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PerkinElmer LabChip GX Touch, User Manual

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PerkinElmer LabChip GX Touch User Manual Download Page 184

Index

184

P/N CLS151164 Rev. B

LabChip GX Touch/GXII Touch User Manual

PerkinElmer, Inc.

Index

Symbols

%barcode%

 . . . . . . . . . . . . . . . . . . .  59

Numerics

21 CFR Part 11

. . . . . . . . . . . . . . . . .  62

A

Aborting a run

. . . . . . . . . . . . . . . . . .  39

AC power cable

 . . . . . . . . . . . . . . .  128

Add Plate Window

. . . . . . . . . . . . . .  100

AIA format

. . . . . . . . . . . . . . . . . . . . .  44

Auto export settings

. . . . . . . . . . .  46

For use in third-party software

. . .  47

Altitude

. . . . . . . . . . . . . . . . . . . . . .  135

Analysis

DNA assays

. . . . . . . . . . . . . . . .  169

identifying peaks

. . . . . . . . . . . .  174

Protein assays

. . . . . . . . . . . . . .  175

RNA assays

. . . . . . . . . . . . . . . .  176

Analysis Settings

editing

. . . . . . . . . . . . . . . . . . . . .  38

tab

. . . . . . . . . . . . . . . . . . . . . . .  122

Analyzed data

. . . . . . . . . . . . . . . . .  106

Annotation

Annotate expected peaks

 . . . . . . 111

text

 . . . . . . . . . . . . . . . . . . . . . . . 111

Apex

. . . . . . . . . . . . . . . . . . . . . . . .  167

Assay

 . . . . . . . . . . . . . . . . . . . . . . . .  20

Assay file

 . . . . . . . . . . . . . . . . .  167

Assay Quick Guides

 . . . . . . . . . .  19

Assay User Guides

 . . . . . . . . . . .  19

Assay Voltage

. . . . . . . . . . . . . .  135

Principles

 . . . . . . . . . . . . . . . . . .  20

Running

. . . . . . . . . . . . . . . . . . . .  32

Auto Export

. . . . . . . . . . . . . . . . . . . .  46

B

Backing up data files

. . . . . . . . . . . . .  61

Barcode

 . . . . . . . . . . . . . . . . . . . . .  135

Barcode Engine

. . . . . . . . . . . . .  135

Barcode reader

. . . . . . . . . . . . .  130

Barcode Test

. . . . . . . . . . . . . . .  159

Label position

 . . . . . . . . . . . . . . .  28

Sample names file

. . . . . . . . . . . .  59

Supported Barcode Types

. . . . . . 135

Baseline

. . . . . . . . . . . . . . . . . . . . . . 167

Baseline Start

 . . . . . . . . . . . . . . . . . 122

Bubble

. . . . . . . . . . . . . . . . . . . . . . . 168

Buffer tube

. . . . . . . . . . . . . . . . . . . . 134

inserting

 . . . . . . . . . . . . . . . . . . . . 31

removing

 . . . . . . . . . . . . . . . . . . . 41

C

Calibrating the instrument

 . . . . . . . . . 97

to run Protein Clear HR Assays

 . . 26

Calibrating the optics

. . . . . . . . . . . . 139

calibration limits

 . . . . . . . . . . . . . 139

Calibration Errors

. . . . . . . . . . . . . . . 160

Cannot save a file

 . . . . . . . . . . . . . . 163

CDR/Database Server Window

 . . . . . 67

Center point

. . . . . . . . . . . . . . . . . . . 167

Central Data Repository (CDR)

 . . . . . 65

Security Suggestions

 . . . . . . . . . . 65

Change Assay Folder Window

 . . . . . . 68

Change Password Window

. . . . . . . . . 69

Chemical Safety

. . . . . . . . . . . . . . . . . . 9

Chip

. . . . . . . . . . . . . . . . . . . . . . . . . 131

cleaning the interface

. . . . . . . . . 138

focusing

 . . . . . . . . . . . . . . . . . . . 130

inserting

 . . . . . . . . . . . . . . . . . . . . 25

interface

. . . . . . . . . . . . . . . . . . . 132

Interface Test

 . . . . . . . . . . . . . . . 155

pressure system

. . . . . . . . . . . . . 130

primed for a different assay warning

 

150

priming

. . . . . . . . . . . . . . . . . . . . . 27

Protein Clear HR

 . . . . . . . . . . . . . 26

reagent expiration

. . . . . . . . . . . . . 86

removing

 . . . . . . . . . . . . . . . . . . . 41

status

. . . . . . . . . . . . . . . . . . . . . . 86

Temperature Test

 . . . . . . . . . . . . 156

Temperature Warning

. . . . . . . . . 151

washing

 . . . . . . . . . . . . . . . . . . . . 42

Chromatography Data Interchange 
Format

. . . . . . . . . . . . . . . . . . . . . . . . 44

Cleaning the Chip Interface

 . . . . . . . 138

Comments, User

 . . . . . . . . . . . . . . . 120

Computer Resources Test

 . . . . . . . . 154

Computer Software Lock-Ups

. . . . . . 164

Concentration

. . . . . . . . . . . . . . . . . . . 20

Contact PerkinElmer

 . . . . . . . . . . . . . . 3

Summary of Contents for LabChip GX Touch

Page 1: ...User Manual LabChip GX Touch GXII Touch P N CLS151164 Rev B Publication Date October 12 2018...

Page 2: ...d including but not limited to the implied warranties of merchantability or fitness for a particular purpose Some states or jurisdictions do not allow disclaimer of express or implied warranties in ce...

Page 3: ...nElmer offers a full range of services to ensure your success From our original factory warranty through a comprehensive line of customer support plans PerkinElmer offers you Field Service Engineers a...

Page 4: ...any interference received including interference that may cause undesired operation CE This device complies with applicable CE rules and requirements NOTE Changes or modifications to this equipment no...

Page 5: ...nt an operating tip or maintenance suggestion may result in instrument damage if not followed REMARQUE nonc indiquant une pr caution prendre un conseil de fonctionnement ou une suggestion d entretien...

Page 6: ...6 Fusible Alternating current IEC 60417 5032 Courant alternatif On power IEC 60417 5007 Marche alimentation Off power IEC 60417 5008 Arr t alimentation CE compliance mark Marque de conformit CE Batch...

Page 7: ...Les tiquettes de l appareil sont cod es couleur Yellow Caution risk of danger Red Stop Blue Mandatory action Green Safe condition or information Jaune Attention danger potentiel Rouge Arr ter Bleu In...

Page 8: ...9 Laser Safety on page 10 Electrical Safety on page 11 Mechanical Safety on page 13 Required Training Ensure that all personnel involved with the operation of the instrument have Received instruction...

Page 9: ...ive equipment when handling chemicals e g safety glasses gloves or clothing For additional safety guidelines consult the MSDS Do not leave chemical containers open Use only with adequate ventilation i...

Page 10: ...e red laser source 10 mW maximum continuous CW WARNING Use of controls or adjustments or performance of procedures other than those specified herein may result in hazardous radiation exposure NEVER re...

Page 11: ...Touch GXII Touch instrument has internal lithium batteries Batteries should not be incinerated WARNING Danger of explosion if battery is incorrectly replaced Replace only with the same or equivalent...

Page 12: ...0 volt input Power cord set fittings that is the appliance coupler and wall plug must bear the certification mark of the agency responsible for evaluation in the country where it will be used The appl...

Page 13: ...ree axis robot that moves quickly and can be a pinch hazard Keep the front door of the instrument closed and keep hands away from the plate loading position when the robot is moving Keep hands away fr...

Page 14: ...Plate Ladder Tube and Buffer Tube 31 Running an Assay 32 Defining the Run Parameters 33 Monitoring the Run 37 Editing the Analysis Settings during a Run 38 Stopping a Run before the Run is Complete 39...

Page 15: ...ers 64 Central Data Repository CDR 65 CDR Security Suggestions 65 Software Reference 66 CDR Database Server Window 67 Change Assay Folder Window 68 Change Password Window 69 LabChip GX Touch Main Wind...

Page 16: ...ectrodes 140 Cleaning the Microplate Carrier 140 Cleaning the Touch Screen 140 Cleaning the Optics Lens 140 Cleaning Test Chip C 141 Changing the Fuses 142 Running Software IQ 143 Running Operational...

Page 17: ...res 160 Protein Clear HR Assay Failed Calibration 160 Protein Clear HR Assay Marginal Calibration 161 ProteinEXact Assay Failed Calibration 162 Troubleshooting Assay Problems 162 Software Problems 163...

Page 18: ...Charge Variant CZE Chip and Reagent Kits are available to run specific assays on the LabChip GX Touch GXII Touch The Assay Kits include the reagents and consumables required to run the specific assay...

Page 19: ...uding Specifications Safety Warnings Preparation Procedures Expected Results Troubleshooting LabChip Kit Essential Practices and Reordering Information is also located in the LabChip GX Touch GXII Tou...

Page 20: ...arger than others The larger channels contain buffer During the chip preparation the smaller channels and some of the wells are filled with sieving gel and buffer Figure 1 Examples of DNA RNA Chip and...

Page 21: ...ophoretically into the central channel As the fragments move down the central channel they separate by size and then pass the laser which excites the fluorescent dye bound to the molecule The software...

Page 22: ...the chip depends on pH salt concentration and buffer additives The internal standards normalize these factors so that the software can use the ratio of the area of the curve of the standard to the unk...

Page 23: ...directed in the LabChip GX Touch GXII Touch Assay User Guide 3 Purge the pressure lines see page 24 4 If necessary calibrate the optics see page 139 and run Diagnostics see page 152 5 Prepare the chip...

Page 24: ...ouch Main Window opens The Navigation Bar displays on the left side of the LabChip GX Touch Main Window and the Home Window displays in the center Purging the Pressure Lines The LabChip GX Touch softw...

Page 25: ...chip door on the front of the instrument unlatches 4 Lift the chip door up 5 Place the chip into the cutout with the sipper through the hole in the chip holder 6 Close the chip door and press down to...

Page 26: ...er button and select the assay folder on the Change Assay Folder Window 5 Touch the Select Well Containing Standard Sample button to select the well that contains the VeriMAb sample 6 Select the desir...

Page 27: ...rting the run 1 Insert the chip see page 25 2 Load the buffer tube see page 31 If running a test ladder load the ladder tube at the same time 3 Touch the Home button on the Navigation Bar 4 Touch the...

Page 28: ...be placed on the plate before loading the plate into the instrument Figure 4 shows the size limits for the barcode label and the location on the microplate where the label should be placed The barcod...

Page 29: ...mm Maximum Sip Height depends on the sample volume Sip Height of 4mm is probably safe To add a new plate 1 Touch the Tools button on the Navigation Bar 2 Touch the Plate Editor button to open the Plat...

Page 30: ...plate punching holes in the tape The Punch test is acceptable if the punched hole is 0 5mm from the edge of the well Holes may not be perfectly centered Possible sources of errors Sipper splay Plate...

Page 31: ...refully to properly prepare the plate 2 Fill the Ladder and Buffer tubes as instructed in the Assay Quick Guide 3 Touch the Home button on the Navigation Bar WARNING Pinch Hazard Keep hands away from...

Page 32: ...ction 2 Define the parameters of the assay run see page 33 3 Monitor the run see page 37 4 If desired edit the analysis parameters during the run see page 38 5 If necessary stop the run before it comp...

Page 33: ...ouch the Open button The settings specified in the run file display in the Select Wells Tab and Setup Run Tab To use the settings in the run file touch the Next button twice and skip to step 26 For mo...

Page 34: ...he run 9 Touch the Next button The Setup Run Tab opens 10 If desired type the name of the operator in the Operator text box If the LabChip GxP option is installed the name of the current user is autom...

Page 35: ...ings on page 46 for more information about selecting data to export 17 To automatically print the exported data to a PDF file after the run is complete select the Auto Print check box 18 To export all...

Page 36: ...lect the Excluded Peaks File check box b Touch the Browse button next to Excluded Peaks File c Select the name of the GEP file that contains the excluded peaks and touch the Open button The path and n...

Page 37: ...ed The warming step allows the heater plate in the chip holder to regulate chip temperature to 30 C Data collection begins after the priming and chip warming steps are completed 2 For ProteinEXact chi...

Page 38: ...ry Editing the Analysis Settings during a Run Specific analysis settings can be adjusted in the LabChip GX Touch software while a plate is running If Auto Export is selected on the Setup Run Tab the A...

Page 39: ...button on the Navigation Bar The run stops immediately If a well is in progress the data for that well is not saved A message box confirms that you want to stop the run in progress Figure 6 Stop Run...

Page 40: ...data is saved in a new data file It is not added to the data file from the original run To continue a run 1 Touch the Run button on the Home Window 2 On the Select Wells Tab select the wells that were...

Page 41: ...d 3 Remove the plate from the plate carrier 4 If necessary clean the plate carrier with DI water or 70 isopropanol solution 5 Remove the Buffer and Ladder tubes if necessary WARNING Pinch Hazard Keep...

Page 42: ...sent washing protein chips on the LabChip GXII Touch immediately before the next use can often restore data quality 1 Prepare the chip and buffer tube as instructed in the Assay User Guide 2 Insert th...

Page 43: ...ted to either CSV files or XML files CSV files can be imported into a spreadsheet program such as Microsoft Excel Raw Data can be exported to a CSV file an XML file or to an AIA file format a CDF file...

Page 44: ...or example if peaks 3 5 and 7 are excluded when the data is exported into Microsoft Excel peaks 3 5 and 7 are not included Raw Data Either a CSV file ASCII text file an XML file or an AIA Format file...

Page 45: ...TA Time Value Size 0 000 1 097 0 0 017 1 512 0 0 033 1 913 0 12 933 19 774 14 12 950 19 836 16 12 967 20 165 19 12 983 20 761 21 13 000 21 384 23 13 017 21 498 25 Gel Exports the gels in the selected...

Page 46: ...select the Export as Single File check box If selected the gels for all wells are included in a single graphic file and the Raw Data for all wells is included in a single AIA CSV or XML file If Gel i...

Page 47: ...desired properties into the exported list by selecting the properties and using the Left or Right arrow buttons to move the properties into the desired list 4 The changes take effect with the next fil...

Page 48: ...open open the data file see page 53 2 Touch the Views button on the Navigation Bar 3 Touch the Select Wells button to open the Select Wells to View Tab 4 Touch the Export Plate button to export a dat...

Page 49: ...on page 52 Viewing Data in the Gel Tab on page 52 Zoom In and Zoom Out on page 52 Viewing a Data File after a Run is Complete on page 53 NOTE After a run is complete use the LabChip GX Reviewer softw...

Page 50: ...s on zooming graph and gel views Viewing Data in the Egram Gel Tab The Egram Gel Tab displays a graph at the top of the tab and the gels of all the well data at the bottom of the window The graph at t...

Page 51: ...in the same graph Figure 10 Graph with Multiple wells To remove a specific sample from the graph touch the sample that you want to remove in the Select Wells to View Tab or Egram Gel Tab To display o...

Page 52: ...luding marker peaks and system peaks To change the graph view options select the Graph Settings check box and select the desired options in the Graph Settings Viewing Data in the Gel Tab To compare th...

Page 53: ...tab or the EGram tab double tap the graph to zoom out to the previous zoom level Viewing a Data File after a Run is Complete To view a data file after a run is complete 1 Touch the Views button on the...

Page 54: ...ct the desired data to export See Selecting the Auto Export Settings on page 46 for details 2 Touch the Home button and then touch the Run button 3 Select the desired assay plate and sampling options...

Page 55: ...le Names files are also used to import sample names into a data file as the data file is created This section includes general instructions for using Sample Names files in the LabChip GX Touch softwar...

Page 56: ...Navigation Bar 2 Touch the Sample Names button to open the Sample Names Tab 3 Touch the Blank 96 Wells or Blank 384 Wells button to open a blank Sample Names file with 96 or 384 rows The default Sampl...

Page 57: ...Reviewer User Manual if the file is created with Excel or a LIMS Sample Names files that are created in LabChip GX Touch software see page 56 always contain all 96 or 384 wells on the plate Existing...

Page 58: ...reated by a LIMS or can be created in Microsoft Excel and are saved as a csv file To select the wells using a Sample Names file 1 Create the Sample Names file with one row for each well to be sampled...

Page 59: ...the corresponding Sample Names file To use the plate barcode to specify the Sample Names file 1 Decide on a location and file name format for the Sample Names files For example the Sample Names files...

Page 60: ...e default Sample Names assigned during a run can be edited after the run starts but before the sample well read is complete After the well has been read the data is saved in the data file and the samp...

Page 61: ...to a remote CDR server is lost after a run is started the data is saved to a local folder and copied to the CDR when the network connection is restored Organizing Retrieving and Backing Up Data Files...

Page 62: ...atory processes and procedures must comply with 21 CFR Part 11 regulations The LabChip GxP option ensures that assays output data analysis settings event data and backup data files are not available f...

Page 63: ...er After the software is locked only the logged in user or a LabChip GX Touch Administrator can unlock the software To lock the LabChip GX Touch software 1 On the Home Window touch the User button in...

Page 64: ...he LabChip GX Touch software and the previous user is logged out User Accounts Access to the LabChip GX Touch software is controlled by user accounts when the LabChip GxP option is installed Each user...

Page 65: ...ables you to create new folders rename existing folder and delete empty folders CDR Security Suggestions To ensure proper security of data files the LabChip GX Touch Administrator should 1 Change the...

Page 66: ...te Window on page 76 Prime Window on page 77 Run Window on page 78 Select Wells Tab on page 79 Setup Run Tab on page 81 Start Run Tab on page 84 Status Window on page 86 Tools Window on page 89 Export...

Page 67: ...he CDR Database Server Window contains the following options Server Name IP Address The server name or IP address of the computer where the CDR is installed Apply button Connects to the CDR on the spe...

Page 68: ...ing a plate To open the Change Assay Folder window touch the Change Assay Folder button on the Prime Window or on the Select Wells Tab Figure 16 Change Assay Folder Window The Change Assay Folder wind...

Page 69: ...e To open the Change Password Window touch the User button on the Home Window and then touch the Change Password button Figure 17 Change Password Window The Change Password Window contains the followi...

Page 70: ...h GXII Touch User Manual PerkinElmer Inc LabChip GX Touch Main Window Use the LabChip GX Touch main window to access the Navigation Bar and Home Window The LabChip GX Touch Main Window opens when the...

Page 71: ...run is started or the software is closed data from a completed run is no longer available in the LabChip GX Touch software Use the LabChip GX Reviewer software to view or analyze data from previous r...

Page 72: ...s of the instrument and user information also display If the LabChip GxP option is installed the Home Window displays the CDR Server status and provides access to the Login window To open the Home win...

Page 73: ...debris out of the pressure lines to improve instrument performance Unload Chip Unlatches the front door to access the chip Manually close the door to load the chip Instrument Status Displays the curr...

Page 74: ...y the user Server is Not available The software is not connected to the server Server not mapped The software has not been mapped to a CDR server User button Only displays if the LabChip GxP option is...

Page 75: ...pecify additional password requirements NOTE The Switch User Change Password and Lock buttons are only available if a user is already logged into the LabChip GX Touch software Switch User button Enabl...

Page 76: ...ndow contains the following options Change Assay Folder button Touch to select the folder that contains the desired assays Select Assay drop down list Touch to select the assay to run A1 button Touch...

Page 77: ...r tube and the chip before opening the Prime window To open the Prime window touch the Prime button on the Home Window Figure 22 Prime Window The Prime window contains the following options and button...

Page 78: ...ch GXII Touch User Manual PerkinElmer Inc Run Window Use th Run Window to define the assay run parameters To open the Run Window touch the Run button on the Home Window The Run Window contains the fol...

Page 79: ...ect Wells tab contains the following options and buttons Change Assay Folder button Touch to select the folder that contains the desired assays Select Assay drop down list Select the type of assay to...

Page 80: ...the wells in each column are sampled from top to bottom before proceeding to the next column A1 B1 C1 A2 B2 C2 Ladders are sipped every 12 wells so some columns will include a ladder in the column If...

Page 81: ...etup Run tab on top of the Run Window Figure 24 Setup Run Tab The Setup Run tab contains the following options Operator text box Specifies the name of the operator running the assay The Operator Name...

Page 82: ...ted If the LabChip GxP option is installed and the network connection is interrupted data files are archived in a local folder and copied to the CDR when the network connection is restored Copy To che...

Page 83: ...selected the time that the run was started is included in the data file name The time format is HH MM SS where HH is the hour 00 to 24 MM is the minutes and SS is the seconds Sample Names File If sele...

Page 84: ...r software to create the Excluded Peak file See page 170 for more information about Excluded Peak files The Setup Run tab contains the following buttons Back Opens the Select Wells Tab to change the s...

Page 85: ...date is stored on the RF ID tag on the chip Chip Life Displays the number of samples until the chip expires Chip Life depends on the chip type Run Parameters Displays the settings selected on the Sele...

Page 86: ...tatus of the chip The LabChip GX Touch automatically detects the chip type from an embedded RF ID tag in each chip Type Displays the type of chip in the instrument or the assay type selected for the c...

Page 87: ...plays the status of the last operation Step Time Left The time remaining in the current step in the run Run Time Left The time remaining until the assay is complete Barcode Displays the barcode number...

Page 88: ...igure 27 Calibration Steps for ProteinEXact NOTE If the ProteinEXact calibration steps do not display restart the software and prime the chip Realtime Electropherogram of Well Displays the electropher...

Page 89: ...ettings view or add plates run the software IQ run Diagnostics and calibrate the optics To open the Tools window touch the Tools button on the Navigation Bar Figure 28 Tools Window The Tools window co...

Page 90: ...the Tools button on the Navigation Bar and then touch the Export Setup button Peak Tables and Well Tables are exported to either CSV files or XML files CSV files can be imported into a spreadsheet pr...

Page 91: ...etes Peak Table If selected the data in the Peak Table is exported to a CSV or XML file Well Table If selected the data in the Well Table is exported to a CSV or XML file Raw Data If selected the raw...

Page 92: ...file in the Chromatography Data Interchange Format formerly AIA Include Size Data and Export as Single File are not available If the AIA Format check box is NOT selected the raw data is exported to a...

Page 93: ...ilable for export do not display until after the run is started Figure 30 Peak Properties Tab Not exported list box Lists the columns in the Peak Table that are not included in the Exported Peak Table...

Page 94: ...ilable for export do not display until after the run is started Figure 31 Well Properties Tab Not exported list box Lists the columns in the Well Table that are not included in the exported Well Table...

Page 95: ...the Navigation Bar and then touch the Diagnostics button Figure 32 Diagnostics Tab The left side of the tab displays the tests to run on the instrument Expand each section to view all of the tests in...

Page 96: ...eport of test limits After the report is generated the Limits Report Generation section at the bottom of the right side of the tab displays the date and time when the limit report was generated the na...

Page 97: ...ntains the following options and buttons Reference Contrast The Contrast value from Test Chip C that will be compared to the scan results Contrast Instrument Gain Correction The current correction fac...

Page 98: ...Abort Stops the scan or warm currently in progress Apply button Saves the New Correction Factor to the instrument s non volatile flash memory Plate Editor Tab Use the Plate Editor tab to view add or...

Page 99: ...le when a plate is selected on the Custom Plates tab Add Plate button Opens the Add Plate Window to enter the information for a new plate Only available when the Custom Plates tab is selected Modify S...

Page 100: ...Y Margin The distance from the outer edge of the plate to the center of well A1 in the Y direction Plate Height The distance from the bottom of the plate to the top of the plate Well Depth The distanc...

Page 101: ...Structure Verifies that all original software folders exist If all expected folders exist displays Passed If any folders are not found displays Failed Files Verifies that all files that were installe...

Page 102: ...after the IQ has been completed The detailed results are only available until the software is closed or another IQ test is run Figure 37 Detailed Result Tab The Detailed Result tab contains the follow...

Page 103: ...h the Error or Warning button to display the event in the EventLog Tab Error messages can result from hardware or software problems Most are the result of peaks not being located by the analysis algor...

Page 104: ...ic lock option is set in the LabChip GX Reviewer software The Unlock Application window only displays if the LabChip GxP option is installed Figure 39 Unlock Application Window The Unlock Application...

Page 105: ...me of the Analysis Settings can be changed in the GX Touch software To control all of the Analysis Settings open the GXD file in LabChip Reviewer To open the Views window touch the Views button on the...

Page 106: ...Plate Cycles is greater than one displays the cycle of the selected well Does not display if Plate Cycles equals one Perform Sample Analysis check box If selected the analyzed data displays in the Eg...

Page 107: ...wells to view in the Egram Gel Tab EGram Tab and Gel Tab Touch a well to select it The status of the well is indicated by the color displayed in the plate diagram as shown below Well Color Blue Wells...

Page 108: ...b If Overlay is selected the foremost graph is the last well selected To bring a graph to the front touch the gel at the bottom of the tab The Overlay legend displays the well number and the sample na...

Page 109: ...tion Bar and then touch the EGram button Figure 42 EGram Tab Touch and drag over a region on the electropherogram to zoom in Touch the Unzoom button or the Unzoom All button to zoom out Graph data can...

Page 110: ...d displays graph view options for the EGram tab and the graph in the EGram Gel tab See Graph Settings for a description of each option Data File Name Well Name The data file name and well name display...

Page 111: ...ons Specifies the orientation of the text for the upper or lower annotation horizontal vertical up or vertical down Font button Opens the Font window to choose the font style and size of the text for...

Page 112: ...y the annotations If not selected all peaks display the annotations Show Smears check box If selected displays smears as a colored line on the trace and displays the smear baseline This option only di...

Page 113: ...ne Wells selected in the Gel view are also selected in the Select Wells to View Tab Egram Gel Tab and Gel Tab To open the Gel Tab touch the Views button on the Navigation Bar and then touch the Gel bu...

Page 114: ...d location Double tap the Gel tab to zoom out to the previous zoom level To change the Lane Width Gel Contrast Range or Gel Color see Gel Settings The Gel tab contains the following options Overlay ch...

Page 115: ...e slider to manually set the width Contrast Range Sets the minimum and maximum Gel Band Contrast for the bands in each well Use the sliders or type the value in the text box to change the min and max...

Page 116: ...family selected for the chip selected when the chip is inserted in the instrument Assay Name The name of the assay that was run on the plate Software Version The version of LabChip GX Touch software...

Page 117: ...e plate to the top of the plate Run Start Date Time The date and time that the run was started Number of Cycles The number of times to repeat the assay on the plate Sip Order Column wise or row wise a...

Page 118: ...ned Calibration Ladder EP Mobility The mobility of the 120 kDa ladder peak during calibration Calibration Final DSR Applied The Final DSR applied during instrument calibration Final Percent Purity Obt...

Page 119: ...ng the current session Past Events Tab Displays all events from all previous sessions If more than 10 000 events occurred scrolling controls for Page Up earlier events and Page Down later events displ...

Page 120: ...e Names tab contains the following options Row Order option button If selected the rows in the table are in order by row letter and then by column number A1 A2 A3 etc Column Order option button If sel...

Page 121: ...es the current sample names and user comments to a Sample Names file CSV with the specified file name The sample names are saved in the file in the same order as displayed in the table Blank 96 Wells...

Page 122: ...elected on the Setup Run Tab Analysis Settings cannot be saved after a run is complete To open the Analysis Settings tab touch the Views button on the Navigation Bar and then touch the Analysis Settin...

Page 123: ...ion stops The Gel and Graph views will not plot data beyond this time Baseline start 1sec before Specifies the time in seconds after the start of the run when the first peak can appear The Baseline st...

Page 124: ...w to view the chip status and to start washing the chip See the Assay User Guide for chip prep instructions To open the Wash window touch the Wash button on the Home Window Figure 50 Wash Window The W...

Page 125: ...in this section are the same for the GX and GXII Touch instruments The LabChip GX Touch runs DNA and RNA assays The LabChip GXII Touch runs DNA RNA Protein Glycan and Protein Charge Variant assays Th...

Page 126: ...B LabChip GX Touch GXII Touch User Manual PerkinElmer Inc Front View Figure 51 shows the front view of the LabChip GX Touch GXII Touch and identifies the parts on the front of the instrument Figure 51...

Page 127: ...f the computer has locked up Status Indicator Lights Indicate the status of the instrument Not Lit Power is off Solid Green Power is on GX Touch software is active but instrument is idle Flashing Gree...

Page 128: ...onnect the LabChip GX Touch GXII Touch instrument to the power supply Figure 52 Rear Connector The following connectors are located on the back of the instrument AC Power Cable Plug the power cord int...

Page 129: ...Touch instrument and to connect the instrument to a network Figure 53 Side Connectors The following connectors are located on the right side of the instrument Network USB Ports External VGA Monitor P...

Page 130: ...can be acquired and stored at rates from 20 to 120 Hz Optical Train The fluorescence excitation fluorescence detection and autofocus optical trains contain several lenses and high efficiency interfere...

Page 131: ...II Touch User Manual PerkinElmer Inc DNA RNA and Protein Chips The figures below show the format and parts of the microfluidic chips used in the LabChip GX Touch GXII Touch instruments to perform DNA...

Page 132: ...ure to prime the chip with separation gel and provides vacuum to the chip wells to pull samples from the microplate into the chip The Chip Interface also contains a heating element to maintain a const...

Page 133: ...n in either constant voltage or constant current mode Lid Holds the electrodes and o rings to supply voltage and pressure to the chip Chip Interface Holds the chip The sipper on the chip extends throu...

Page 134: ...ves the microplate to be accessed by the LabChip Figure 58 Microplate Carrier Parts Buffer Tube Ladder Tube Sample Well A1 Locator Spring Locator Spring Microplate Carrier Holds the microplate Micropl...

Page 135: ...well microplate Ventilation Cooling 3 77 mm minimum space required around instrument for proper air flow Operating Temperature 65 to 78 F 18 to 26 C Operating Humidity 20 to 70 relative humidity nonc...

Page 136: ...tion Light Source Red laser diode Barcode Reader Temperature Range Ambient 5 C to 40 C no active cooling Accuracy 0 5 C Thermal limit switch 65 C 70 C Detection Wavelength Bandpass 670 725 nm Data rat...

Page 137: ...unning Software IQ on page 143 Running Operational Qualification OQ on page 144 The LabChip GX Touch GXII Assay User Guides and Quick Guides contain LabChip Kit Essential Practices and instructions fo...

Page 138: ...otion If the O rings stick to the chip or a pressure leak is detected perform the more extensive monthly cleaning procedure below NOTE Clean O rings and electrodes with DI water only Using 70 isopropa...

Page 139: ...nd Test Chip warming step starts Warm up takes 10 minutes 6 Wait while the scan is performed The scan takes 5 minutes When the scan is complete the correction factor is calculated and displays in the...

Page 140: ...as necessary Glass cleaner isopropyl alcohol or ethanol can be used on the touch screen When cleaning spray cleaner onto a cloth and wipe the screen with the cloth WARNING Do not spray cleaner direct...

Page 141: ...from oil free compressed and filtered house air or compressed air cans Do not shake can before use Hold can at a distance from the chip to prevent condensation 3 To remove dyes or reagents from the R...

Page 142: ...rd Disconnect the power cord before changing the fuses For continued fire protection and correct functioning of the unit replace fuses only with the exact part number to prevent fire To replace the fu...

Page 143: ...nstallation Qualification can be used to check software installation qualification after routine computer maintenance such as disk cleanup after installing antivirus software or after installing Micro...

Page 144: ...fication whenever required by your laboratory procedures The Diagnostics tab displays the tests that are performed on the left side of the window The test results are displayed on the right side of th...

Page 145: ...Lock Ups on page 164 Cannot Connect to Remote CDR Server on page 164 Zipping the Log Files on page 165 Searching for Events in the EventLog Tab Events and errors display in the EventLog Tab Events and...

Page 146: ...of the event or error Event Code The event error ID number used by PerkinElmer to troubleshoot problems Description A detailed description of the event or error that occurred Viewing Past Events in t...

Page 147: ...orted Touch the Error or Warning button to display the event in the EventLog Tab The error or warning description describes the problem and either contains information on how to resolve the problem or...

Page 148: ...6 Restart the LabChip GX Touch software Do not enable hibernation on the LabChip GX Touch GXII Touch instrument If the problem is not resolved contact PerkinElmer Technical Support see page 3 2 Comput...

Page 149: ...es Recommended Actions 1 Robot failure Check for an object blocking the robot motion and remove the blockage Restart the instrument If the problem is not resolved contact PerkinElmer Technical Support...

Page 150: ...chip as necessary Possible Causes Recommended Actions The last assay that the chip was primed for does not match the assay that is going to run 1 Touch the No button remove the chip refresh with appr...

Page 151: ...ns Chip heater failed Restart the instrument If problem persists contact PerkinElmer Technical Support see page 3 Possible Causes Recommended Actions 1 Network cable unplugged or not connected to the...

Page 152: ...anges have been made to the software The IQ can be run whenever required by your laboratory procedures The Installation Qualification can be used to check software installation qualification after rou...

Page 153: ...o bottom prompting you to load the correct chips or plates as required for each test Follow the prompts As each test is completed the results display on the right side of the window Supplies Required...

Page 154: ...Tag Test on page 156 Pressure Leak Test on page 156 Chip Temperature Test on page 156 Current Leakage Test on page 157 Laser Test on page 157 Plate Handler Test on page 157 Optics Test on page 158 HV...

Page 155: ...temperature is not in valid range RH Temperature RH temperature is not in valid range Description Potential Cause of Failure Marker Pressure Sensor Test Pressure sensor out of calibration Contact Per...

Page 156: ...Technical Support see page 3 Description Potential Cause of Failure Marker Pressure O Ring Leak test Pressure leak at O rings Clean or replace the O rings see page 138 and clean the chip interface Pro...

Page 157: ...ription Potential Cause of Failure Leakage Check Channel 0 1 2 3 5 6 and 7 Source current too high or sum of sink currents too high Clean or replace the O rings see page 138 and clean the chip interfa...

Page 158: ...indicate laser burned out or detector failure Contact PerkinElmer Technical Support see page 3 Description Potential Cause of Failure Optics Calibration Test Signal out of range indicates laser optic...

Page 159: ...de Test Use any Chip Test Plate required Description Potential Cause of Failure Voltage Calibration Channel 0 1 2 3 5 6 and 7 Voltage out of calibration or electrode not connected to power supply Cont...

Page 160: ...ssay may display pop up windows indicating failed calibration outcomes Failed calibration indicates the assay is not able to collect data Possible Causes Recommended Actions 1 Poor ladder quality Clea...

Page 161: ...ram trace could not be eliminated Touch the Yes button to run the chip despite the issue displayed on the pop up window OR Touch the No button to fix the issues displayed on the pop up window To fix t...

Page 162: ...PerkinElmer web site at www perkinelmer com If the problem is not resolved by following the suggestions in the Assay User Guide Contact PerkinElmer Technical Support see page 3 Possible Causes Recomm...

Page 163: ...file name Read only files can be edited and saved with a new name or in a new location with the same name but cannot be saved over the original file Hard drive is full Verify there is sufficient free...

Page 164: ...te keys on the keyboard simultaneously Perform a hard reboot by turning off the computer press and hold the Power button and then restarting it 5 Contact PerkinElmer Technical Support see page 3 Canno...

Page 165: ...echnical Support To zip the LabChip GX Touch diagnostics logs 1 In the LabChip GX Touch software touch the Information i button in the lower right corner of any window to open the InfoView window 2 To...

Page 166: ...Data Files Data Points DNA Assay Analysis Electrokinetic Forces Electroosmotic Flow Electrophoresis End Point End Time Excluded Peak File Expected Peak File GXD Files Hardware Diagnostics Inflection T...

Page 167: ...he LabChip GX Reviewer software Baseline A baseline is established just after the start time setting After the overall baseline is established a local baseline is calculated for each peak to compensat...

Page 168: ...y saved to the plate data file gxd As the data from each single well is received it is saved to the data file The name of the data file is specified in the Setup Run Tab If a run is stopped before the...

Page 169: ...aks The molarity of each sample peak is calculated using the sample concentration the DNA fragment size in base pairs attributed to the peak and the known molecular weight of the DNA base pair Electro...

Page 170: ...the data file is created The Excluded Peak file contains the size or time of the excluded peaks the color used to identify each excluded peak and a name for each excluded peak Excluded Peak Files are...

Page 171: ...reviewing LabChip GX Touch data in the LabChip GX Reviewer software Lab on a Chip The generic term for a microfluidic product signifying a chemical process or material movement taking place on a micr...

Page 172: ...do not use ladders or markers Log Files The LabChip GX Touch software log file displays in the EventLog Tab The log file maintains a running record of all events that occur with the instrument while...

Page 173: ...ivers different absolute fluorescence on different instruments making it difficult to compare the e grams of similar samples run on different instruments To provide a more consistent absolute fluoresc...

Page 174: ...and end points of adjacent peaks in the cluster are averaged to the same point so that no gaps exist between peaks Peak Identification From the smoothed data peaks are identified using a hill climbing...

Page 175: ...t ladder Then each sample is shifted in time so the sample s lower marker aligns exactly with the primary ladder lower marker After alignment the size of the protein producing each peak is calculated...

Page 176: ...s appear earlier in electropherogram The software can be used to track expected variants based on migration time and to determine the relative amount of each variant based on peak area Protein Charge...

Page 177: ...reas and rRNA peak heights and some relevant ratios are exported in the Well Table A combination of the quantities is used to assess the quality of the RNA sample Analysis settings can only be changed...

Page 178: ...nty Period Customer must notify PerkinElmer of any Warranty claim prior to expiration of the Warranty Period Notwithstanding anything to the contrary contained herein the Warranty Period for data proc...

Page 179: ...M EXTENT PERMISSIBLE UNDER APPLICABLE LAW PERKINELMER EXPRESSLY DISCLAIMS ALL OTHER WARRANTIES OF ANY KIND EXPRESS IMPLIED OR STATUTORY INCLUDING WITHOUT LIMITATION THE IMPLIED WARRANTIES OF MERCHANTA...

Page 180: ...ip of fifty percent 50 or more of the shares of stock entitled to vote for the election of directors in the case of a corporation or fifty percent 50 or more of the equity interest in the case of any...

Page 181: ...the development of a competing software product or service k install or use the Software on more than one computer simultaneously without the purchase of additional licenses and or the express writte...

Page 182: ...tware is that for a period of ninety 90 days from the date of receipt the Software will substantially contain the functionality described in the published specifications and when properly installed on...

Page 183: ...is entitled to receive its costs and expenses including reasonable attorneys fees incurred in that action in addition to any other relief it may receive b If any term or provision of this Agreement is...

Page 184: ...59 Supported Barcode Types 135 Baseline 167 Baseline Start 122 Bubble 168 Buffer tube 134 inserting 31 removing 41 C Calibrating the instrument 97 to run Protein Clear HR Assays 26 Calibrating the op...

Page 185: ...Flow 169 Electropherogram Graph settings 111 Electrophoresis 20 169 End Point 170 End Time 122 170 Error Messages 147 Chip primed for different assay warning 150 Chip Temperature Warning 151 Current...

Page 186: ...ion 125 preparing to run samples with 23 safety 8 Usage statement 18 Introduction 18 IQ running 143 152 L LabChip GX Touch instrument description 125 Main Window 70 software description 66 Usage state...

Page 187: ...apacity 135 custom 98 height 29 inserting 31 orientation 135 predefined 98 removing 41 Plate Carrier Motion Blocked Error 148 Plate Editor Tab 98 Plate Handler Test 157 Pollution Degree 135 Position b...

Page 188: ...Analysis 106 Sample Names file 55 177 creating 56 using barcode 59 using to select wells 57 Sample Names tab 120 Sample Names editing 60 Save run parameters to file 54 Saving data files 61 Searching...

Page 189: ...ome Timeout 148 HV Check Failed 150 Maximum samples exceeded 150 Move Timeout 149 Plate Carrier Motion Blocked 148 Pressure Leak Detected 149 U USB Ports 129 User Comments 120 V Ventilation 135 Verify...

Page 190: ...PerkinElmer Health Sciences Inc 68 Elm Street Hopkinton Massachusetts 01748 TEL 203 925 4602 FAX 203 944 4904 http www perkinelmer com...

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