71Lower Marker Peaks
Page 73 and 74: Data Analysis 73Viewing GelsTo comp
Page 75 and 76: Data Analysis 75Adjust Pane WidthsT
Page 77 and 78: Data Analysis 77Viewing Graphs in t
Page 79 and 80: Data Analysis 79Viewing Multiple Pr
Page 81 and 82: Data Analysis 81Reanalyzing a Data
Page 83 and 84: Data Analysis 83ElectropherogramCho
Page 85 and 86: Data Analysis 85Peak TableChoosing
Page 87 and 88: Data Analysis 87Raw DataASCII text
Page 89 and 90: Data Analysis 89Exporting Data Manu
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Software Security 91• “Backing
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Software Security 93Managing User A
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Software Security 95Changing User I
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Software Security 97Changing Access
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Software Security 99Setting Policie
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Software Security 101Electronic Sig
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Software Security 103Audit TrailLab
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Software Security 105Exporting the
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Software Security 107Creating New D
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Software Security 109Remote CDR Ser
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Software Security 111Backing Up Dat
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Software Reference 113Software Refe
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Software Reference 115Menu BarThe m
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Software Reference 117Collection Me
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Software Reference 119Security Menu
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Software Reference 121Chip Status a
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Software Reference 123Error Message
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Software Reference 125Rename Plate
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Software Reference 127Collection Pa
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Software Reference 129Graph View (C
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Software Reference 131Active Data T
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Software Reference 133Electropherog
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Software Reference 135OptionText Or
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Software Reference 137Gel View (Con
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Software Reference 139Gel View Prop
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Software Reference 141Peak Table Vi
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Software Reference 147Filter ViewTh
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Software Reference 149Filter View (
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Software Reference 151Add New Expec
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Software Reference 153Assay Analysi
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Software Reference 155Alignment Tab
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Software Reference 157Analysis Tab
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Software Reference 159Peak Find Tab
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Software Reference 161Table 2. Well
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Software Reference 163Expected Frag
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Software Reference 165Excluded Peak
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Software Reference 167Smear Analysi
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Software Reference 169Titer Tab (Co
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Software Reference 171Advanced TabU
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Software Reference 173Audit Trail W
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Software Reference 175Audit Trail M
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Software Reference 177DeleteButtonH
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Software Reference 179CDR Utility W
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Software Reference 181Change Passwo
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Software Reference 183Event Viewer
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Software Reference 185Export Window
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Software Reference 187Installation
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Software Reference 189Login WindowU
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Software Reference 191Perform Signa
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Software Reference 193Print WindowU
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Software Reference 195Print Validat
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Software Reference 197Run File Edit
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Software Reference 199Sample Name E
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Software Reference 201Save Workspac
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Software Reference 203Start Run Win
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Software Reference 205Run Tab (Cont
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Software Reference 207Output Tab (C
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Software Reference 209Advanced Tab
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Software Reference 211System Diagno
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Software Reference 213User Administ
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Software Reference 215Edit UsersUse
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Software Reference 217De/Activate U
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Software Reference 219Show/Hide in
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LabChip GX Instrument Description 2
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Maintenance and Service 231Maintena
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Troubleshooting and Diagnostics 233
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Glossary of Terms 247Glossary of Te
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Glossary of Terms 249CLAThe file ex
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Glossary of Terms 251Data Filtering
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Glossary of Terms 253GXD FilesThe f
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Glossary of Terms 255Figure 115. Sl
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Glossary of Terms 257Ladder Analysi
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Glossary of Terms 259Peak BaselineA
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Glossary of Terms 261Polynomial Ord
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Glossary of Terms 263For the purpos
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Glossary of Terms 265SmearSpecifies
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Glossary of Terms 267Figure 120. Pr
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Glossary of Terms 269WorkspaceZero
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Caliper Life Sciences, Inc. Product
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Caliper Life Sciences, Inc. Softwar
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Index 275IndexNumerics21 CFR Part 1
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Index 277showing. . . . . . . . . .
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Index 279clearing default ladder .
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Index 281Remote CDR Server . . . .
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Index 283Waste wells . . . . . . .
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