ProteinSimple MAURICE Protein Detection Instrument User Manual Maurice manual

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page 285
Chapter 12:
cIEF Data Analysis
Chapter Overview
•
Analysis Screen Overview
•
Opening Run Files
•
How Run Data is Displayed
•
Viewing Run Data
•
Data Notifications and Warnings
•
Checking Your Results
•
Group Statistics
•
Copying Results Tables and Graphs
•
Exporting Run Files
•
Changing Sample Protein Identification
•
Changing the Electropherogram View
•
Closing Run Files
•
Analysis Settings Overview
•
Advanced Analysis Settings
•
Detection Settings
•
Peak Fit Analysis Settings
•
Peak Names Settings
•
pI Markers Analysis Settings
•
Injection Reports
•
Importing and Exporting Analysis Settings
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Chapter 12: cIEF Data Analysis
Analysis Screen Overview
You can use the Analysis screen to view electropherograms and tabulated results for your injections. If any
post-run analysis is needed, you can do it here too. To get to this screen, click the Analysis screen tab:
Analysis Screen Panes
The Analysis screen has four panes:
•
Experiment - Lists the injection number, sample IDs, sample locations and methods for each injection in the run and lets you get a quick view of method parameters.
•
Graph - Displays the electropherograms for sample proteins or pI markers.
•
Peaks - Shows the tabulated results for sample proteins and pI markers.
•
Injections - Displays a list of the sample proteins Compass for iCE names automatically using the
user-defined peak name analysis parameters.
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Software Menus Active in the Analysis Screen
These main menu items are active in the Analysis Screen:
•
File
•
Edit
•
View
•
Instrument (when Compass for iCE is connected to Maurice, Maurice C. or Maurice S.)
•
Window
•
Help
File Menu
These File menu options are active:
•
Open Run - Opens a run file.
•
Add Run - Lets you open and view other run files besides the one that’s already open.
•
Close - Closes the run file currently being viewed.
•
Close All - Closes all open run files.
•
Save/Save As - If you made changes in the Analysis screen before you went to the Run Summary
screen, this saves your changes to the run file.
•
Export Tables - Exports the results for all injections in the run in .txt format.
•
Export Spectra - Exports the raw and analyzed data traces and background for each injection in the
run in .txt or .cdf format.
•
Injection Report - Exports the raw and analyzed data, IV plot, peaks table, sample and system info for
individual injections as PDF files. You can also export the run history with all analysis events.
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Chapter 12: cIEF Data Analysis
Exit - Closes Compass for iCE.
Edit Menu
These Edit menu options are active:
•
Copy - Copies the information in the History pane so you can paste it into other documents.
•
Analysis - Displays the analysis settings used to analyze the run data and lets you change them as
needed. See “Analysis Settings Overview” on page 334 for more information.
•
Preferences - Lets you set and save your preferences for data export, graph colors, grouped data and
Twitter settings. See Chapter 13, “Setting Your Preferences“ for more information.
View Menu
These View menu options are active:
•
Single View - Displays the data for only the injections selected.
•
Multiple View - Displays data for all injections so you can scroll through them.
•
Markers - Lets you view data just for the pI markers in your injections.
•
Samples - Lets you view data just for sample proteins in your injections.
•
Grouping - Displays data for injection groups.
•
View Region - Lets you change the x-axis range of the data displayed.
•
Show Hidden- Shows injections that are hidden from the data view.
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Opening Run Files
You can open one run file or multiple files at the same time to compare information between runs.
Opening One Run File
1.
Select File in the main menu and click Open Run.
2.
A list of the last 10 runs opened will display. Select one of these runs or click Browse to open the Runs
folder and select a different file.
Opening Multiple Run Files
1.
To open the first run file, select File in the main menu and click Open Run.
2.
A list of the last 10 runs opened will display. Select one of these runs or click Browse to open the Runs
folder and select a different file.
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Chapter 12: cIEF Data Analysis
3.
To open another run file, select File in the main menu and click Add Run.
4.
A list of cIEF runs will display. Select one of these runs or click Browse to open the Runs folder and select
a different file.
When a run is added, its data appends to the open run file and displays as a second set of injections in all
screen panes. The second run file name also appears in the title bar:
5.
Repeat the last two steps to add additional runs.
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How Run Data is Displayed
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How Run Data is Displayed
Data in the run file is organized for easy review.
Experiment Pane: Batch Injection Information
The Experiment pane lists all the injections performed in the run, which samples were used for each, the
sample location in the 96-well plate or 48-vial tray and the method used.
•
To view all columns - Use the scroll bar or click Maximize in the upper right corner.
•
To resize columns - Roll the mouse over a column border until the sizing arrow appears, then click
and drag to resize.
•
To view method parameters - Hover the mouse over a method name.
NOTE: Data notification icons will display in the Injection column if Compass for iCE detects a potential
analysis issue or data was manually modified by the user. For more information see “Data Notifications
and Warnings” on page 304.
Graph Pane: Electropherogram Data
The Graph pane displays the electropherogram(s) for sample proteins or pI markers depending on the view
options you’ve selected.
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You can get more info on graph view options in “Changing the Electropherogram View” on page 316.
Peaks Pane: Calculated Results
The Peaks pane shows the tabulated results for your sample proteins or pI markers. Each row in the table has
the individual results for each peak detected in an injection. Results shown will either be for one injection or
multiple injections, samples or pI markers depending on the view options you’re using. Check out “Viewing
Run Data” on page 295 for more info.
NOTES:
Peaks that Compass for iCE names automatically with user-defined peak name settings are color-coded.
When the Markers view is selected, the information in the Peaks table includes only injection, sample,
peak, position and height. pI markers the software has identified are marked with an M.
•
To view all rows - Use the scroll bar or click Maximize in the upper right corner.
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To resize columns - Roll the mouse over a column border until the sizing arrow appears, then click
and drag to resize.
The following results and info are listed in the Peaks table:
•
Injection - Injection number.
•
Sample - If sample names were entered in the batch, those names will display here. Otherwise, Sample
(default name) will display.
•
Peak - Peaks are numbered in order of detection.
•
Name - Displays peaks Compass for iCE named automatically using the user-defined peak name analysis parameters. These cells are blank if the software wasn’t able to name the peak or if you didn’t
enter naming parameters.
•
Position - Peak location in pixels.
•
pI - Displays the calculated peak pI based on the migration time of the peak to the pI markers.
•
Height - The calculated peak height.
•
Area - Displays the time-corrected peak area. This includes corrections for big and/or slow moving
peaks which can be artificially large when uncorrected.
•
% Total - Displays the peak area ratio compared to the sum of all peak areas. This value results from
dividing the individual peak area by the sum of all peak areas for the injection and multiplying by 100.
•
% Area - Displays the calculated percent area for the named peak compared to all named peaks. This
value results from dividing the individual peak area by the sum of all named peak areas for the injection and multiplying by 100 (shown for named peak sample data only).
•
Width - Displays the calculated peak width (sample data only).
•
Baseline - Displays the raw baseline signal of each peak.
•
Resolution - Displays resolution of the peak compared to neighboring peaks. Two peaks that are
baseline resolved will have a resolution value of 1.5. Smaller values means the peaks are not completely resolved, larger values mean the peaks are fully resolved.
Injections Pane: User-Specified Peak Names
The Injections pane shows tabulated results for sample proteins Compass for iCE labels automatically using
user-defined peak name settings. Each row in the table shows the individual results for the named peaks
detected in each injection.
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Chapter 12: cIEF Data Analysis
NOTES:
Peaks that Compass for iCE names automatically with user-defined peak name settings are color-coded.
When the Markers view is selected, the information in the Injections table includes only injection, sample
and the positions of the pI marker (Mkr) peaks.
•
To view all rows - Use the scroll bar or click Maximize in the upper right corner.
•
To resize columns - Roll the mouse over a column border until the sizing arrow appears, then click
and drag to resize.
The following results and info are listed in the Injections table:
•
Injection - Injection number.
•
Sample - If sample names were entered in the batch, those names will display here. Otherwise, Sample
(default name) will display.
•
Peak Name Columns - An individual column per peak name will display for every peak identified by
name or as a pI marker peak in the run data. Cells for injections in these columns will be blank if Compass for iCE didn’t find peaks automatically using the user-defined peak name analysis and maker
parameters (or none were entered).
•
•
To view peak area in the peak name columns (default) - Select Area in the upper right corner
of the pane. This displays calculated peak area for the individual peak only.
To view % total in the peak name columns - This displays the calculated percent area for the
named peak compared to all named peaks. This value results from dividing the individual peak
area by the sum of all named peak areas for the injection and multiplying by 100.
NOTE: The sum of the named peak percentages can be less than 100% if some peaks aren’t named.
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To view % area in the peak name columns - This displays the peak area ratio compared to the
sum of all named peak areas. This value results from dividing the individual peak area by the sum
of all peak areas for the injection and multiplying by 100.
Viewing Run Data
The Analysis screen lets you view data for just one injection, specific injections or all injections in the run.
Each run file has data for the sample proteins and the pI markers detected in each injection.
Switching Between Samples and Markers Data Views
Here’s how you switch between viewing data for your samples and pI markers:
•
To view sample data - Click Samples in the View bar or select View in the main menu and click
Samples.
•
•
Data in this view is for sample proteins only.
The graph displays electropherograms with a y-axis of either Absorbance units (mAU) or Fluorescence units and an x-axis of pI. Go to “Detection Settings” on page 343 for more info on how to
change the detection method to view either absorbance or native fluorescence data.
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Chapter 12: cIEF Data Analysis
Results for each protein are shown in the Peaks and Injections panes.
For information on checking and identifying sample peaks, see “Checking Your Data” on page 105.
•
To view pI marker data - Click Markers in the View bar or select View in the main menu and click
Markers.
•
•
Data in this view is for analyzing pI markers only. These are the pI markers you add to your samples during prep.
The graph displays electropherograms with a y-axis of either Absorbance units (mAU) or Fluorescence units and an x-axis of pixels. Go to “Detection Settings” on page 343 for more info on how
to change the detection method to view either absorbance or native fluorescence data.
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pI markers are identified in the Peaks pane with an M and as Mkr in the Injections pane.
For information on checking and identifying the pI marker peaks, see “Checking Your Data” on page 105.
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Chapter 12: cIEF Data Analysis
Selecting and Displaying Injection Data
You can view data from one, multiple, or all injections at once.
•
To look at data for one injection - Click an injection row in the Experiment pane. Data for just that
injection displays in the graph and tables.
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To look at data for specific injections - Hold the Ctrl key and select just the injection rows you want
to view in the Experiment pane. Data for only the injections selected display in the graph and tables.
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Chapter 12: cIEF Data Analysis
To look at data for sequential injections - Select the first injection row in the Experiment pane that
you want to view, then hold the Shift key and select the last. This selects all rows between the two
injections. Data for only the injections selected display in the graph and tables.
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To look at data for all injections - Just click View All in the View bar. Data for all injections displays in
the graph and tables.
Switching Between Single and Multiple Views of Injections
You can switch between displaying run data in a single, per-injection format or a multi-injection format.
•
To view data per in a per-injection format - Click Single View in the View bar or select View in the
main menu and click Single View.
Data for the injection row(s) selected in the Experiment pane:
•
Displays with electropherograms either overlaid or stacked in the Graph pane depending on the
option you’ve got chosen.
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•
Chapter 12: cIEF Data Analysis
Shows only results for the selected row(s) in the Peaks and Injections panes.
To view data in a multi-injection format - Click View All in the View bar or select View in the main
menu and click Multiple View:
Data for the injection row(s) selected in the Experiment pane:
•
•
Displays with the electropherograms of the selected injections highlighted in the Graph pane.
Shows the results for the selected injections highlighted in the Peaks and Injections panes.
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Viewing Run Data
page 303
Hiding Injection Data
You can hide injection data from the view if needed.
•
To hide injections - Select the injection rows you want to hide in the Experiment pane, then right
click one and select Hide.
Data for the injections will be hidden in all data views and results tables.
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Chapter 12: cIEF Data Analysis
•
To view hidden injections - Select View in the main menu and click Show Hidden. Hidden rows
will become visible again in all panes, and are marked with an X in the Experiment pane.
•
To unhide injections - Select the hidden row(s). Right click on one and click Unhide.
Data Notifications and Warnings
If Compass for iCE detects a potential data issue, a notification or warning icon will display next to the injection row in the Experiment pane.
Manual correction of sample data notification - This means the sample data was manually
changed by a user, for example to add or remove a sample peak. Roll your mouse over the icon
to display the type of modification that was made.
Markers warning - This means one or more of the pI markers may not be identified properly.
You can fix this by manually identifying the pI marker using the steps in “Step 2: Check Your pI
Markers” on page 105. Roll your mouse over the icon to display warning details.
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Manual correction of markers data notification - This means a user changed the pI marker
data manually. Roll your mouse over the icon to display the type of modification that was
made.
Peak fit warning - Means that a peak can’t be fit properly. This can sometimes be caused
when a broad peak is fitted as multiple narrow peaks. Changing the peak width can help in this
case. The warning is also caused by very small peaks around main peaks, or small peaks that are
close to the end of the separation range. You can often fix this by removing the peak(s) using
the steps in “Step 3: Checking Sample Peaks” on page 108. Roll your mouse over the icon to
display warning details.
Checking Your Results
If you see a data warning in the Experiment pane, these steps will also help you identify and correct any
issues. Compass for iCE detects your sample protein and pI marker peaks and reports results automatically.
But, we always recommend you review your data using the steps in this section as a good general practice
to make sure your results are accurate. Please see the step by step procedure in “Checking Your Data” on
page 105 to do this.If you see a data warning in the Experiment pane, these steps will also help you identify
and correct any issues.
Group Statistics
You can use the Grouping view to have Compass for iCE do a statistical analysis of named proteins in your
injections (see “Peak Names Settings” on page 354 for more info on setting named peaks up). Statistics for
each protein are also plotted for easy comparison.
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Using Groups
1.
Groups are automatically created for injections that use the same sample name and method, so to use
this feature, you need to make sure you’ve got sample names entered.
a. Go to the Batch screen.
b. Click the Sample ID cells in the Injection pane and type a name for any samples you want to calculate statistics for.
2.
Go back to the Analysis screen. Click View in the main menu and select Grouping.
NOTE: To turn Grouping off, select View in the main menu and deselect Grouping.
Viewing Sample Injection Groups
Compass for iCE automatically groups all injections using the same sample name together in the Injection
Groups pane.
•
To expand a group - Click the arrow next to a group to see the individual injections in the group and
reported data for each
User Guide for Maurice, Maurice C. and Maurice S.
Group Statistics
•
To expand all groups - Click Expand All (+) in the upper right corner of the pane.
•
To collapse all groups - Click Collapse All (-) in the upper right corner of the pane.
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Viewing Statistics
Peak and Method Groups
The Peak Groups pane reports statistics for each named protein in every group. Each group shows the statistics for named proteins which includes average area, standard deviation, %CV and SEM (standard error measurement). The number in parenthesis after the sample name is the number of injections in the group.
•
To display results using area - Click Area in the upper right corner of the pane.
•
To display results using % total - Click % Total in the upper right corner of the pane to display the
calculated percent area for the named peak compared to the total area measured in the injection.
This value results from dividing the individual peak area by the sum of all peak areas for the injection
and multiplying by 100.
•
To display results using % area - Click % Area in the upper right corner of the pane to display the
calculated percent area for the named peak compared to all named peaks. This value results from
dividing the individual peak area by the sum of all named peak areas for the injection and multiplying
by 100 (shown for named peak sample data only).
•
To expand a group - Click the arrow next to a group to see the individual injections in the group and
reported data for each
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•
To expand all groups - Click Expand All (+) in the upper right corner of the pane.
•
To collapse all groups - Click Collapse All (-) in the upper right corner of the pane.
The Method Groups pane pivots the Peak Groups pane results to show statistics for named protein peaks in
individual columns.
Group Plots
The mean values for named peaks using the same method in each injection group are plotted in bar graphs
with error bars showing the standard deviation in the Group Plots pane. You’ll also get plots that compare
samples using the same method in the run.
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Hiding or Removing Injections in Group Analysis
Hidden injections are not included in injection groups. But, hiding injections gives you an easy way to reject
individual injections from the statistical analysis. See “Hiding Injection Data” on page 303 for details on how
to do this.
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Copying Results Tables and Graphs
You can copy and paste data and results tables into other documents, or save the electropherogram as a
graphic file.
Copying Results Tables
1.
Click in the Peaks or Injections pane.
2.
Select one or multiple rows.
3.
Select Edit in the main menu and click Copy, or right click on row(s) you selected and click Copy.
4.
Open a document (Microsoft® Word®, Excel®, PowerPoint®, etc.). Right click in the document and select
Paste. Data for the rows selected will be pasted into the document.
Copying the Graph
1.
Select the Graph pane.
2.
Select Edit in the main menu and click Copy, or right click in the Graph pane and select Copy.
3.
Select an image option (EMF, PNG or PDF) in the pop-up window, then click Copy.
4.
Open a document (Microsoft® Word®, Excel®, PowerPoint®, etc.). Right click in the document and select
Paste. A graphic of the copied electropherogram will be pasted into the document.
Saving the Graph as an Image File
1.
Select the Graph pane.
2.
Select Edit in the main menu and click Copy, or right click in the Graph pane and select Copy.
3.
Select an image option (EMF, PNG or PDF) in the pop-up window, then click Save.
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Exporting Run Files
4.
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Select a directory to save the file to, enter a file name, then click OK.
Exporting Run Files
Results tables and raw plot data can be exported for use in other applications.
Exporting Results Tables
To export the information in the Peaks and Injections tables:
1.
Click File in the main menu and click Export Tables.
2.
Select a directory to save the files to and click OK. Data will be exported in .txt format.
NOTE: To exclude export of standards (pI markers) data or export results table data in .csv format, see “Setting Data Export Options” on page 379.
Exporting Raw Sample Electropherogram Data
To export raw sample plot and background data:
1.
Click File in the main menu and click Export Spectra.
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•
2.
To export data in .txt format - Select Text Format. Data will be exported in one file for all injections.
• To export data in .cdf format - Select Andi Format. Data will be exported in one file per injection.
Select a directory to save the files to and click OK. Data will be exported in the selected format.
Changing Sample Protein Identification
Compass for iCE lets you customize what sample proteins are reported in the results tables by making manual adjustments in the electropherogram or Peaks table.
Adding or Removing Sample Data
1.
Click Show Samples in the View bar.
2.
Click Single View in the View bar.
3.
Click on the row in the experiment pane that has the injection you want to correct, then click the Graph
tab.
• To remove a peak from the data - Right click the peak in the electropherogram or Peaks table
and select Remove peak. The software will no longer identify it as a sample peak in the electropherogram, and the peak data will be removed in the results tables.
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Changing Sample Protein Identification
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A check mark will appear next to the injection in the Experiment pane to indicate a manual correction was made.
• To add an unidentified peak to the data - Right click the peak in the electropherogram or
peaks table and select Add Peak. The software will calculate and display the results for the
peak in the results tables and identify the peak in the electropherogram.
A check mark will appear next to the injection in the Experiment pane to indicate a manual correction was made.
NOTE: To remove sample peak assignments that were made manually and go back to the original peak
data, right-click the peak in the electropherogram and select Clear for the current injection or Clear All
for all injections in the batch.
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Hiding Sample Data
You can hide the results for a sample protein in the results tables without completely removing it from the
reported results.
1.
Click Show Samples in the View bar.
2.
Click Single View in the View bar.
3.
Click on the row in the experiment pane that contains the injection you want to correct, then click the
Graph tab.
4.
Right click the peak in the electropherogram or Peaks table and select Hide. Compass for iCE will hide
the peak data in the results tables.
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Changing Sample Protein Identification
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5.
To view hidden peak data, click View in the main menu and click Show Hidden. Hidden peak data will
display in the results table and be marked with an X.
6.
To unhide a peak, right click on the peak in the electropherogram or peaks table and select Unhide.
Changing Peak Names for Sample Data
If Compass for iCE did not automatically name a sample protein peak, you can do it manually.
1.
Click Show Samples in the View bar.
2.
Click Single View in the View bar.
3.
Click on the row in the experiment pane that has the sample you want to correct, then click the Graph
pane.
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Chapter 12: cIEF Data Analysis
Right click the peak in the electropherogram or Peaks table and click Name, then select a name from
the list. Compass for iCE will change the peak name in the electropherogram and results tables, and
adjust peak names for other sample proteins accordingly.
NOTE: For details on how to specify peak name settings, see “Peak Names Settings” on page 354.
Changing the Electropherogram View
Options in the Graph pane let you zoom and rescale electropherograms, overlay or stack plots and change
the peak and plot info displayed.
The Graph pane toolbar has these options:
Auto Scale
Graph Options
Stack the Plots
Overlay the Plots
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Changing the Electropherogram View
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Autoscaling the Electropherogram
Click the Auto Scale button to scale the y-axis to the largest peak in the electropherogram.
Click the Auto Scale button again to return to default scaling.
Customizing the Data Display
You can customize electropherogram peak labels, plot labels and display options. To do this, just select the
Graph Options button.
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Peak Labels
You can customize the labels used to identify peaks in the electropherogram with these options:
•
Matching Peak Names - Checking this box will draw vertical lines through each named peak. Using
this option with Stack the Plots or Overlay the Plots features is helpful for visually comparing your
named peaks across multiple injections.
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Peak Names - Checking this box displays peak name labels on all named peaks in the electropherogram.
NOTE: If more than one peak label option is selected, peak name labels will always be used for named
peaks.
•
Peak Values - Checking this box will display the molecular weight labels on all peaks in the electropherogram.
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NOTE: If more than one peak label option is selected, peak name labels will always be used for named
peaks.
Baseline and Grid Options
You can view the calculated baseline fit, peak integration and show grid lines with these options.
•
Fitted peaks - Checking this box displays how the peaks were fit by the software. For cIEF runs, the
software uses Dropped Lines by default.
NOTE: This option is only available for sample data.
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Baseline Fit - Checking this box displays the calculated baseline for the peaks. Baseline points will
also display for regions of the electropherogram considered to be at baseline.
NOTE: This option is only available for sample data.
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Grid Lines - Checking this box adds grid lines in the graph.
Plot Labels
You can customize the plot labels displayed on the electropherogram with these options.
Plot labels are shown in the upper right side of the graph.
•
Sample - Checking this box displays the sample name used for the injection. If sample names were
entered with the batch, those names will display here. If not, Sample (default name) displays.
•
Method - Checking this box displays the method used for the injection.
•
Exposure - Checking this box display the exposure time(s) used for the data.
•
Injection - Checking this box displays the injection number. For example, I4 for injection 4 in the run.
Here’s an example of an electropherogram with all plot labels selected:
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Stacking Multiple Electropherograms
You can stack electropherograms for multiple injections vertically in the Graph pane for comparison.
1.
Click Single View.
2.
Select multiple injection rows in the Experiment pane.
3.
Click the Stack the Plots button. The individual electropherograms for each injection you selected will
stack in the Graph pane.
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You can also customize the colors used for the stacked plot display. To do that go to “Selecting Custom Plot
Colors for Graph Overlay” on page 380.
Overlaying Multiple Electropherograms
You can overlay electropherograms for multiple injections on top of each other for comparison in the Graph
pane.
1.
Click Single View.
2.
Select multiple injection rows in the Experiment pane.
3.
Click the Overlay the Plots button. The individual electropherograms for each injection you selected
will overlay in the Graph pane.
You can also customize the colors used for the overlay plot display. To do that go to “Selecting Custom Plot
Colors for Graph Overlay” on page 380.
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Zooming
To zoom in on a specific area of the electropherogram, hold the mouse button down and draw a box around
the area with your mouse:
To return to default scaling, right click in the electropherogram and click Zoom Out.
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Selecting Data Viewing Options
The graph view menu gives you multiple options for changing what type of electropherogram data is displayed. Just click the down arrow next to the graph pane toolbar to view the menu:
A check mark next to the menu option indicates it’s currently selected, and you can select multiple options
at once.
NOTE: Unless noted otherwise, graph view menu options are available for sample data only.
•
Sample Raw - Clicking this option displays the basic detector values used to calculate peak absorbance.
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•
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Sample Background - Clicking this option displays the basic detector values used to calculate baseline absorbance.
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•
Sample - Clicking this option displays raw, uncorrected sample data.
•
Sample Baseline Corrected - Clicking this option displays sample data with the baseline subtracted
(zeroed). This is the default view. In this next example, both Sample and Sample Baseline Corrected
are selected.
•
Baseline Fit - Clicking this option displays the calculated baseline for the raw sample data. In this
next example, both Baseline Fit and Sample are selected.
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NOTE: This option is selected automatically when Baseline Fit is selected in graph options.
•
Baseline Points - Clicking this option displays regions of the electropherogram considered to be at
baseline. In this example, both Baseline Points and Sample are selected.
NOTE: This option is selected automatically when Baseline Fit is selected in graph options.
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•
Fit - Clicking this option displays the bounding envelope of the fitted peaks as calculated by the software for the raw sample data. In this example, both Fit and Sample Baseline Corrected are selected.
•
Fit Baseline Corrected - Clicking this option displays the fitted peaks as calculated by the software
for the sample baseline corrected data. In this example, both Fit Baseline Corrected and Sample Raw
are selected, the fit plot is on the bottom.
Adding and Removing Baseline Points
Points in the baseline can be added or removed as needed.
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1.
Click the Graph Options button in the graph pane toolbar and check Baseline Points. This will display
baseline points for the raw sample data.
2.
Use the mouse to draw a box around the area you want to correct. This will zoom in on the area.
3.
Right click a baseline point and select Add Baseline Point or Remove Baseline Point.
NOTE: To clear the manual addition or removal of baseline points and go back to the original view of the
data, right click in the electropherogram and click Clear All.
Selecting the Graph X-axis Range
The pI range used for the x-axis can be changed. Just select View in the main menu and click View Region.
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•
Analysis sets the x-axis range of the electropherogram to what is selected in the Peak Fit range settings. To view or change these analysis settings, go to Edit > Analysis and click Peak Fit in the left
sidebar. In this example, the lower and upper range settings are 3.0 and 10.5.
•
Full displays the entire separation in the electropherogram. This is the default setting. In this example
the lower and upper range settings are 1.5 and 11.4.
•
Custom lets you manually enter the lower and upper range settings to display in the electropherogram. In this example the lower and upper range settings are 5.0 and 9.0.
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NOTE: You can change the default x-axis range that Compass for iCE uses. Go to “Advanced Analysis Settings” on page 336 for more info.
Closing Run Files
If more than one run file is open, you can close just one file or all the open files at the same time.
•
To close one run file - In the Experiment pane, click on one of the sample rows in the file. Then click
File from the main menu and click Close.
•
To close all open run files - Select File from the main menu and click Close All.
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Analysis Settings Overview
Compass for iCE has many analysis features and settings that you can change to enhance your run data.
Select Edit in the main menu and click Analysis. If more than one run file is open, select the run file you
want to view settings for from the list:
This opens the Analysis window:
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To move between pages in the window, click on an option in the left sidebar.
•
Advanced - Lets you customize analysis settings for the pI markers.
•
Detection - Lets you choose to view absorbance or native fluorescence data for the run and choose
data at different fluorescence exposures.
•
Peak Fit - Lets you customize peak fit settings for sample data.
•
Peak Names - Lets you enter custom naming settings for sample proteins and have Compass for iCE
automatically label the peaks in the run data.
•
pI Markers - Lets you customize the pI markers and positions Compass for iCE identifies for each
method in your run.
On all pages in the Analysis window:
•
Click Import to import an analysis settings file. Go to “Importing Analysis Settings” on page 374 to
learn how to do this.
•
Click Export to export the current analysis settings file. Go to “Exporting Analysis Settings” on
page 374 to learn how to do this.
•
Click Apply to apply changes to the run file and update results in real time.
•
Click OK to save changes to the run file and exit.
•
Click Cancel to exit without saving changes.
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Advanced Analysis Settings
This page lets you view and change analysis settings for the pI marker data. Select Edit in the main menu
and click Analysis, then click Advanced in the left sidebar:
NOTE: Settings can be changed in batches before you start the run, or in run files once they’re completed. If
you make analysis settings changes to an executing run, they won’t be saved to the final run file.
pI Markers Settings
•
Peak Width - The approximate width (at full width half max) used to filter out absorbance and fluorescence artifacts which improves recognition of pI markers.
•
Allowable Drift - The distance the pI marker(s) are expected to move compared to the position
entered on the pI Markers page. This setting helps with recognition of the pI marker.
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Advanced Analysis Settings Groups
Advanced analysis settings are saved as a group, and you can create multiple settings groups. Specific group
settings can be applied to methods, injections, sample names or other attributes in the run data.
NOTES:
We recommend using the Compass for iCE default values for advanced analysis settings. These settings
are included in the default Advanced group.
Analysis settings are run-file specific. But, settings can be imported or exported for use with other run files.
See “Importing and Exporting Analysis Settings” on page 374 for more info.
Analysis groups are displayed in the analysis settings box:
The Advanced group shown contains the Compass for iCE default analysis settings. You can make changes
to this group and create new groups. To view settings for a group, click on the group name.
Creating a New Analysis Group
1.
Select Edit > Analysis, and select Advanced in the left sidebar.
2.
Click Add under the analysis settings box. A new group will be created:
3.
Click on the new group and enter a new name.
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4.
Change the settings in the Markers box as needed.
5.
To use the new group as the default analysis settings for the run data, click the arrow in the drop down
list next to Apply Default, then click the new group from the list. Analysis settings in the new group will
then be applied to the run data.
6.
Click OK to save changes.
Changing the Default Analysis Group
1.
Select Edit > Analysis, and select Advanced in the left sidebar.
2.
Click the arrow in the drop down list next to Apply Default, then click a new default group from the list.
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Advanced Analysis Settings
3.
Click OK to save changes. Analysis settings in the group selected will be applied to the run data.
Modifying an Analysis Group
1.
Select Edit > Analysis, and select Advanced in the left sidebar.
2.
Click on the group in the analysis settings box you want to modify.
3.
Change the settings in the Markers box as needed.
4.
Click OK to save changes. The new analysis settings will be applied to the run data.
Deleting an Analysis Group
1.
Select Edit > Analysis, and select Advanced in the left sidebar.
2.
Click on the group in the analysis settings box you want to delete and click Remove.
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Click OK to save changes.
Applying Analysis Groups to Specific Run Data
1.
Select Edit > Analysis, and select Advanced in the left sidebar.
2.
Click on the group in the analysis settings box you want to apply to specific run data.
3.
Application of analysis groups to specific run data is done in the override box. Click Add under the override box. A default override data set will be created from sample information found in the run file.
4.
Click the cell in the Apply To column, then click the down arrow.
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5.
Select an option from the drop down list. This applies the settings group selected to specific run data as
follows:
•
•
•
•
6.
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Methods - All methods in the run file display in the list. Selecting a method applies the group
settings to all injections that used that method.
Sample names - All sample names in the run file display in the list, otherwise the default name
of Sample shows. Selecting a sample name applies the group settings to all injections that used
that sample name.
Wells or vials - All well or vial numbers used in the run display in the list. Selecting a well/vial
number applies the group settings to all injections that used that well/vial.
Custom settings - Lets you choose specific injections to apply the group settings to. When you
select this in the list, a pop-up box displays to let you enter a specific injection number or range
of injections:
If you need to change the analysis group used for a data set, click the cell in the Settings column and
click the down arrow. Select a group from the drop down list.
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7.
Repeat the previous steps to apply other groups to specific run data.
8.
To remove a data set, click on its cell in the Apply To column, then click Remove.
9.
Click OK to save changes.
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Detection Settings
This page lets you see the absorbance and native fluorescence exposures taken during the run, and select
different exposures for data viewing in the Analysis screen. Select Edit in the main menu and click Analysis,
then click Detection in the left sidebar.
Changing the Detection Method
You can choose to display either absorbance or fluorescence data for your run in the Analysis screen.
1.
Select Edit > Analysis, and select Detection in the left sidebar.
2.
Select either the Absorbance or Fluorescence radio button.
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Changing the Detection Exposure
You can change the exposure used for the sample data displayed in the Analysis screen.
NOTES:
You’ll only be able to choose exposures for the detection method currently selected.
The number of exposures taken and exposure times shown are specified in the method when you set up
your batch. They can’t be changed after the run has executed.
The Absorbance exposure at 0.005 seconds is an instrument default exposure setting. No other absorbance exposures are available.
1.
Select Edit > Analysis, and select Detection in the left sidebar.
2.
Click the arrow in the exposure button you wan to change and select an exposure setting:
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Click OK to save changes. Sample data for the exposure selected will display in the Analysis screen.
Peak Fit Analysis Settings
This page lets you view and change peak fit settings for sample data. Select Edit in the main menu and click
Analysis, then click Peak Fit in the left sidebar:
NOTE: Settings can be changed in the batch default analysis before you start the run, or in run files once
they’re completed. If you make analysis settings changes to an executing run, they won’t be saved to the
final run file.
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Range Settings
•
Minimum - The pI value below which peaks won’t be identified. This value is also used as the default
lower pI range for data displayed in the electropherogram.
•
Maximum - The pI value above which peaks won’t be identified. This value is also used as the default
upper pI range for data displayed in the electropherogram.
•
View - Sets the default range to either Full or Analysis for the electropherogram x-axis range in the
View Region window (select View in the main menu and click View Region).
•
•
Analysis sets the x-axis range of the electropherogram to the Peak Fit range minimum and maximum settings in the electropherogram.
Full displays the entire separation range of the run data in the electropherogram. This is the
default setting.
Baseline Settings
•
Threshold - The variance, or roughness, in a baseline data segment below which a point is called part
of the baseline.
•
Window - How long baseline data segments are expected to be in pixels. Shorter segments let the
baseline follow plateau sections of the signal.
•
Stiffness - The amount the baseline is allowed to vary from a straight line. Settings between 0.1 and
1.0 make the baseline fit closer to a straight line. Settings from 1.0 to 10.0 will make the baseline fit follow the data more closely.
Peak Find Settings
•
Threshold - The minimum signal to noise ratio required for a peak to be identified. A setting of 1.0 will
detect many peaks, a setting of 10.0 will detect fewer peaks.
•
Width - The approximate peak width (at full width half max) in pixels used to detect peaks. The minimum value for this setting is 3.0. Larger widths help eliminate the detection of shoulder and noise
peaks.
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Area Calculation - Two fits are used, either Gaussian Fit or Dropped Lines. These settings can be
changed before or after the run is finished.
•
For cIEF applications, peak area is calculated using Dropped Lines by default.
•
This next view is of the same data using the Dropped Lines method instead.This type of area calculation is also often called the perpendicular drop method. This is the preferred method when
peaks overlap or are close to each other. It draws two vertical lines from the left and right bounds
of the peak down to the x-axis and then measures the total area bounded by the signal curve, the
x-axis (y=0 line), and the two vertical lines.
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Peak Fit Analysis Settings Groups
Peak fit settings are saved as a group, and you can create multiple settings groups. Specific group settings
can then be applied to methods, injections, sample names or other attributes in the run data.
NOTES:
We recommend using the Compass for iCE default values for peak fit analysis settings. These settings are
included in the default Peak Fit group.
Analysis settings are run-file specific. But, settings can be imported or exported for use with other run files.
For more information see “Importing and Exporting Analysis Settings” on page 374.
Peak fit groups are displayed in the analysis settings box:
The Peak Fit group shown contains the Compass for iCE default analysis settings. You can make changes to
this group and create new groups. To view settings for a group, click on the group name.
Creating a New Peak Fit Group
1.
Select Edit > Analysis, and select Peak Fit in the left sidebar.
2.
Click Add under the analysis settings box. A new group will be created:
3.
Click on the new group and enter a new name.
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4.
Change the settings in the range, baseline or peak find boxes as needed.
5.
To use the new group as the default peak fit settings for the run file data, click the arrow in the drop
down list next to Apply Default, then click the new group from the list. Peak fit settings in the new group
will then be applied to the run data.
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Click OK to save changes.
Changing the Default Peak Fit Group
1.
Select Edit > Analysis, and select Peak Fit in the left sidebar.
2.
Click the arrow in the drop down list next to Apply Default, then click a new default group from the list.
3.
Click OK to save changes. Peak fit settings in the group selected will be applied to the run data.
Modifying a Peak Fit Group
1.
Select Edit > Analysis, and click Peak Fit in the left sidebar.
2.
Click on the group in the analysis settings box you want to modify.
3.
Change the settings in the range, baseline or peak find boxes as needed.
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4.
Click OK to save changes. The new peak fit settings will be applied to the run data.
Deleting a Peak Fit Group
1.
Select Edit > Analysis, and select Peak Fit in the left sidebar.
2.
Click on the group in the analysis settings box you want to delete and click Remove.
3.
Click OK to save changes.
Applying Peak Fit Groups to Specific Run Data
1.
Select Edit > Analysis, and select Peak Fit in the left sidebar.
2.
Click on the group in the analysis settings box you want to apply to specific run data.
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3.
Application of analysis groups to specific run data is done in the override box. Click Add under the override box. A default override data set will be created from sample information found in the run file.
4.
Click the cell in the Apply To column, then click the down arrow.
5.
Select an option from the drop down list. This applies the settings group selected to specific run data as
follows:
•
•
Methods - All methods in the run file display in the list. Selecting a method applies the group
settings to all injections that used that method.
Sample names - All sample names in the run file display in the list, otherwise the default name
of Sample shows. Selecting a sample name applies the group settings to all injections that used
that sample name.
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•
•
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Wells or vials - All well or vial numbers used in the run display in the list. Selecting a well/vial
number applies the group settings to all injections that used that well/vial.
Custom settings - Lets you choose specific injections to apply the group settings to. When you
select this in the list, a pop-up box displays to let you enter a specific injection number or range
of injections:
6.
If you need to change the analysis group used for a data set, click the cell in the Settings column and
click the down arrow. Select a group from the drop down list.
7.
Repeat the previous steps to apply other groups to specific run data.
8.
To remove a data set, click on its cell in the Apply To column, then click Remove.
9.
Click OK to save changes.
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Peak Names Settings
This page lets you view and change custom naming settings for sample proteins. Select Edit in the main
menu and click Analysis, then click Peak Names in the left sidebar.
NOTE: Settings can be changed in the batch default analysis before you start the run, or in run files once
they’re completed. If you make analysis settings changes to an executing run, they won’t be saved to the
final run file.
Peak Names Analysis Settings Groups
Peak name settings are saved as a group, and you can create multiple settings groups. Specific group settings can be applied to methods, injections, sample names or other attributes in the run data.
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NOTE: Analysis settings are run-file specific. But, settings can be imported or exported for use with other
run files. For more information see “Importing and Exporting Analysis Settings” on page 374.
Peak name groups are displayed in the analysis settings box:
There aren’t any Compass for iCE default settings groups, but you can make changes to groups you’ve created and create new groups. To view settings for a group, click on the group name in the analysis settings
box.
Creating a Peak Names Group
1.
Select Edit > Analysis, and select Peak Names in the left sidebar.
2.
Click Add under the analysis settings box.
3.
Enter a new name for the group.
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4.
Click in the first cell in the Name column in the analysis settings peak table and enter a sample protein
name.
5.
Click in the first cell in the pI column and enter the expected pI for the sample protein.
6.
Click in the first cell in the Color column, then click the button.
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The color selection box displays:
7.
The color you pick is used to identify the sample protein peak in the Peaks and Injections panes in the
Analysis screen. Click a color or define a custom color and click OK. The color selection will update in the
table:
8.
Click in the first cell in the Range column.
9.
Enter a % range for the pI entered. Compass for iCE will automatically name peaks found within this percent of the pI. For example, if the pI entered is 2 and a 10% range is used, all peaks with pIs between 1.8
and 2.2 will be identified with this peak name and color.
10. To add another sample protein, click Add under the peak table. Repeat the previous steps for other sample proteins. In this example, eight proteins were entered:
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To remove a sample protein, select its row and click Remove.
11. Click OK to save changes.
Modifying a Peak Names Group
1.
Select Edit > Analysis, then click Peak Names in the left sidebar.
2.
Click on the group in the analysis settings box you want to modify.
3.
Change the information in the analysis settings peak table as described in “Creating a Peak Names
Group” on page 355.
4.
Click OK to save changes.
Deleting a Peak Names Group
1.
Select Edit > Analysis, then click Peak Names in the left sidebar.
2.
Click on the group in the analysis settings box you want to delete and click Remove.
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Click OK to save changes.
Applying Peak Names Groups to Run Data
1.
Select Edit > Analysis, then click Peak Names in the options list.
2.
Click on the group in the analysis settings box you want to apply to specific run data.
3.
Application of peak names groups to specific run data is done in the apply settings box. A default data
set automatically gets created whenever you create a new group and it’s applied to all injections in the
run. You can either modify the default group or click Add under the box to create a new one.
4.
Click the cell in the Apply To column, then click the down arrow.
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5.
Select an option from the drop down list. This applies the peak names group selected to specific run
data as follows:
•
•
•
•
•
6.
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All - Selecting this applies peak names group settings to all injections.
Methods - All methods in the run file display in the list. Selecting a method applies the group
settings to all injections that used that method.
Sample names - All sample names in the run file display in the list, otherwise the default name
of Sample shows. Selecting a sample name applies the group settings to all injections that used
that sample name.
Wells or vials - All well or vial numbers used in the run display in the list. Selecting a well/vial
number applies the group settings to all injections that used that well/vial.
Custom settings - Lets you choose specific injections to apply the group settings to. When you
select this in the list, a pop-up box displays to let you enter a specific injection number or range
of injections:
If you need to change the peak names group used for a data set, click the cell in the Settings column
and click the down arrow. Select a group from the drop down list.
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7.
Repeat the previous steps to apply other groups to specific run data.
8.
To remove a data set, click on its cell in the Apply To column, then click Remove.
9.
Click OK to save changes. Named peaks will be identified with a peak name label in the electropherogram and color-coded in the Peaks and Injections panes:
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pI Markers Analysis Settings
This page lets you define the pI and position of the pI Markers you’re using in your samples. Select Edit in the
main menu and click Analysis, then click pI Markers in the left sidebar.
NOTE: Settings can be changed in the batch default analysis before you start the run, or in run files once
they’re completed. If you make analysis settings changes to an executing run, they won’t be saved to the
final run file.
Markers Analysis Settings Groups
pI marker settings are saved as a group, and you can create multiple settings groups. Specific group settings
can be applied to methods, injections, sample names or other attributes in the run data.
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NOTES:
We recommend using the Compass for iCE default values. These settings are included in the default Markers group.
When you edit the pI markers in the method for a batch, Compass for iCE automatically creates a Markers
group in the pI Markers Analysis settings for you.
Analysis settings are run-file specific. But, settings can be imported or exported for use with other run files.
For more information see “Importing and Exporting Analysis Settings” on page 374.
Markers groups are displayed in the analysis settings box:
The Markers group shown uses the Compass for iCE default settings. You can make changes to this group
and create new groups. To view settings for a group, click on the group name.
Creating a New Markers Group
1.
Select Edit > Analysis, and select pI Markers in the left sidebar.
2.
Click Add under the analysis settings box. A new group will be created:
3.
Click on the new group and enter a new name.
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The default Maurice cIEF pI marker pI and position values are already populated in the pI Marker Peaks
table. If you’d like to use these values, skip to the next step. If you’re using different markers, here’s how
to change the values:
a. Click in the first cell in the pI column in the table and enter the pI for the marker.
b. Click in the first cell in the Position column and enter a value for the marker.
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NOTE: pI marker peak positions are relative to each other. Only the difference in position is used to help
identify them. When entering pI marker peak information for the first time, review the marker data in the
Analysis screen to find the correct peak positions.
c. Repeat the steps above for the remaining markers in the table.
5.
6.
• To add another marker - Click Add under the table, then change the information in the new
row.
• To remove a marker - Select its row and click Remove.
To use the new group as the default settings for the run, click the arrow in the drop down list next to
Apply Default, then click the new group in the list. The settings in the new group will then be applied to
the run data.
Click OK to save changes.
Changing the Default Markers Group
1.
Select Edit > Analysis, and click pI Markers in the left sidebar.
2.
Click the arrow in the drop down list next to Apply Default, then select a new default group from the list.
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3.
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Click OK to save changes. Analysis settings in the group selected will be applied to the run data.
Modifying a Markers Group
1.
Select Edit > Analysis, and click Markers in the left sidebar.
2.
Click on the group in the analysis settings box you want to modify.
3.
Change the marker info as needed as in “Creating a New Markers Group” on page 363.
4.
Click OK to save changes. The new analysis settings will be applied to the run data.
Deleting a Markers Group
1.
Select Edit > Analysis, and click pI Markers in the left sidebar.
2.
Click on the group in the analysis settings box you want to delete and click Remove.
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pI Markers Analysis Settings
3.
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Click OK to save changes.
Applying Markers Groups to Specific Run Data
1.
Select Edit > Analysis, and select pI Markers in the left sidebar.
2.
Click on the group in the analysis settings box you want to apply to specific run data.
3.
Application of markers groups to specific run data is done in the override box. Click Add under the override box. A default override data set will be created from sample information found in the run file.
4.
Click the cell in the Apply To column, then click the down arrow.
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5.
Select an option from the drop down list. This applies the settings group selected to specific run data as
follows:
•
•
•
•
6.
Chapter 12: cIEF Data Analysis
Methods - All methods in the run file display in the list. Selecting a method applies the group
settings to all injections that used that method.
Sample names - All sample names in the run file display in the list, otherwise the default name
of Sample shows. Selecting a sample name applies the group settings to all injections that used
that sample name.
Wells or vials - All well or vial numbers used in the run display in the list. Selecting a well/vial
number applies the group settings to all injections that used that well/vial.
Custom settings - Lets you choose specific injections to apply the group settings to. When you
select this in the list, a pop-up box displays to let you enter a specific injection number or range
of injections:
If you need to change the analysis group used for a data set, click the cell in the Settings column and
click the down arrow. Select a group from the drop down list.
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Injection Reports
7.
Repeat the previous steps to apply other groups to specific run data.
8.
To remove a data set, click on its cell in the Apply To column, then click Remove.
9.
Click OK to save changes.
page 369
Injection Reports
You can export PDF files of the raw and analyzed data, IV plot, peaks table, sample and system info for individual or all injections in a run file. You can also export the run history with all analysis events.
1.
Click File > Open Run and select a run file.
2.
If you want reports for all injections, skip to the next step. If you only want reports for certain injections,
in the Experiment pane:
To select sequential injections: Select the first injection, then hold the Shift key and select the
last injection you want a report for. This selects all rows between the two injections.
• To select specific injections: Hold the Ctrl key and select just the injections you want reports
for.
Select File from the main menu in either screen and click Injection Report.
•
3.
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4.
Chapter 12: cIEF Data Analysis
In the Injection Reports window:
d. Choose either Selected injections or All injections.
e. Select the Analysis log checkbox if you want a run history report with all analysis events.
f. The report name defaults to the run file name. If you want to change it, type in the Report Name
box to make updates.
g. Click OK.
5.
The Injection Report PDF(s) are exported to the Runs folder in the Compass for iCE directory. They’ll be
in a folder with the report name used in the prior step. When the reports are done, the folder opens for
you automatically.
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Injection Reports
Example Analysis and Injection Report
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Chapter 12: cIEF Data Analysis
Injection Reports
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Chapter 12: cIEF Data Analysis
Importing and Exporting Analysis Settings
The analysis settings in a run file can be exported as a separate file. This allows the same analysis settings to
be imported into other batches or run files at a later time, rather than you having to re-enter them manually.
Importing Analysis Settings
NOTE: Importing an analysis settings file populates the settings in all analysis pages.
1.
Open the run file or batch you want to import analysis settings to.
2.
Select Edit in the main menu and click Default Analysis (Batch screen) or Analysis (Analysis screen).
3.
Click Import on any page.
4.
Select a settings file (*.settings) and click OK. The imported settings will display in all analysis pages.
Exporting Analysis Settings
NOTE: Exporting an analysis settings file exports the settings in all analysis pages.
1.
Open the run file or batch you want to export analysis settings from.
2.
Select Edit in the main menu and click Default Analysis (Batch screen) or Analysis (Analysis screen).
3.
Click Export on any page. The following window displays:
User Guide for Maurice, Maurice C. and Maurice S.
Importing and Exporting Analysis Settings
4.
The default directory is Compass for iCE/Runs. Change the directory if needed.
5.
Enter a file name and click Save. The settings will be saved as a *.settings file.
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Chapter 13:
Setting Your Preferences
Chapter Overview
•
Customize Your Preferences
•
Enabling Access Control
•
Setting Data Export Options
•
Selecting Custom Plot Colors for Graph Overlay
•
Grouping Options
•
Setting Up Maurice Systems to Send Tweets
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Chapter 13: Setting Your Preferences
Customize Your Preferences
You can set and save several custom preferences in Compass for iCE. To view and change these settings,
select Edit in the main menu and click Preferences.
To move between preferences pages, click on an option in the left sidebar. Here’s what you can customize:
•
Access Control - Lets you log on to Compass for iCE through an Authorization Server.
•
Analysis - Lets you customize data export options.
•
Graph - Lets you customize graph color displays.
•
Grouping - Groups samples with the same name together across runs, so you can get statistics for
the same sample in multiple runs.
•
Twitter - Lets you configure Compass for iCE to tweet Maurice, Maurice C. and Maurice S. run status.
In all preferences windows:
•
Click Apply to apply changes to any open run files in Compass for iCE.
•
Click Restore Defaults to restore the values on the page to default settings.
•
Click OK to save changes and exit.
•
Click Cancel to exit without saving changes.
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Enabling Access Control
page 379
Enabling Access Control
You can use the Access Control feature to help satisfy 21CFR Part 11 data security requirements when using
Maurice instruments. Please go to “Enabling Access Control” on page 391 to get more info.
Setting Data Export Options
Select Analysis in the sidebar.
•
Export Standards - This option exports data for the standards in each injection when run data is
exported. It’s selected by default. If it’s not selected, only sample injection data is exported.
•
Export using a comma as the column deliminator - This option exports run data with a comma
separator in .csv format. When it’s not selected, data is exported in .txt format with a tab separator
(this is the default setting).
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Chapter 13: Setting Your Preferences
Selecting Custom Plot Colors for Graph Overlay
Select Graph in the sidebar.
•
Apply colors to stacked plots - This option applies the color scheme shown to individual plots
when Stack the plots is selected in the Analysis screen’s Graph pane. When this option isn’t selected,
all plots use the same color (this is the default setting).
NOTE: If Apply colors to stacked plots isn’t selected, the colors shown are only applied to plots when
Overlay the plots is selected in the Graph pane.
User Guide for Maurice, Maurice C. and Maurice S.
Selecting Custom Plot Colors for Graph Overlay
Changing Plot Colors
1.
Click the button next to a Plot color number. You’ll get a color selection box:
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Chapter 13: Setting Your Preferences
2.
Select a color or define a custom color and click OK. The color button will update to the new color
selected.
3.
Repeat the steps above for any other plot colors.
4.
Check Apply Colors to Stacked Plots if you also want the new color settings to be used for the Stack
the plots option in the Graph pane.
5.
Click Apply to apply the new color settings to the plots currently displayed. This lets you see the
changes without having to close the Graph window.
6.
Click OK to save changes and exit.
7.
Select Overlay the plots in the Graph pane. The new color scheme will be used.
Grouping Options
Select Grouping in the sidebar.
Selecting the Group Across Runs box groups samples with the same name together even if they’re in different runs, so you can get statistics for the same samples across multiple runs. When the box isn’t selected,
only samples with the same name within the same run are grouped for statistics (this is the default setting).
NOTE: To activate grouping and get statistics for runs you have open in the Analysis Screen, select View in
the main menu and click Grouping.
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Setting Up Maurice Systems to Send Tweets
page 383
Setting Up Maurice Systems to Send Tweets
Select Twitter in the sidebar.
NOTES:
To set your Maurice system up to tweet, the computer you’re using needs to be connected to the internet
through a network connection or the local lab computer.
We recommend setting up separate Twitter accounts for each system. This lets multiple people in the lab
follow run progress.
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1.
Chapter 13: Setting Your Preferences
Click Set Account. A set account window will display in Compass for iCE and a browser window will
open:
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Setting Up Maurice Systems to Send Tweets
page 385
2.
Enter a user name or email and password, then click Authorize app. A new page will display in the
browser with a PIN number.
3.
Enter the PIN number in the Compass for iCE set account window and click OK:
4.
The user name will now appear in the Twitter User Name box. Select your Tweet When options and click
Apply.
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Chapter 13: Setting Your Preferences
5.
To confirm the Twitter account is receiving messages, click Tweet Message. Enter a test message and
click OK.
6.
If the test Tweet was successful, you’ll get this message:
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Setting Up Maurice Systems to Send Tweets
7.
page 387
Click OK to save changes and exit. Maurice, Maurice C. and Maurice S. will automatically tweet as the
selected options occur:
Changing the Twitter Account
To change the Twitter account your system uses:
1.
Select Edit > Preferences, then select Twitter in the left sidebar.
2.
Click Clear.
3.
Follow the same steps to set up the account as in “Setting Up Maurice Systems to Send Tweets” on
page 383.
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Chapter 13: Setting Your Preferences
page 389
Chapter 14:
Compass Access Control and
21 CFR Part 11 Compliance
Chapter Overview
•
Overview
•
Enabling Access Control
•
Logging In to Compass for iCE
•
Saving Changes
•
Signing Files
•
Instrument Command Log
•
Run File History
•
Troubleshooting Problems and Suggested Solutions
•
Authorization Server
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Chapter 14: Compass Access Control and 21 CFR Part 11 Compliance
Overview
The Compass Access Control feature can be used to help satisfy the 21CFR Part 11 data security requirements when using Maurice instruments. When Access Control is enabled and the Authorization Server has
been installed (see "Authorization Server" on page 399):
•
Users are required to log in to Compass for iCE when the software is launched
•
A history of all actions is maintained
•
Data files are signed and encrypted to prevent unauthorized changes (e.g., all files are controlled)
•
Each instrument maintains a history of user commands
•
Each batch and data file includes a history of signed changes to the file
Compass for iCE can be run with or without Access Control enabled. When Access Control is disabled, no
user log in is required and files are not encrypted or signed. The instrument history and file history are still
maintained but the entries are not signed.
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Enabling Access Control
page 391
Enabling Access Control
Access Control is enabled in Preferences. Select Edit in the main menu, click Preferences, then select
Access Control.
To enable Access Control:
1.
Check the Enable box.
2.
Enter the IP address of the Authorization server. Use format X.X.X.X or LocalHost if installing the server on
the local machine.
NOTE: Always use the default port setting of 8000, this should not be changed.
3.
Close Compass for iCE. The next time the software is launched, a user log in will be required.
NOTE: Access Control can only be disabled by logging into Compass for iCE and deselecting the Enable
box in the Access Control page of Preferences.
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Chapter 14: Compass Access Control and 21 CFR Part 11 Compliance
Logging In to Compass for iCE
With Access Control enabled, all users must log in to Compass for iCE whenever the software is launched.
Enter your user name and password previously setup by your Compass for iCE Administrator.
NOTE: Your account will be blocked after a certain number of login failures. If this happens, contact your
administrator to unblock the account.
A successful log in will display the Compass for iCE main window with the user information in the lower status bar. The full user name is displayed with the unique user ID in parenthesis:
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Logging In to Compass for iCE
page 393
Locking and Unlocking the Application
You can click the Lock button to lock Compass for iCE and prevent access by other users. To unlock the
application, users must re-enter their password.
If there is no activity in Compass for iCE for 20 minutes, the application automatically locks. Users must reenter their passwords to perform any controlled actions:
Resolving Log In Issues
Log in failures may occur when:
•
The server is temporarily unavailable
•
Compass for iCE is using the wrong IP address
When this happens, the following message displays:
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Chapter 14: Compass Access Control and 21 CFR Part 11 Compliance
Click Disable to restart Compass for iCE with Access Control disabled. Verify or correct the server IP address
then close and restart the software to log in with Access Control enabled.
Saving Changes
When Save is selected from the File menu, a dialog box will display to allow you to enter a comment before
saving the signed file:
The comment is added to the signature entry in the file History:
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Signing Files
page 395
Signing Files
Select e-Signature from the File menu to add an electronic signature to a file.
The signed entry will be added to the file History with the meaning of the signature entered in the comment, such as Approved or Verified.
Instrument Command Log
The Instrument Command Log can be viewed at any time by selecting the Instrument menu and clicking
Properties, and then clicking the Command Log button:
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Chapter 14: Compass Access Control and 21 CFR Part 11 Compliance
The Command Log lists all the commands sent to the instrument that were signed by the user who sent the
command. If you want to copy the Command Log at any time, right click in the table and select Copy, then
paste into another document.
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Instrument Command Log
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Chapter 14: Compass Access Control and 21 CFR Part 11 Compliance
Run File History
Select the Run Summary screen tab and then the History tab to see the file History. To copy the file History,
right click in the table and select Copy, then paste into another document.
Troubleshooting Problems and Suggested Solutions
If any of the following error messages are encountered, follow the recommended steps below to resolve the
issue.
•
Unknown user name or password.
•
•
Check if the Caps Lock is on, user name and password are case sensitive.
Ask a Compass for iCE administrator to confirm your user name. If your password is unknown
then the administrator can reset your password (see "Resetting User Passwords" on page 405 for
more information).
User Guide for Maurice, Maurice C. and Maurice S.
Authorization Server
•
page 399
Server not available.
•
•
From the Edit menu, click Preferences and then Access Control to confirm the server address is
set to the correct Authorization server address. Compass for iCE must be able to reach the server
on the network.
The server must have inbound access to port 8000 enabled.
•
Controlled file cannot be opened without log in. To open a controlled Run file, enable Access
Control by clicking Edit, then Preferences and Access Control. Select Enable, close Compass for
iCE, then re-launch the software with a valid log in.
•
Uncontrolled file cannot be opened when logged in. To open an uncontrolled Run file, disable
Access Control by clicking Edit, then Preferences and Access Control. Deselect Enable, close Compass for iCE then re-launch the software.
NOTE: Uncontrolled files can be opened when Compass Access Control is enabled (controlled mode).
•
Command disabled. Certain commands are only available when a user with the correct permissions
is logged in. To change user permissions, use a web browser to log in to the Authorization server web
interface at the address shown on the Access Control page in Preferences, such as: 10.1.3.231:8000.
•
Compass for iCE does not prompt for log in. Compass for iCE will only prompt for a log in on
launch when Access Control is enabled in Preferences. Enable Access Control by clicking Edit, then
Preferences and Access Control. Select Enable, close Compass for iCE, then re-launch the software.
You should now be prompted for a log in.
Authorization Server
The Authorization Server controls the log in access to Compass for iCE. In the simplest configuration, the
server is run on the same computer as Compass for iCE and only that copy of Compass for iCE is controlled.
A single server can also be used to control access to multiple copies of Compass for iCE running on different
computers, so long as they have network access to the server. Multiple copies of the server may be run on
the same network, and each server will have its own user database.
To enable Compass for iCE to use a particular Authorization Server, click Edit, then Preferences and Access
Control and enter the server IP address using format X.X.X.X.
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Chapter 14: Compass Access Control and 21 CFR Part 11 Compliance
NOTES:
Always use the default port setting of 8000, this should not be changed.
If the server is installed on the same computer as Compass for iCE (e.g., the local machine), enter LocalHost instead of the IP address. Contact your local IT Administrator to assist with installing the Authorization Server in your preferred format.
Server Administration
The Authorization Server is configured through a web interface at the IP address of the server on port 8000.
To access the Server home page, open any browser and type the IP address on port 8000 in a X.X.X.X:8000 or
http://X.X.X.X:8000 format. Use LocalHost instead of the IP address if the Server is installed on the local
machine.
The default server administrator is:
•
User: admin
•
Password: admin
After installing the Authorization Server, the administrator user name and password can be changed.
Adding Non-admin Users
Add a user to the server to allow that user to log in to Compass for iCE. To do this:
1.
Select Users from the Site Administration home page:
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Authorization Server
2.
From the Users page, select Add User:
3.
Fill in the fields to create a new user:
After adding a new user more information can be added:
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NOTE: Users are blocked after the number of login failures defined in the Password policy setting.
Permissions
All users can log in to Compass for iCE, but the commands available within Compass for iCE are controlled by
Permission settings. Commands a user does not have permission to use will be disabled. After user permissions have been changed on the server the user must close and re-open Compass for iCE to use the new
permissions.
Users can belong to groups that have multiple permissions such as Operator or Scientist:
User Guide for Maurice, Maurice C. and Maurice S.
Authorization Server
Use the Groups page to change the permissions in a group or create new groups:
To change permissions for a group click Change, then select a group:
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Move individual group permissions in or out of the Available Permissions and Chosen Permissions boxes by
selecting a permission in either box. Click the left or right arrow button to move the permission into the
other box.
Adding Admin Users
To create a user with administrator permissions:
1.
Follow the steps described in "Adding Non-admin Users" on page 400 to create the admin user.
2.
Under permissions, select Staff status and Superuser status:
3.
Assign the admin user to a group.
NOTE: Selecting Superuser status enables server permissions only. Admin users must be also be assigned
to a group to in order to have Compass for iCE permissions.
User Guide for Maurice, Maurice C. and Maurice S.
Authorization Server
page 405
Resetting User Passwords
NOTE: Users are blocked after the number of login failures defined in the Password policy setting.
To reset a user password:
1.
Select Users from the Site Administration home page, then select the user to change. The following
screen displays:
2.
Raw passwords are not stored, they must be changed manually. Click the text link to access the password change form:
3.
Enter the new password, then click Change password.
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Chapter 14: Compass Access Control and 21 CFR Part 11 Compliance
Audit Trail
Admin users with Staff Status can view, print and download the Audit Trail. Select View Audit Trail from the
Site Administration home page to access it.
Password Policy Settings
These settings let administrators set password policies. Select Password policy settings from the Site
Administration home page to make changes.
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Authorization Server
page 407
LDAP Settings
LDAP settings allow you to connect the Compass Authorization Server to your own network’s domain controller, so users can log on with their existing network password. With LDAP, passwords are not maintained
by the Compass Authorization Server, they are administered by the network admin.
First select LDAP settings from the Site Administration page and set your LDAP settings.
Next, add users as described in "Adding Non-admin Users" on page 400 and select the LDAP User checkbox.
Passwords aren’t required for LDAP users.
Encryption Details
Compass for iCE uses the SHA1 hash algorithm to generate a 160 bit hash code that is unique for all files. All
files saved by Compass for iCE are encrypted with a digital key. This key along with the hash codes guarantees the file history is correct and no other edits were made. All changes saved to a file have the electronic
signature of the user who saved the file. The e-Signature command allows a user to sign off on a state such
as approved or verified.
There is no individual ownership of files, all users who log into Compass for iCE can open any file.
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Chapter 14: Compass Access Control and 21 CFR Part 11 Compliance
page 409
Chapter 15:
Maintenance and
Troubleshooting
Chapter Overview
•
Cartridge Handling and Care
•
Maintenance
•
Spare Parts
•
Software Updates
•
Instrument Software (Embedded) Updates
•
Frequently Asked Questions: cIEF Applications
•
Frequently Asked Questions: cIEF Applications
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Cartridge Handling and Care
page 410
Cartridge Handling and Care
The cIEF and CE-SDS Cartridges were developed for use with Maurice systems. Each cartridge is individually
tested and shipped with a Certificate of Analysis, are also online at http://www.proteinsimple.com/certificates.html. The cartridges are shipped dry and should be stored free of liquid.
•
Cartridges need to be used, cleaned and stored properly to reach their maximum lifetime.
•
Store cartridges in their original packaging at room temperature when you receive them.
•
Hold cartridges using the blue or orange finger holds on either side of the cartridge.
•
Don’t touch the recessed optical windows of the cartridge.
Finger Holds
Optical Windows
•
Whenever you handle the cartridge or remove it from its packaging, make sure the cartridge inlet
doesn't come in contact with any surfaces.
•
Each cartridge is guaranteed for 100 injections. Maurice reads the cartridge’s RFID and keeps track of
how many injections are left for you automatically.
•
Always clean the cartridge before storing. See page 103 for the cIEF Cartridge cleaning steps and
page 137 for the CE-SDS Cartridge cleaning steps.
•
Always store the cartridge in its original packaging at room temperature when not in use.
cIEF Cartridge
•
The cartridge is designed for use with common cIEF reagents like methyl cellulose, ampholytes, urea,
anolyte and catholyte, but over exposure or high concentrations of certain components can harm it.
The cartridge also requires 0.35% methyl cellulose in the sample mixture.
•
Make sure to always add Catholyte solution to the OH- electrolyte tank (white port) and Anolyte solution to the H+ electrolyte tank (red port). If you add electrolytes to the wrong tank, it can damage to
the cartridge.
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Cartridge Handling and Care
page 411
•
Make sure to not get any liquid on the cartridge's optical window.
•
Maurice cleans the cIEF Cartridge automatically at the end of the run. If you’ll use the cartridge again
within 24 hours of your last run, you can leave the cartridge in Maurice. Otherwise you’ll need to clean
and store it. See page 103 for cleaning steps.
•
Always clean the electrolyte tanks before storing. See page 103 for the cIEF Cartridge cleaning steps.
Compatibility with Sample Components
•
Methyl Cellulose (MC): The sample mix must contain 0.35% methyl cellulose. The cartridge must be
flushed with 0.5% methyl cellulose between runs.
•
Solvents: The cartridge is not compatible with organic solvents. Do not rinse with solvents and minimize the amount of solvent in the sample mix.
•
Salt and surfactants: High current can harm the internal coating in the cartridge capillary. High concentrations of salt and surfactants in the sample mix can generate high currents above 40 microamps. This high current will compress the pH gradient and also damage the cartridge. Please take
care to minimize the concentration of salts in the final sample mix to below 15 mM. To keep current
at a minimum, we suggested using only non-ionic or zwitterionic surfactants. Don’t use aromatic surfactants as they can interfere with sample detection.
Cleaning the Outside of the Cartridge
If you see spikes in your data, the outside of the cartridge should be cleaned with canned air. You’ll need to
use residue- and moisture-free canned air to prevent fouling of the optical path through the separation capillary.
1.
Place the can's nozzle or tube opening 10-12 inches from the cartridge surface. Then depress the aerosol actuator down about halfway so you get a gentle flow of air.
2.
Sweep the air stream across the entire length of the optical window.
3.
Flip the cartridge over and repeat the prior steps.
4.
Flip the cartridge over again and gently clean the top surface one last time before reinstalling in Maurice.
CE-SDS Cartridge
•
If you see any separation matrix sticking to the cartridge inlet, soak the inlet in DI water for 5 minutes.
Then wipe it using a lint-free laboratory wipe that's been moistened with DI water. Other than this, no
external cleaning of the cartridge is required.
User Guide for Maurice, Maurice C. and Maurice S.
Maintenance
•
page 412
Check the saturation sensor on the back of the cartridge insert after every run. If it's red, you'll need to
use a new cartridge insert for your next batch. If the saturation sensor isn't red, you can keep using
the current cartridge insert.
Saturation
Sensor
OK to keep using insert.
Replace cartridge insert.
•
If you’ll use the cartridge again within 2 hours of your last run, you can leave the cartridge in Maurice.
Otherwise you’ll need to clean and store it.
•
Always run the cartridge cleanup before storing. See page 137 for the CE-SDS Cartridge cleanup
steps.
Compatibility with Sample Components
•
Salt: The salt concentration in your sample should be <50 mM. Higher concentrations will adversely
affect electrokinetic injections. Dilute your sample with CE-SDS Sample Buffer to reach the recommended salt concentration. If the protein concentration in your samples is low, we recommend
desalting the sample.
Maintenance
Daily
•
Empty out any condensation in the sample plate or sample tray inserts. Wipe out the sample block
too if needed.
•
Dispose of your samples and reagent vials after each run. Compass for iCE will let you know when a
cartridge is at the end of its useful life and should be discarded.
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Maintenance
page 413
Yearly
We recommend Maurice has annual preventive maintenance performed by an authorized ProteinSimple
engineer. Please contact Technical Support to schedule a visit.
Changing the Fuse
1.
Power down Maurice and unplug his power cord.
2.
Locate the fuse holder on his rear panel.
Power Cord
Fuse Holder
3.
Use a flat-head screwdriver to gently pry the fuse holder open and remove the fuse holder.
Spare Fuse
Box
Old Fuse
4.
Remove the old fuse.
User Guide for Maurice, Maurice C. and Maurice S.
Spare Parts
5.
page 414
There’s a spare fuse in the small box. Pull the box out, pull the new fuse out and use it to replace defective fuse.
Spare Fuse
6.
Reinsert the fuse holder.
7.
Plug Maurice’s power cord back in and turn his power on.
Spare Parts
Maurice, Maurice C. and Maurice S. don’t have any user replaceable parts except for the power fuse. Please
contact ProteinSimple Technical Support if they get sick and need repair.
!WARNING!
You can’t replace or service any parts on Maurice systems except for the power entry fuse.
Software Updates
To check for software updates, first make sure the computer you’re using has an active internet connection.
Then go to Compass for iCE software, select Help in the main menu and click Check for Updates. If you
don’t have internet access, call your FAS for assistance on getting the latest update.
User Guide for Maurice, Maurice C. and Maurice S.
Instrument Software (Embedded) Updates
page 415
Instrument Software (Embedded) Updates
To check for embedded updates, go to Compass for iCE software, select Instrument in the main menu, then
Update and select Network. If you’re not on the network, call your FAS for assistance on getting the latest
update.
Frequently Asked Questions: cIEF Applications
NOTE: Please refer to the Maurice cIEF Method Development or CE-SDS Application Guides for info on initial application conditions and method optimization.
I have a new protein sample to analyze. What starting conditions should I use?
Begin with the following initial sample conditions:
•
Carrier ampholytes: pH 3-10 Pharmalytes (4%)
•
Additive: 0.35% methyl cellulose
•
Sample analyte: 0.1 mg/mL concentration in final solution. The balance of the solution should be
HPLC-grade deionized water.
•
10 mM arginine
•
1X pI 4.05 and 9.99 markers
NOTES:
If you want to use pI markers below pI 4.05, we suggest adding 10 mM IDA to the sample solution
ProteinSimple provides a 1% methyl cellulose solution (P/N 101876).
Another way to start is to simply use the same sample conditions used if you were successful in running this
sample on slab gel IEF. Use the same carrier ampholytes and additives for analysis on Maurice systems.
What carrier ampholytes are commercially available, and which one is best for my sample?
At present, carrier ampholytes are commercially available from four different manufacturers under the following brand names:
•
Pharmalytes (GE)
•
Servalyts (Serva)
User Guide for Maurice, Maurice C. and Maurice S.
Frequently Asked Questions: cIEF Applications
page 416
Other carrier ampholytes exist, however, they are all repackaged and resold using one of the products listed
above.
Each brand may give slightly different separation resolution due to slight differences in ampholytic compositions. Identification of the optimal carrier ampholytes for a given protein sample is best determined experimentally.
Along with native fluorescence, Maurice systems use UV absorption detection at 280 nm. All carrier
ampholytes exhibit some degree of absorption at this wavelength, which causes some baseline noise. Pharmalytes have low and uniform UV absorption and produce no background signal in native fluorescence
along the entire pH range. Because of the low background noise of Pharmalytes, these ampholytes are recommended for initial sample conditions.
Does my sample matrix affect my results?
Yes. However, the sample is diluted 20X in carrier ampholytes, methyl cellulose and HPLC-grade deionized
water, which minimizes matrix effects. For example, if the concentration of your sample stock solution is 2
mg/mL, 10 mL of the sample can be directly diluted by adding 112 mL of HPLC-grade deionized water, 8 mL
of pH 3-10 Pharmalytes and 70 mL of 1% methyl cellulose. The final solution is 200 mL with a sample concentration of 0.1 mg/mL. In this example, the original sample matrix will not affect analysis.
If the original stock sample concentration is >2 mg/mL and contains high salt concentrations, then diluting
further and using native fluorescence to boost signal is recommended. If detection in both absorbance and
fluorescence is required, desalting may be necessary.
I cannot get reproducible peaks due to sample precipitation, what should I do?
1.
Dilute the sample.
2.
The native fluorescence detection mode provides higher sensitivity and can be used for low concentration samples.
Doing either or both of the above reduces the potential for aggregation or precipitation. If the issue is still
observed, several additives can be tested to increase protein solubility. The following additives have been
successfully tested with Maurice systems and should help stabilize proteins during analysis:
•
Up to 4M urea
•
Up to 20% formamide
•
Up to 25% sorbitol
•
Up to 25% sucrose
•
Up to 25% glycerol
•
Denaturing conditions, such as 8 M urea
User Guide for Maurice, Maurice C. and Maurice S.
Frequently Asked Questions: cIEF Applications
page 417
In rare cases, sample precipitation may be caused by the carrier ampholytes. To avoid this problem, try using
a different brand of carrier ampholytes. If additive conditions for stable sample runs have been established
for gel IEF, then these additive conditions can often be successfully used for cIEF analysis on Maurice systems.
NOTE: All additives may change the pI value of the protein slightly, especially if the method uses pI markers
in the acidic range of the pH gradient.
How do I prepare sample solutions in 8 M Urea?
For a 200 μL final sample solution:
•
Weigh 96 mg of urea powder in a 1.5 mL centrifuge tube.
•
Add 32 μL HPLC-grade deionized water, 70 μL of 1% methyl cellulose, 8 μL of carrier ampholytes and
10 μL of sample to the urea powder in the centrifuge tube.
This will make a final volume of 200 μL (96 mg urea powder and 120 μL liquid). If more than 10 μL or less
than 10 μL of sample is added, the volume of water should be adjusted to ensure a final volume of 120 μL.
NOTE: Urea must always be prepared fresh before use.
When running samples in 8 M urea, the focusing time should be increased 1-2 minutes compared to normal
conditions. This is due to the higher viscosity of the urea-containing solution.
How can I identify peaks in different runs and different samples?
A reliable way to identify peaks in electropherograms is to use internal pI Markers. First run the sample without internal pI Markers. The pI values of sample peaks can be estimated from their peak positions relative to
the full pI range of the carrier ampholytes.
In Compass for iCE graphs, the left side of the electropherogram is the anodic end of the capillary (acidic)
and the right side is the cathodic end (basic). For example, if pH 3-10 Pharmalytes are used as the carrier
ampholytes, the x-axis of the electropherogram represents pI 3 to pI 10 from left to right. The pI value of a
peak at the middle of the trace should be about 6.5.
Two pI Markers are mixed into the sample solution. Ideally, the peaks of the two markers should bracket the
sample peaks and the two marker peaks should be as close as possible in order to achieve good precision in
peak identification.
The electropherograms of the sample mixed with pI Markers are processed using Compass for iCE for pI
determination. The software uses the method settings to automatically identify the pI markers to convert
from pixel position in the Markers View to pI in the Samples View.
User Guide for Maurice, Maurice C. and Maurice S.
Frequently Asked Questions: cIEF Applications
page 418
In this way, the sample peaks are identified by their measured pI values. The precision of peak identification
by measuring the pI values using Maurice systems is less than +0.03 pH units.
Since the measured pI value of a protein is affected by many factors such as sample matrix and the type of
carrier ampholytes used, to correctly identify peaks in different samples or different runs, all runs should be
done under the exact same conditions.
What kind of pI markers can I use?
ProteinSimple recommends using low molecular weight amphoteric compounds with well defined isoelectric points and strong UV absorbance when using Maurice systems. Conversely, we do not recommend
using protein pI markers since they often produce multiple isoelectric points and, on occasion, may interact
with the sample analyte.
ProteinSimple offers a selection of absorbance- and fluorescence-compatible pI markers at pI 3.38, 4.05, 5.85,
6.14, 7.05, 8.40, 9.99, and 10.17.
The distance between the two pI Markers in my sample electropherograms is different from
run to run even though I use the same pI Markers and carrier ampholytes. What is the reason
for this?
Usually this is caused by different salt concentrations in the sample solutions. Salt can compress the pH gradient created by the carrier ampholytes. So, the higher the salt concentration, the shorter the distance
between the two pI Markers.
However, since the whole pH gradient is compressed by the salt, this will not affect peak identification
results as long as two pI Markers are used and their peaks bracket the sample peaks.
Can I use narrow pH range carrier ampholytes to improve the resolution for my sample?
Yes. The most efficient way to do this is to use a mixture of narrow pH range carrier ampholytes and wide pH
range carrier ampholytes. The proportion of carrier ampholytes can be from 1:1 (narrow range: wide range)
up to 5:1 depending on the resolution requirement. Focusing time should be increased with the increasing
proportion of the narrow pH range carrier ampholytes, from 6 to 12 minutes.
The measured pI value of my sample peak is slightly different when I use different pI Markers
or different carrier ampholytes with the same pI markers. What is the reason for this?
When using different pI Markers, the small difference in the measured pI value is due to the slight non-linearity of the pH gradient established by the carrier ampholytes along the separation capillary. Compass for iCE
pI calibration assumes that the pH gradient is perfectly linear between the two pI Markers. In reality, carrier
ampholytes are not perfectly linear throughout their pH gradient.
When different carrier ampholytes are used, their pH gradients may be slightly different causing a small difference in measured pI value. This effect is most obvious when using a carrier ampholyte mixture (i.e. narrow
and wide pH range carrier ampholytes). Under these conditions, the pH gradient will not be linear at the
edges of the overlapping pH regions of the different carrier ampholytes. Changing the ratio of the different
carrier ampholytes in the mixture will affect the measured pI values of a protein.
User Guide for Maurice, Maurice C. and Maurice S.
Troubleshooting
page 419
In conclusion, only measured pI values obtained using the same carrier ampholytes and the same pI markers
can be compared. Also, as long as the run conditions are the same, the measured pI values can be used to
identify protein peaks.
Troubleshooting
Compass for iCE lets you run a self test on Maurice, Maurice C. and Maurice S. systems. These diagnostic tests
check many internal components and can help you determine if you have an instrument issue or not. Go to
“Instrument Software (Embedded) Updates” on page 181 for details on how to get started.
For more Maurice and application troubleshooting information, please contact ProteinSimple Technical Support at (888) 607-9692 (option 3), support@proteinsimple.com or visit http://www.proteinsimple.com/technical_support.html. You can also contact your local Field Application Specialist for help.
cIEF Application Troubleshooting
Problem
Solution
Error message: Calibration standard not
detected
The Fluorescence Calibration Standard was not
stored at the proper temperature, the reagent vial
is in the wrong position, or the reagent vial doesn’t
contain the right volume of solution. The cartridge
may be clogged.
•
The Fluorescence Calibration Standard
should always be stored at 4 °C. If it’s been
stored at another temperature, replace the
bottle with a new one then prepare a fresh
reagent vial with the new solution.
•
Make sure reagent vials are placed in the
right positions in the sample and reagent
platform.
•
Confirm that there is 500 μL of Fluorescence Calibration Standard in the reagent
vial.
•
Run the cIEF Cartridge Purge then start the
batch again. If the error reoccurs, replace
the cartridge with a new one
User Guide for Maurice, Maurice C. and Maurice S.
Troubleshooting
page 420
Abnormal Focusing
Problem
Solution
cIEF Cartridge tank level low
If the anolyte or catholyte tank fluid level is not
high enough to make good contact with the electrodes, the current will drop to < 2 μA.
2 mL of electrolyte is needed in each tank. Aspirate
out all the electrolyte solution and add 2 mL of
anolyte and catholyte into their designated tanks.
Electrolyte contamination
Replace the anolyte and catholyte solutions in the
electrolyte tanks.
Current keeps increasing beyond 80 mA
Either the electrolytes are in the wrong tanks or
the cartridge is defective.
1.
Immediately stop the system and run the
Maurice cIEF Cartridge Purge in Compass for
iCE.
2.
When the purge is done, remove the cartridge, wash out the tanks and transfer new
electrolyte solutions into the proper tanks.
3.
Rerun the System Suitability test to confirm
the internal coating is intact.
4.
Replace the cartridge if the System Suitability
run fails to meet resolution specifications or
the current still remains high at >80 mA.
Artificial Peaks
Problem
Solution
Dust or particulates on the optical window
Remove the cartridge. Use compressed air or nitrogen to gently clean the optical window, then reinstall the cartridge.
NOTE: Don’t wash or submerge the cartridge’s optical window in water or solvent.
User Guide for Maurice, Maurice C. and Maurice S.
Troubleshooting
page 421
Problem
Solution
Particles or precipitate in sample
Use an aqueous additive to stabilize the sample
solution.
Air bubble in capillary
•
Always spin samples for 10 min at 1000 xg
before adding them to sample vials or wells
of a 96-well plate.
•
Dispense the solution at the bottom of the
vial/well to avoid trapping any air bubbles.
CE-SDS Application Troubleshooting
Error Message: Detected current below minimum threshold
Problem
Solution
Run stops before the first injection
Capillary is likely clogged.
Discard the cartridge and use a new one.
Spikes, Poor Resolution
Problem
Solution
Air bubble in capillary
Always spin samples for 10 min at 1000 xg and use
fresh reagents to minimize bubble occurrence.
Late Peak Arrival, Poor Resolution
Problem
Solution
Top Running Buffer vial leak
Use a new Top Running Buffer vial.
Insufficient conditioning
Use fresh Conditioning Buffers with each run.
Partial capillary clog
Run the CE-SDS Cartridge Purge.
User Guide for Maurice, Maurice C. and Maurice S.
Troubleshooting
page 422
Current Drifts to 0, No Signal, Saturation Sensor is Red
Problem
Solution
Non-viscous liquid in Separation Buffer vial
Make sure reagent vials are placed in the right
positions in the sample and reagent platform.
Top Running Buffer vial is overloaded
•
Top Running Buffer vial leak
Use a new cartridge insert and new Top Running
Buffer vial.
Use a new cartridge insert and new Top
Running Buffer vial.
Low Signal
Problem
Solution
Sample composition is affecting the electrokinetic injection
Make sure the salt and protein concentrations of
your sample are within the recommended ranges.
Rising Baseline
Problem
Solution
UV lamp is approaching the life time limit
Replace the lamp.
User Guide for Maurice, Maurice C. and Maurice S.
page 423
Chapter 16:
General Information
Chapter Overview
•
Compliance
•
Safety Guidelines
•
Consumables and Reagents
•
Customer Service and Technical Support
•
Legal Notices
User Guide for Maurice, Maurice C. and Maurice S.
Compliance
page 424
Compliance
Maurice complies with:
•
UL 61010-1:2001: Safety requirements for electrical equipment for measurement, control, and laboratory use - Part 1: General requirements (US)
•
EN 61010-1:2010: Safety requirements for electrical equipment for measurement, control, and laboratory use - Part 1: General requirements (EU)
•
CAN/CSA 22.2 No. 61010-1-04: Safety requirements for electrical equipment for measurement, control, and laboratory use - Part 1: General requirements (CA)
•
EN 61326-1:2013: Electrical equipment for measurement, control and laboratory use. EMC Requirements. General requirements (EU)
This device complies with Part 15 of the FCC Rules. Operation is subject to the following two conditions:
1.
This device may not cause harmful interference.
2.
This device must accept any interference received, including interference that may cause undesired
operation.
Note: This equipment has been tested and found to comply with the limits for a Class B digital device, pursuant to Part 15 of the FCC Rules. These limits are designed to provide reasonable protection against harmful
interference in a residential installation. This equipment generates, uses and can radiate radio frequency
energy and, if not installed and used in accordance with the instructions, may cause harmful interference to
radio communications. However, there is no guarantee that interference will not occur in a particular installation. If this equipment does cause harmful interference to radio or television reception, which can be
determined by turning the equipment off and on, the user is encouraged to try to correct the interference
by one or more of the following measures:
•
Reorient or relocate the receiving antenna.
•
Increase the separation between the equipment and receiver.
•
Connect the equipment into an outlet on a circuit different from that to which the receiver is connected.
•
Consult the dealer or an experienced radio/television technician for help.
User Guide for Maurice, Maurice C. and Maurice S.
Safety Guidelines
page 425
Modifications: Any modifications made to this device that are not approved by ProteinSimple, Inc. may
void the authority granted to the user by the FCC to operate this equipment.
FCC ID: 2AHGG-MAURICE
Safety Guidelines
!WARNING!
If Maurice is not used as specified by ProteinSimple, overall safety will be impaired.
!WARNING!
If Maurice is damaged and doesn’t function properly, stop him safely and contact ProteinSimple Technical Support right away.
!WARNING!
You can’t replace or service any parts on Maurice except for the power entry fuse.
!WARNING! SHARPS HAZARD
The capillary inlet of the cartridge may present a potential sharps hazard. Dispose of used cartridges
according to your organizations health and safety regulations.
CAUTION
Avoid using Maurice ways not specified by ProteinSimple. Although Maurice has been designed to
protect you, this protection may not be effective if he isn’t used properly.
Chemical Hazards
!WARNING! CHEMICAL HAZARD
Some chemicals used can be potentially hazardous, and can cause injury or illness.
•
Read and understand the Product Inserts and Safety Data Sheets (SDSs) provided by the chemical
manufacturer before you store, handle, or work with any chemicals or hazardous materials.
User Guide for Maurice, Maurice C. and Maurice S.
Safety Guidelines
page 426
•
Minimize contact with and inhalation of chemicals. Wear appropriate personal protective equipment
when handling chemicals (e.g., safety glasses, gloves, or clothing). For additional safety guidelines,
consult the SDS.
•
Do not leave chemical containers open.
•
Check regularly for chemical leaks or spills. If a leak or spill occurs, follow the manufacturer's cleanup
procedures as recommended on the SDS.
•
Comply with all local, state/provincial, or national laws and regulations related to chemical storage,
handling, and disposal.
Chemical Waste Hazards
!WARNING! BIOHAZARD
Cartridges, sample plates and vials should be handled by procedures recommended in
the CDC/NIH manual: Biosafety in Microbiological and Biomedical Laboratories (BMBL).
The manual is available from the U.S. Government Printing Office or online at http://
www.cdc.gov/biosafety/publications/bmbl5/.
Depending on the samples used, the cartridges, plates and vials may constitute a chemical or a biohazard. Dispose of the cartridges, plates and vials in accordance with good laboratory practices and local, state/provincial, or national environmental and health
regulations. Read and understand the Safety Data Sheets (SDSs) provided by the manufacturers of the chemicals in the waste content before you store, handle, or dispose of
chemical waste.
•
Read and understand the Safety Data Sheets (SDSs) provided by the manufacturers of the chemicals
in the waste container before you store, handle, or dispose of chemical waste.
•
Minimize contact with chemical waste. Wear appropriate personal protective equipment when handling chemicals (e.g., safety glasses, gloves, or clothing).
•
Use precaution when emptying waste.
•
Dispose of waste in accordance with good laboratory practices and local, state/provincial, or national
environmental and health regulations.
User Guide for Maurice, Maurice C. and Maurice S.
Safety Guidelines
page 427
Waste Production and Disposal
cIEF Application on Maurice and Maurice C.
Maurice produces approximately 2.0 mL of waste per 100 injections run on a single cIEF cartridge and will
contain the following:
•
Samples
•
Methyl cellulose (~0.5%)
•
Carrier ampholytes
•
Fluorescence calibration standard
•
pI markers
•
Sample additives
Additionally, the Anolyte and Catholyte used in the cIEF cartridge will also need to be discarded and
replaced after each batch and during cartridge cleanup prior to storage.
•
Catholyte: 100 mM sodium hydroxide in 0.1% methyl cellulose, 1.5 mL
•
Anolyte: 80 mM phosphoric acid in 0.1% methyl cellulose, 1.5 mL
CE-SDS Application on Maurice and Maurice S.
Maurice produces approximately 0.75 mL of waste per 48 injections that is contained within the Top Running Buffer vial. It contains the following:
•
Samples
•
Conditioning Solution 1 and 2
•
Separation Matrix
•
Running Buffer
•
Wash Solution
•
Additives such as β-mercaptoethanol or iodoacetamide.
Waste should be disposed of in accordance with good laboratory practices and local, state/provincial, or
national environmental and health regulations.
Safety Data Sheets
Some chemicals used with Maurice may be listed as hazardous. Warnings are displayed on the labels of all
chemicals when hazards exist.
User Guide for Maurice, Maurice C. and Maurice S.
Safety Guidelines
page 428
SDSs provide users with safety information needed to store, handle, transport and dispose of the chemicals
safely. We recommend updating laboratory SDS records periodically.
Safety Data Sheets for ProteinSimple reagents are available online at www.proteinsimple.com/literature or
by calling (888) 607-9692. Otherwise, call the chemical manufacturer directly or visit their web site.
Instrument Safety Labels
The following safety labels are located on Maurice. Each label will display a safety alert symbol indicating a
potential safety hazard.
Symbol
Description
Risk of Electric Shock.
Refer to Maurice User Guide before proceeding.
Danger of hazardous waste. Use caution in these areas. This warning only applies if using
hazardous material. Maurice reagents are not considered hazardous waste. If you are
using hazardous materials, please contact your field service representative to place
labels in the appropriate locations.
User Guide for Maurice, Maurice C. and Maurice S.
Consumables and Reagents
page 429
Consumables and Reagents
Maurice CE-SDS Consumables, Kits and Reagents
Item
P/N
Description
Maurice CE-SDS
Cartridges
PS-MC02-S
Cartridges for CE-SDS application, 2 cartridges/pk. For use with Maurice and Maurice S. systems only.
Maurice CE-SDS
Orange Pressure
Caps
046-020
Pressure screw tops with o-ring for glass reagent vials (P/N 046-017),
12/pk. Suitable for use with Maurice, Maurice S., Maurice C systems
only.
Maurice CE-SDS
Application Kit
PS-MAK01-S
The CE-SDS Application Kit contains all components required to run
CE-SDS application. The kit includes CE-SDS cartridges, Separation
Matrix, Running Buffer, Sample Buffer, Wash Solution, Conditioning
Solutions, Internal Standard, reagent vials, orange pressure caps and
96-well plates. 200 samples/kit. CE-SDS Molecular Weight Markers
can be ordered separately.
Maurice CE-SDS
IgG Standard
046-039
Lyophilized antibody standard for 8 runs.
Maurice CE-SDS
Molecular Weight
Markers
046-038
Lyophilized molecular weight markers (10, 20, 33, 55, 103, 178 and
240 kDa) for 8 runs.
Maurice CE-SDS
Separation Matrix
046-009
Separation Matrix for CE-SDS application, 15 mL. For use with CE-SDS
cartridge (PS-MSC02) on Maurice and Maurice S. systems only.
Maurice CE-SDS
Running Buffer Top
046-010
Pre-assembled vial insert containing Top Running Buffer for CE-SDS
application. For use with the cartridge insert (046-124) of the CE-SDS
cartridge (PS-MSC02) on Maurice and Maurice S. systems only. 10
vials.
Maurice CE-SDS
Running Buffer Bottom
046-011
Running Buffer for CE-SDS application, 15 mL. For use with CE-SDS
cartridge (PS-MSC02) on Maurice and Maurice S. systems only.
Maurice CE-SDS 1X
Sample Buffer
046-012
Buffer for samples preparation for CE-SDS application, 25 mL. For use
with CE-SDS cartridge (PS-MSC02) on Maurice and Maurice S. systems only.
Maurice CE-SDS
Wash Solution
046-013
Wash Solution for CE-SDS application, 20 mL. For use with CE-SDS
cartridge (PS-MSC02) on Maurice and Maurice S. systems only.
User Guide for Maurice, Maurice C. and Maurice S.
Consumables and Reagents
Item
page 430
P/N
Description
Maurice CE-SDS
Conditioning Solution 1
046-014
Conditioning Solution 1 for use with CE-SDS cartridge, 20 mL. For
use with CE-SDS cartridge (PS-MSC02) on Maurice and Maurice S.
systems only.
Maurice CE-SDS
Conditioning Solution 2
046-015
Conditioning Solution 2 for use with CE-SDS cartridge, 20 mL.
For use with CE-SDS cartridge (PS-MSC02) on Maurice and Maurice
S. systems only.
Maurice CE-SDS
Internal Standard
046-0144
Internal Standard for addition to each sample for CE-SDS application.
2 vials/pk. For use with CE-SDS cartridge (PS-MSC02) on Maurice and
Maurice S. systems only.
Maurice CE-SDS
Cartridge inserts
046-124
Cartridge Inserts for holding the Top Running Buffer vial assembly
(046-010) in the Maurice CE-SDS Cartridge (PS-MSC02). 2 inserts/pk.
For use with Maurice and Maurice S. systems only
Maurice CE-SDS
Cartridge Cleaning
Vial
046-125
Clear cleaning vial for use with the Maurice CE-SDS Cartridge insert
(046-124). 2 vials/pk.
User Guide for Maurice, Maurice C. and Maurice S.
Consumables and Reagents
page 431
Maurice cIEF Consumables, Kits and Reagents
Item
P/N
Description
PS-MC02-C
Cartridges for cIEF application, 2 cartridges/pk. For use with Maurice
and Maurice C. systems only.
Maurice cIEF Blue
Pressure Caps
046-332
Pressure screw tops with o-ring for glass reagent vials (P/N 046-017),
12/pk. Suitable for use with Maurice, Maurice S., Maurice C systems
only.
Maurice cIEF
Method Development Kit
PS-MDK01-C
The cIEF Method Development Kit provides all the reagents and
instructions to help you develop fast and robust cIEF methods on
Maurice and Maurice C. systems. The kit includes a Method Development Guide as well as a selection of reagents required for cIEF
method development on the system. This kit includes a Fluorescence Calibration Standard, System Suitability Kit, Anolyte, Catholyte,
Methyl Cellulose, five types of Ampholytes (Pharmalyte pH ranges 310, 2.5-5, 5-8 and 8 to 10.5 and Servalyte pH range 2-9), eight pI
Markers (3.38, 4.05, 5.85, 6.14, 7.05, 8.40, 9.99 and 10.17) and additives
(lyophilized urea and arginine). 30 samples/kit. The expiration date
for this kit is 12 months from date of manufacture. For use with the
cIEF cartridge (PS-MC02-C) on Maurice and Maurice C. systems only.
Maurice cIEF
Chemical Test Kit
046-036
The cIEF Chemical Test Kit is designed to confirm the overall performance of the Maurice and Maurice C. systems with the cIEF cartridge (PS-MC02-C) on 8 separate occasions. The kit contains
Anolyte, Catholyte, Methyl Cellulose, Fluorescence Calibration Standard and a System Suitability kit. Each time, the performance can be
checked up to 24 hours. The expiration date for this kit is 12 months
from date of manufacture. 8 runs/kit. For use with the cIEF cartridge
(PS-MC02-C) on Maurice and Maurice C. systems only.
Maurice cIEF
System Suitability
Kit
046-044
The cIEF System Suitability Kit is used to run a control test for cIEF
application on Maurice and Maurice C. systems on 8 separate occasions. Each time, the performance can be checked up to 24 hours.
The kit contains a vial of lyophilized Peptide Panel and a vial of System Suitability Test mix. 8 runs/kit. The expiration date for this kit is
12 months from date of manufacture. For use with the cIEF cartridge
(PS-MC02-C) on Maurice and Maurice C. systems only.
Maurice cIEF
Cartridges
User Guide for Maurice, Maurice C. and Maurice S.
Consumables and Reagents
Item
page 432
P/N
Description
Maurice cIEF
Fluorescence
Calibration
Standard
046-025
Fluorescence Calibration Standard for cIEF application, 5.5 mL. For
use with Maurice and Maurice C. systems only.
0.5% Methyl Cellulose Solution
102505
0.5% Methyl Cellulose Solution, 100 mL. Use this concentration for
the wash cycle between injections. The solution is filtered to ensure
consistent viscosity to coat the capillary lumen to minimize electroosmotic flow (EOF). Conveniently packaged in 2 x 100 mL bottles.
The expiration date for this kit is 12 months from date of manufacture. Suitable for use with Maurice, Maurice C., iCE3 and iCE280.
1% Methyl Cellulose Solution
101876
1% Methyl Cellulose Solution, 100 mL. This solution is used to prepare samples for cIEF applications. The expiration date for this kit is
12 months from date of manufacture. Suitable for use with Maurice,
Maurice C.,iCE3 and iCE280.
iCE Electrolyte Kit
102506
These 100 mL Anolyte and Catholyte solutions in 0.1% MC are used
to fill the electrolyte tanks on Maurice cIEF cartridge as well as FC
and HT cartridges. The labels and bottles are color coded to improve
safety. The kit contains 2 x 100 mL bottles. The expiration date for
this kit is 12 months from date of manufacture. Suitable for use with
Maurice, Maurice C., iCE3 and iCE280.
Maurice cIEF pI
Marker - 3.38
046-028
Maurice cIEF pI Marker - 3.38, 210 μL, lyophilized.
Maurice cIEF pI
Marker - 4.05
046-029
Maurice cIEF pI Marker - 4.05, 210 μL, lyophilized.
Maurice cIEF pI
Marker - 5.85
046-030
Maurice cIEF pI Marker - 5.85, 210 μL, lyophilized.
Maurice cIEF pI
Marker - 6.14
046-031
Maurice cIEF pI Marker - 6.14, 210 μL, lyophilized.
Maurice cIEF pI
Marker - 7.05
046-032
Maurice cIEF pI Marker - 7.05, 210 μL, lyophilized.
Maurice cIEF pI
Marker - 8.4
046-033
Maurice cIEF pI Marker - 8.4, 210 μL, lyophilized.
Maurice cIEF pI
Marker - 9.99
046-034
Maurice cIEF pI Marker - 9.99, 210 μL, lyophilized.
User Guide for Maurice, Maurice C. and Maurice S.
Customer Service and Technical Support
Item
page 433
P/N
Description
Maurice cIEF pI
Marker - 10.17
046-035
Maurice cIEF pI Marker - 10.17, 210 μL, lyophilized.
Maurice cIEF electrolyte tank caps
046-123
Electrolyte tank caps, 20 mm. Red is used for the Anolyte tank and
the grey cap is used for the Catholyte tank. 5 pairs/pk.
Electrolyte Pipette
101788
Pipettes with soft tips for adding Anolyte and Catholyte into the
electrolyte tanks in the cIEF cartridge. 10/pk.
Maurice Systems Consumables and Reagents
Item
P/N
Description
Maurice glass
reagent vials, 2 mL
046-017
Screw-top glass vials, 2 mL. 100/pk. Suitable for use with Maurice,
Maurice S. and Maurice C. systems only.
Maurice sample
vials with integrated inserts
046-083
Vials with integrated inserts for samples, accommodate 200 μL sample volume. 100/pk. Suitable for use with Maurice, Maurice S. and
Maurice C. systems only.
Maurice clear
screw caps
046-138
Clear screw caps with round opening, 100/pk. Suitable for use with
Maurice, Maurice S., Maurice C systems only.
96-well plates
046-021
96-well plate for high-throughput analysis, 10/pk. Suitable for use
with Maurice, Maurice S., Maurice C systems only.
Adhesive film with
pre-cut slits for 96well plates
046-046
Adhesive film for sealing 96-well plate (046-021), 10/pk.
Customer Service and Technical Support
Need pricing information or want to know who your sales rep is? Our Customer Service team can
help.
Email: orders@proteinsimple.com
Telephone: 1-408-510-5500, option 1
Toll-free (US and Canada): 1-888-607-9692, option 1
Fax: 1-408-520-4831
User Guide for Maurice, Maurice C. and Maurice S.
Customer Service and Technical Support
Have product-related questions? Ping our Tech Support group, they'll be happy to help!
Use our online technical support request
Email: support@proteinsimple.com
Telephone: 1-408-510-5500
Toll-free (US and Canada): 1-888-607-9692, option 3
Web
www.proteinsimple.com
Address
ProteinSimple
3001 Orchard Parkway
San Jose, CA 95134
USA
User Guide for Maurice, Maurice C. and Maurice S.
page 434
Legal Notices
page 435
Legal Notices
NOTE: Read the Legal Notices carefully before using Maurice.
Maurice Disclaimer of Warranty
EXCEPT AS EXPRESSLY PROVIDED IN ANY ProteinSimple SOFTWARE LICENSE AGREEMENT OR QUOTATION, THE PRODUCTS SOLD AND SERVICES PROVIDED BY ProteinSimple ARE PROVIDED ON AN “AS IS” AND “AS AVAILABLE” BASIS WITHOUT WARRANTY OF ANY KIND. ProteinSimple
AND ITS SUPPLIERS DO NOT WARRANT THE SECURITY, PRIVACY, OR ACCURACY OF ANY DATA PROVIDED VIA THE PRODUCTS OR SERVICES, AND
YOU AGREE THAT THE USE OF ANY SUCH DATA BY YOU IS AT YOUR SOLE RISK. TO THE MAXIMUM EXTENT ALLOWED UNDER APPLICABLE LAW,
ProteinSimple AND ITS SUPPLIERS DISCLAIM ANY AND ALL WARRANTIES, WHETHER EXPRESS, IMPLIED OR STATUTORY, INCLUDING, WITHOUT
LIMITATION, ANY WARRANTY OF MERCHANTABILITY, TITLE, NON-INFRINGEMENT, OR FITNESS FOR A PARTICULAR PURPOSE.
Compass Software and Authorization Server License Agreement
IMPORTANT - PLEASE READ CAREFULLY THE TERMS OF THIS COMPASS SOFTWARE AND AUTHORIZATION SERVER LICENSE AGREEMENT
(“AGREEMENT”). BY CLICKING ON THE “I AGREE” BUTTON, (1) YOU ACKNOWLEDGE THAT YOU HAVE READ, UNDERSTAND, AND AGREE TO BE
BOUND BY THIS AGREEMENT AND (2) YOU REPRESENT THAT YOU HAVE THE AUTHORITY TO ENTER INTO THIS AGREEMENT, PERSONALLY OR IF
YOU HAVE NAMED A COMPANY AS CUSTOMER, ON BEHALF OF THAT COMPANY (YOU OR ANY SUCH COMPANY, THE “CUSTOMER”), AND TO
BIND THE CUSTOMER TO THE TERMS OF THIS AGREEMENT. IF YOU DO NOT AGREE TO ALL TERMS AND CONDITIONS OF THIS AGREEMENT, OR
IF YOU DO NOT HAVE SUCH AUTHORITY, YOU SHOULD CLICK ON THE “CANCEL” BUTTON TO DISCONTINUE THE DOWNLOAD OF THE LICENSED
SOFTWARE.
1. Definitions
1.1 “Authorized Use Parameters” means the following usage restrictions, which restrict the operation of the Licensed Software to a
particular set of conditions: Customer shall (a) limit simultaneous use of the Licensed Software to a maximum of ten (10) Authorized
Users; and (b) use the Licensed Software only in connection with the accompanying System purchased by Customer pursuant to the
System Quotation and located at the Site.
1.2 “Authorized User” means one (1) User who initiates the execution of the Licensed Software and/or interacts with or directs the
Licensed Software in the performance of its functions. Multiple Authorized Users may work simultaneously with one installation of the
Licensed Software, as on a server, or they may each have their own installation on single-user machines, or a mix of these, provided
that in all cases the total number of simultaneous Users does not exceed the applicable Authorized Use Parameters.
1.3 “Company” means ProteinSimple.
1.4 “Documentation” means Company's then-current manuals, guides, and on-line help pages, if any, applicable to the Licensed
Software and made generally available by Company to its customers.
1.5 “Enterprise” means those organizations that have Internet addresses located at top level and second-level domain names set forth in
the System Quotation.
1.6 “Error” means a reproducible error in the Licensed Software that prevents such Licensed Software from operating substantially in
accordance with its Documentation.
1.7 “Executable Code” means the fully compiled binary version of Licensed Software that can be executed by a computer and used by
an end user without further compilation.
1.8 “Intellectual Property Rights” means all copyrights, trade secrets, patents, patent applications, moral rights, contract rights, and
other proprietary rights, but specifically excluding any trademarks or service marks.
1.9 “Licensed Software” means the Compass software program in Executable Code form, and any Updates that Company makes
available to Customer in accordance with this Agreement.
User Guide for Maurice, Maurice C. and Maurice S.
Legal Notices
page 436
1.10 “Site” means the facility or campus set forth in the System Quotation.
1.11 “System” means the proprietary NP1000, NP100, Simon, Sally, Peggy, Wes, Sally Sue, Peggy Sue and Maurice protein analysis system or
any future model or successor thereto that is provided to Customer by Company pursuant to a separate agreement between the
parties (the “System Quotation”).
1.12 “Update” means those releases of the Licensed Software that Company provides to customers to correct Errors, fix bugs, or create
minor improvements, incremental features, or enhancements of existing features which Company designates by a change in the
number to the right of the first or second decimal point. Updates do not include those releases of the Licensed Software that provide
substantial new features or additional functionality which Company designates by a change in the number to the left of the first
decimal point.
1.13 “User” means any individual that has an e-mail address within the Enterprise.
2. License and Restrictions
2.1 License Grant. Subject to the terms and conditions of this Agreement and the payment of the required fees set forth in the System
Quotation, Company grants to Customer a nontransferable, nonexclusive, royalty-free, revocable, worldwide license (without the right
to sublicense) to (a) install the Licensed Software on any computer located at any Site; (b) use, execute, and display the Licensed
Software, in Executable Code form only; and (c) copy the Licensed Software and Documentation, solely as necessary to support
Authorized Users; in each of the foregoing, solely in accordance with the Documentation and the Authorized Use Parameters.
Customer agrees that it will comply with the Authorized Use Parameters.
2.2 License Restrictions. Customer acknowledges that the Licensed Software and its structure and organization constitute valuable
trade secrets of Company. Accordingly, the license granted in this Agreement is subject to the following restrictions: Customer and its
Authorized Users (a) may not reverse engineer, disassemble, decompile, or otherwise attempt to derive the source code of Licensed
Software; (b) may not modify, adapt, alter, translate, or create derivative works from the Licensed Software; (c) may not merge the
Licensed Software with other software; (d) may not use the Licensed Software in any service bureau or time-sharing arrangement,
license, sell, rent, lease, transfer, assign, distribute, host, outsource, disclose, or otherwise commercially exploit or make the Licensed
Software or Documentation available to any third party; (e) shall only make that number of exact copies of the Licensed Software and
Documentation as delivered by Company that are necessary to support Customer's use of the Licensed Software in accordance with
this Agreement; (f ) shall include any titles, trademarks, and copyright and restricted rights notices that are included on or in the
Licensed Software as delivered by Company on and in any copies of the Licensed Software that it makes; and (g) shall ensure that
Customer's use of the Licensed Software does not exceed the scope of the license that Customer has purchased pursuant to this
Agreement.
2.3 Open Source Software. Certain items of independent, third-party code may be included in the Licensed Software that are subject to
open source licenses (“Open Source Software”). Such Open Source Software is licensed under the terms of the license that
accompanies such Open Source Software. Nothing in this Agreement limits Customer's rights under, or grants Customer rights that
supersede, the terms and conditions of any applicable end user license for such Open Source Software. In particular, nothing in this
Agreement restricts Customer's right to copy, modify, and distribute such Open Source Software that is subject to the terms of such
open source licenses.
2.4 Ownership. Company reserves all rights not expressly granted to Customer in this Agreement. Without limiting the generality of the
foregoing, Customer acknowledges and agrees that, except as expressly set forth in this Agreement, Company and its suppliers retain
all Intellectual Property Rights, title and interest in and to the Licensed Software and Documentation.
3. Support and Maintenance Services
3.1 Services. Subject to Customer's payment of the Services fees, as set forth in the System Quotation, and to the terms and conditions
herein, Company will use commercially reasonable efforts to provide to Customer the following support and maintenance services
(the “Services”) for the Licensed Software: (a) Company will answer technical questions concerning functions and features of the
Licensed Software; (b) Company will provide Error verification, analysis and corrective efforts for the Licensed Software; and (c)
Company will provide, without charge, Updates of the software released during the term of this Agreement. Customer will be
responsible for providing, in a manner consistent with good industry practice, all Services to Users. Customer acknowledges that
Company may not be able to correct all reported Errors. Any Update of the Licensed Software will be deemed part of the Licensed
Software and Customer will use such Updates in accordance with the requirements and obligations in this Agreement.
3.2 Service Conditions. Company's obligation to provide the Services is conditioned on Customer: (a) notifying Company of any Error
within a reasonable period of time; (b) providing Company all information relating to the Error; (c) providing access to the Licensed
Software and Customer's facility where the Licensed Software is located and informing Company of any potential hazards which may
User Guide for Maurice, Maurice C. and Maurice S.
Legal Notices
page 437
be encountered while servicing the Licensed Software. Customer may contact Company via telephone at 1-888-607-9692 or e-mail at
support@proteinsimple.com during the hours of 8 a.m. (Pacific Time) and 5 p.m. (Pacific Time) Monday through Friday, excluding
holidays, to report any Error. A list of standard holidays will be provided to Customer upon request. Company shall have the right to
determine in its sole discretion what corrective action Company will perform to support the Licensed Software. Company may
subcontract the Services to a third party contractor provided that Company will be responsible for the third party contractor's
compliance with this Agreement.
3.3 Service Exclusions. Company will not be obligated to provide the Services if (a) Company determines that an Error is caused by
malfunction of any hardware (other than malfunction of the System) or third party software used with the Licensed Software; or (b)
Customer has failed to incorporate the latest Update previously released to Customer.
4. Warranty
4.1 Licensed Software Warranty. Company warrants that the Licensed Software, as properly installed, and under normal use, will
perform substantially in accordance with its Documentation during the Warranty Period. The “Warranty Period” for the Licensed
Software begins on date Customer downloads the Licensed Software and ends twelve (12) months thereafter.
4.2 Remedy. If Customer notifies Company in writing during the Warranty Period of an Error, Company will, at its expense and as its sole
obligation for any breach of the foregoing warranty, use commercially reasonable efforts to correct the Error or replace the Licensed
Software. Any Error correction or replacement of the Licensed Software will not extend the original Warranty Period. The warranty and
the remedies provided above will not apply to the Licensed Software if (a) Company determines that an Error is caused by accident,
abuse, misuse, negligence, fire, earthquake, flood, other force majeure event, failure of electrical power, the use of unauthorized
products, or unauthorized repairs or modifications; (b) Company determines that an Error is caused during or as a result of delivery; (c)
a problem arises from or is based on Company's compliance with Customer's specifications; or (d) Company determines that an Error
is caused by malfunction of any hardware (other than malfunction of the System) or third party software used with the Licensed
Software.
4.3 Disclaimer. THE WARRANTIES ABOVE ARE EXCLUSIVE AND IN LIEU OF ALL OTHER WARRANTIES, WHETHER EXPRESS, IMPLIED OR
STATUTORY, INCLUDING WITHOUT LIMITATION THE IMPLIED WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR
PURPOSE, TITLE, AND NONINFRINGEMENT.
5. Limitation of Liability. NEITHER COMPANY NOR ITS SUPPLIERS SHALL BE RESPONSIBLE OR LIABLE WITH RESPECT TO ANY SUBJECT MATTER
OF THIS AGREEMENT OR TERMS OR CONDITIONS RELATED THERETO UNDER ANY CONTRACT, NEGLIGENCE, STRICT LIABILITY OR OTHER
THEORY (A) FOR LOSS OR INACCURACY OF DATA, LOSS OF PROFITS OR COST OF PROCUREMENT OF SUBSTITUTE GOODS, SERVICES OR
TECHNOLOGY, OR (B) FOR ANY INDIRECT, INCIDENTAL OR CONSEQUENTIAL DAMAGES INCLUDING, BUT NOT LIMITED TO LOSS OF
REVENUES AND LOSS OF PROFITS. COMPANY'S AGGREGATE CUMULATIVE LIABILITY HEREUNDER SHALL NOT EXCEED THE GREATER OF FIVE
HUNDRED DOLLARS ($500.00).
6. Term and Termination
6.1 Term of Agreement. The Agreement is effective on the date Customer downloads the Licensed Software and shall remain in effect
until terminated by either party as provided in this section.
6.2 Termination For Material Breach. Either party may terminate this Agreement upon written notice if the other party materially
breaches this Agreement and fails to cure such breach within thirty (30) calendar days following receipt of written notice from the
other party specifying the breach in detail. Notwithstanding the foregoing, Company may immediately terminate this Agreement and
all licenses granted hereunder if Customer breaches Section 2 (License and Restrictions) hereof or upon termination of the System
Quotation. The foregoing rights of termination are in addition to any other rights and remedies provided in this Agreement or by law.
6.3 Effect of Termination. Upon termination of this Agreement (or termination or expiration of any license granted hereunder), all rights
of Customer to use the Licensed Software and Documentation will cease and (a) all license rights granted under this Agreement will
immediately terminate and Customer shall promptly stop all use of the Licensed Software and Documentation; (b) all Services will
terminate immediately; (c) Customer shall promptly erase all copies of the Licensed Software from Customer's computers, and destroy
all copies of the Licensed Software and Documentation on tangible media in Customer's possession or control or return such copies
to Company; and (d) upon request by Company, Customer shall certify in writing to Company that it has returned or destroyed such
Licensed Software and Documentation. The parties' rights and obligations under Sections 1 (Definitions), 2.4 (Ownership), 4.3
(Disclaimer), 5 (Limitation of Liability), 6 (Term and Termination), and 7 (General) shall survive termination of this Agreement.
User Guide for Maurice, Maurice C. and Maurice S.
Legal Notices
page 438
7. General
7.1 Assignment. This Agreement and Customer's rights hereunder may not be assigned to any third party by Customer except with the
prior written approval of Company. Any attempted assignment of this Agreement or any rights or obligations hereunder will be null
and void.
7.2 Governing Law. This Agreement is made in, governed by, and shall be construed in accordance with the laws of the State of
California, without regard to any conflicts of law principles that would result in application of laws of any other jurisdiction. The United
Nations Convention on Contracts for the International Sale of Goods does not apply to this contract. Any legal action or other legal
proceeding relating to this contract or the enforcement of any provision of this contract must be brought in any state or federal court
located in Santa Clara County, California. Customer and Company expressly and irrevocably consents and submits to the jurisdiction of
such courts.
7.3 Injunctive Relief. Customer acknowledges that the Licensed Software contains valuable trade secrets and proprietary information of
Company, that any actual or threatened breach of this Agreement will cause harm to Company for which monetary damages would
be an inadequate remedy, and that injunctive relief is an appropriate remedy for such breach.
7.4 Modifications. Company reserves the right to change the terms and conditions of this Agreement or its policies relating to the
Licensed Software at any time. Company will notify Customer of any material changes to this Agreement by sending Customer an email to the last e-mail address Customer provided to Company or by prominently posting notice of the changes on Company's
website. Any material changes to this Agreement will be effective upon the earlier of thirty (30) calendar days following Company's
dispatch of an e-mail notice to Customer or thirty (30) calendar days following Company's posting of notice of the changes on
Company's website. These changes will be effective immediately for new users of our Licensed Software. Please note that at all times
Customer is responsible for providing Company with its most current e-mail address. In the event that the last e-mail address that
Customer has provided Company is not valid, or for any reason Company is not capable of delivering to Customer the notice
described above, Company's dispatch of the e-mail containing such notice will nonetheless constitute effective notice of the changes
described in the notice. If Customer does not agree with the changes to this Agreement, Customer must notify Company prior to the
effective date of the changes that Customer wishes to terminate its license to the Licensed Software. Continued use of the Licensed
Software, following notice of such changes, shall indicate Customer's acknowledgement of such changes and agreement to be bound
by the terms and conditions of such changes.
7.5 Severability. In the event any provision of this Agreement is held to be invalid or unenforceable, the remaining provisions of this
Agreement will remain in full force.
7.6 Waiver. The waiver by either party of any default or breach of this Agreement shall not constitute a waiver of any other or subsequent
default or breach.
7.7 Export. Customer agrees not to export, reexport, or transfer, directly or indirectly, any U.S. technical data acquired from Company, or
any products utilizing such data, in violation of the United States export laws or regulations.
7.8 Force Majeure. Company shall not be liable, directly or indirectly, for any delay or failure in performance of any obligation under this
Agreement, including any delivery obligation, where such delay or failure arises or results from a cause beyond Company's reasonable
control, or beyond the reasonable control of Company's suppliers or contractors, including, but not limited to strike, boycott or other
labor disputes, embargo, governmental regulation, inability or delay in obtaining materials, acts of God, war, earthquake, fire, or flood.
In the event of such force majeure, the time for delivery or other performance will be extended for a period equal to the duration of
the delay caused thereby, provided that Company notifies Customer of the nature and duration of such force majeure event.
7.9 Entire Agreement; Notice. This Agreement constitutes the complete agreement between the parties and supersedes all prior or
contemporaneous agreements or representations, written or oral, concerning the subject matter of this Agreement. Except as
otherwise expressly provided in this Agreement, any modifications of this Agreement must be in writing and agreed to by both
parties. Company may provide any notice to Customer by e-mail. Customer may provide notice to Company by sending an e-mail to
info@proteinsimple.com or a letter by United States mail to ProteinSimple, 3040 Oakmead Village Drive, Santa Clara, CA 95051, or to
such other address as Company may specify in writing by posting the new address on the Company website.
7.10 Relationship of the Parties. The parties are acting hereunder as independent contractors and not as partners, agents, fiduciaries, or
joint venturers. Neither party has the power or authority represent, act for, bind, or otherwise create or assume any obligation on
behalf of the other party.
User Guide for Maurice, Maurice C. and Maurice S.

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