BiOptic Qsep Series Operation Manual
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BiOptic Qsep Series Operation Manual

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Qsep
Series Operation Manual
--- Software
Revolution
BiOptic Inc.,
4F., No.108-3, Minquan Rd., Xindian Dist., New Taipei City 23141, Taiwan (R.O.C.)
www.bioptic.com.tw

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  • Page 1 Qsep Series Operation Manual --- Software Revolution BiOptic Inc., 4F., No.108-3, Minquan Rd., Xindian Dist., New Taipei City 23141, Taiwan (R.O.C.) www.bioptic.com.tw...

  • Page 2: Welcome

    Copyright and Trademarks Copyright ©BiOptic Inc. All rights reserved. Reproduction, adaptation, or translation of this manual is prohibited without prior written permission of BiOptic Inc., except as allowed under the copyright laws. Qsep Q-Analyzer ™...

  • Page 3: Table Of Contents

    Welcome ........................... 2 Copyright and Trademarks ....................2 Symbols of Qsep Series ....................2 Applications ........................7 Packing List ........................7 Cautions ..........................8 1. System Overview ......................10 1.1 Pre-program Method and Cartridge ............... 11 1.1.1 Pre-program Method ..................11 1.2 System Installation ....................
  • Page 4 4.3.1 File ......................... 67 4.3.2 Edit ........................ 70 4.3.3 Tool ........................ 74 4.3.4 View ....................... 77 4.3.5 Window ......................78 4.3.6 Setting ......................78 4.3.7 Language ....................... 79 4.3.8 Help ....................... 80 4.4 Control Panel ......................82 4.4.1 Main ....................... 82 4.4.2 Method ......................
  • Page 5 Q5：If the buffer tray can’t move smoothly, how should we do? ......115 Q6：The Qair works frequently, over 3 times/min ..........117 Q7：Jet error window pop-out.................. 117 3. Cartridge issues ......................118 3.1 Before use ........................ 118 Q1：HV check failed or Calibration failed............... 118 Q2：What’s wrong with the pop-out error window? ..........
  • Page 6 Q2：What happens if I don't change the filter for a long time?? ......136 Q3：How to clean the instrument regularly? ............136 8. Others ........................137 Q1：Should we turn off the instrument and pump every day? ........ 137 Q2：How should we do before discard the cartridge?..........137 Report to BiOptic ..................... 138...

  • Page 7: Applications

    BEFORE ATTEMPTING TO OPERATE THE INSTRUMENT, READ ALL PRODUCT MANUALS AND FOLLOW THE INSTRUCTIONS. BiOptic Inc. assumes no liability whatsoever for any personal injury, property damage, or other loss resulting from not complying or familiar with the manuals, or improper operation of the devices.

  • Page 8: Cautions

    Qsep Keep ™ Series away from other electronic device and voltage sources. Only the components and consumables provided by BiOptic Inc. are suggested to use. DO NOT perform the following actions: •...
  • Page 9 ™ Series are high-voltage Multiple-channel electrophoresis system. Please follow the operation manual and laboratory safety guidelines for system operation. Do not remove covers. For operation and safety questions, please contact BiOptic Inc. at the official website or with your local BiOptic representatives.

  • Page 10: System Overview

    1. System Overview Qsep ™ Series are a fully automated CE system developed by BiOptic Inc., which uses pen-shaped disposable gel-cartridges to improve efficiency. Time-consuming manual procedures such as gel preparation, sample loading, and capillary changing are no longer required. Further, the information will be obtained easily with the fully-...

  • Page 11: Pre-Program Method And Cartridge

    Qsep ™ series are designed to work with the special-designed cartridges provided by BiOptic Inc.. The modularization design of cartridges makes the time-consuming gel preparation no longer be required. For the cartridges, we provide a various specific testing protocol, so-called “Method” which integrates the sequential steps to accomplish the test.

  • Page 12: System Installation

    1.2 System Installation 1.2.1 Software Requirements Minimum Recommended Microsoft® Windows 7 32-bit or 64-bit Microsoft® Windows 8 32-bit or 64-bit Microsoft® Windows 8.1 32-bit or 64-bit Microsoft® Windows 10 32-bit or 64-bit HDD Space Required 500 MB 1 GB...

  • Page 13: Q-Analyzer Installation Instruction

    2. Q-Analyzer Installation Instruction Qsep A suitable operating environment is essential to ensuring the best performance of ™ Series. 2.1 Software Installation Q-Analyzer ™, including Q-Analyzer and Q-Analyzer for Qsep400, are the software that Qsep specially designed to operate ™ series. The software key will be found in the Qsep Qsep package.
  • Page 14 Step 2. Specify the default data archive folder Step 3. Select the program destination...
  • Page 15 Step 4. Create a desktop icon and select the driver you wish to install Step 5. Verify the settings of the installation and click Install to start the installation...
  • Page 16 Q-Analyzer Step 6. ™ installation is in progress Q-Analyzer Step 7. The installation is completed and ™ is ready to be launched Q-Analyzer™ After launching , the Main Window appears on the screen. The instrument page is used to communicate with the device (Figure 2-1). For the different instruments, the picture of instruments will show the corresponding pictures when Qsep connecting...
  • Page 17 Figure 2-1 Software overview...

  • Page 18: Software Mode

    2.2 Software Mode Q-Analyzer Q-Editor Q-Viewer are integrated into the installed software. Q-Analyzer™ Setup has combined with these three programs, so there is no need to install them separately. Please double-click the icon and follow the on-screen instruction to install it. Q-Analyzer™...

  • Page 20: Usb Software Key

    2.2.1 USB Software Key ⚫ Activation Software Key Q-Analyzer A software key is required, if the user operates the software in mode Qsep without ™ series. The software key must be activated first before its initial usage. Insert the software key into an available USB port on the computer before Q-Analyzer™...
  • Page 21 Q-Analyzer™ in Menu→Setting after the starts. Figure 2-4 Software Key activation ⚫ Forget the password of the Software Key If the user forgets the password, do the following steps to reset the password. Step 1. Find Toolbox-License in the Microsoft Windows All Apps (All Programs) →...
  • Page 22 Figure 2-5 Unblocking the Software Key...

  • Page 23: Q-Editor License

    2.2.2 License Q-Editor Q-Editor The software mode helps the user to do the post data analysis offline. Q-Editor requires a license registered in the computer. One software key provides five Editor licenses for different offline computers. To import the license, do the following: Q-Analyzer™...
  • Page 24 Q-Editor 3. Get license file A. Paste the activation code which copied from Input your License Toolbox (A). B. Enter your computer name in the Remark field (B). C. Click Get New License (C), then Get New License will be enabled. The new License will be generated in the table below.
  • Page 25 *Note: If this computer has been registered under this software key, you can retrieve the license by clicking Show Registered License (B) to download your license file again. 4. Return to the Input your license window and click Import License to import the file Q-Editor you just downloaded.

  • Page 26: Start To Use Qsep™ Series

    Method and use other additional functions. Basic Software Key will be included in the instrument package. If you need more information about Advanced Software Key, Qsep please contact your ™ series distributor or visit BiOptic’s official website (https://www.bioptic.com.tw) for further assistance.

  • Page 27: Operation Of Qsep™ Series

    Qsep ™ Series 3.1 Operation of Q-Analyzer After launching ™, the Main Window appears on the screen. In this window, you can access the Instrument function which is used to communicate with the device (Figure 3-2). This section will only introduce the Main tab features and Qsep how to operate ™...

  • Page 28: Connection Assistance

    3.1.1 Connection Assistance Qsep Please ensure ™ series is connected to your computer using the USB cable (for Qsep Qsep Qsep Qsep ) or the Ethernet cable (only for ). Turn ON the power of ™ Qsep series instrument, and then establish the connection of ™...
  • Page 29 Click ahange Buffer to move the buffer tray holder to the door (Figure 3-3 C). Place the solution accordingly in the buffer tray as shown in Figure 3-5. Place the buffer tray properly in the tray holder. Place the suitable alignment marker at MA1~MD1, if needed.
  • Page 30 Then, click ahange Sample (Figure 3-3 B) to move the tray holder to the door and place the samples. After these steps, close the sample door. Open the cartridge door on the top of the instrument. Make sure the guiding groove of the cartridge is facing front (Figure 3-6).
  • Page 31 Figure 3-7 Push the cartridge to the bottom Then, click the Latch button on the Control Panel. The information of the cartridge will be displayed on the aartridge Information section on the left side (Cartridge Number, Expiration Date, Runs Left…) and the cartridge picture will turn into color form after latching (Figure 3-8).

  • Page 32: Sequence And Method Setting

    3.1.2 Sequence and Method Setting After latching and verifying the cartridge, you can follow the instructions and enter the blank fields at Sequence region (Figure 3-9). Six setting columns provide the operational flexibility for the experiment. Click the Add button if you need to create a row for the new sequence.
  • Page 33 Method: Choose the method for the selected sample. A method selector window will pop-up and provide the suggested pre-programmed methods based on the cartridge types and the sample conditions. User can specify the items according to their conditions. ✓ Select DNA, RNA or Protein application respectively to the sample. ✓...
  • Page 34 Select the recommended method and start the analysis The concentration will display at the result file (the value indicates the sample concentration before mixing with quantitative marker) ✓ Different Alignment Marker must be placed in the right place When taking 20bp&1000bp Alignment Marker (C109100) as the alignment marker, please place at MA1 and select 20-1K (MA-1).
  • Page 35 The pre-programmed method will be named with such rules below: For example, M-4-10-06-300 means the voltage of 4 KV for the 10 seconds sample injection and the voltage of 6 KV for the 300 seconds sample separation. The higher voltage and longer sample injection time, the more sample is injected to enhance the signal.
  • Page 36 Sample Duration: The duration of the sample injection time The selected method will display the Sample Duration on the Sequence table. The Sample Duration affects the quantity of the injected sample. Modify the duration according to the sample the concentration and the amplitude at your preference.
  • Page 37 Result Name: The result name to be saved. The result file will be saved with information of sequence, position, and execution such as <ResultName>_<pull-down options>_S1A2_R3.bopx; Here, S1 means first row in sequence and A2 means sample position and R3 mean third execution.
  • Page 38 The result calculation is based on the built-in reference marker. User can also assign your own reference marker instead of using built-in reference marker when: (1) The signal pattern is different between the built-in reference marker and the new one, and the software can not recognize the new pattern correctly. (2) The size of upper marker is not the same as using.
  • Page 39 Peak aalling: If the Peak aalling checkbox is selected, the Peak Calling analysis will be applied to the results. (See the Section 5.5) areate report: If the areate report checkbox is selected, you can select the Show report setting and set the Report format.

  • Page 40: Cartridge Calibration

    3.2 Cartridge Calibration In order to ensure the quality of the new cartridge, calibration is required before the initial usage. The concept of the verification is to do the HV check by checking if the current of the gel is stable under HV condition. The result will show passed if the current is stable. The aalibrate function is to confirm the quality of the cartridge by executing the test of the alignment marker and checking if the signal of the alignment marker can be detected when using this cartridge.
  • Page 41 “Failed” message appears, please check the alignment marker and buffer tray as mentioned earlier. If the calibration continuously fails for ten times, go to Help → Report to generate the error result file and send the file to your local distributor or visit BiOptic Inc. official website for technical support. https://www.bioptic.com.tw...

  • Page 42: Edit Sample Position Settings

    3.3 Edit Sample Position Settings In the Sequence panel, user can select the corresponding location of the Sample Position on the simulation chart (Figure 3-12), and the selected location will be marked in red. If you want to cancel the selection, just click it again. Figure 3-12 Select the Sample Position The whole column or row will be selected by clicking the coordinates A-H or 01-12 on the side.
  • Page 43 *Note: The information of the samples in the excel sheet needs to follow the sequence that shows in Figure 3-13. You can find an example file in the installation directory C:\Program Files (x86)\BiOptic\Q-Analyzer\ExcelSampleExample.xlsx Each row represents a single sample and the information of each sample will map into the corresponding tab automatically.

  • Page 44: Recalibration

    3.4 Recalibration Recalibration can help to identify the alignment marker (upper marker and lower marker) correctly. Conduct Recalibrate if any of the following situations occur: • The alignment marker has been replaced • The cartridge has been stored for more than two weeks since the last execution •...

  • Page 45: Capillary Clog Check

    3.5 Capillary Clog Check Qsep *This function only shows in aapillary alog aheck will purge the gel out of the capillary to see if it is clogged or not. If droplet forms at the capillary tip, the capillary is not clogged. Figure 3-17 Capillary Clog Check function If the current is too low or unstable, user can use this function to check whether the capillary is clogged or not.
  • Page 46 Figure 3-19 Low Current Figure 3-20 Capillary Clog Check window-1...
  • Page 47 Figure 3-21 Capillary Clog Check window-2 Figure 3-22 Capillary Clog Check window-3...

  • Page 48: Purge Check Function

    3.6 Purge Check Function Purge aheck Function is used to see if the air is coming out while purging. The system Qsep will recommend you to do the purge check function before and after using ™ Series. Figure 3-23 Purge Function Check Make sure there is air coming out from the JET-NOZZLE.
  • Page 49 Figure 3-25 Purge Check Function window-2 Figure 3-26 Purge Check Function window-3...

  • Page 50: Home Function

    3.7 Home Function Home Function will make the tray holder move to the initial place. Qsep ™, this function can be used to make the tray holder move to the initial place. Qsep ™, this function can be used to close the sample door when sample tray taken out.

  • Page 51: Q-Analyzer™ User Interface

    ™ User Interface Q-Analyzer 4.1 Main Window Figure 4-1 Main window A: Menu B: Function bar C: Toolbar D: Operation region E: Status Column...

  • Page 52: System Overview

    4.1.1 System Overview Q-Analyzer After launching ™, the Main Panel (Figure 4-1) will appear and provide the Qsep information of ™ Series (status, data/results display, and post data analysis). Menu: All available functions can be found in the Menu list. For details, please refer to Section 4.3 Function bar: There are four icons in the Function bar.

  • Page 53: System Status Column

    4.1.2 System Status Column The parameters shown at Status Column are as follow (Figure 4-1 E) Action: the proceeding action Position: the position of the cartridge tip Time Remaining: the remaining time to complete the processing action Pressure: shows whether the air pressure is applied properly Fail indicates there is lower than the system requirement If the pressure is on the low side of the system requirement, the color of pressure number will change from black to orange to remind you.

  • Page 54: Function Bar And Toolbar

    4.2 Function bar and Toolbar Q-Analyzer In the Main window, there are four major functions of ™ in Function bar, which are Instrument, Results, Comparison, and Real time. User can select the desired Qsep function either to operate ™ series or analyze the data. For easy access, the most frequently used functions are placed at the Toolbar.
  • Page 55 Figure 4-2 Instrument function before instrument connection After the instrument connected, the items on Toolbar such as alogaheck, Purge aheck Qsep and Home will be enabled. After the cartridge is latched with ™ Series (Figure 4-3), the item Recalibrate is enabled. Qsep ™, after the instrument detected the SDC, the SDC data export and SDC data clear will be enabled.
  • Page 57 Figure 4-3 Instrument function after latching a cartridge Recalibrate: Recalibration can help the identification of the alignment marker. (See Section 3.5) alogaheck: aapillary alog aheck will lower the tray and then put the pressure into the cartridge. If there is water drop formed at the cartridge tip, the cartridge is not clogged.
  • Page 58 50). The amount of the adjustment time will be shown on the button. Simply click the button to confirm the changes. Then the action of Separation & Detection will be 50 seconds extended immediately once the value reaches 0. *Note: Only the remaining time of the action which is in progress can be extended or shortened.

  • Page 59: Results

    4.2.2 Results Qsep To display or analyze data from ™ Series, we provide the Results function. With the Results function, you can demonstrate the chart or edit the bp value from raw data of capillary electrophoresis. Q-Analyzer After the files are loaded in ™, the items on Toolbar such as aalculate, Smear, Peak aalling, Parameters, Show Size/Legend, Show Size/Min, Invert GelView, Show Best/Ori.
  • Page 60 Apply to all selected files in list: do multiple result files calculation. Save file after calculation: save the result file after the calculation completed. Please select this function if you want to have the calculated result every time you open the file. With alignment: if you apply the alignment marker for analysis, select the checkbox.
  • Page 61 region, including the Average size and concentration of this region (nmole/L) shows at Figure 4-4 D Step 4. Modify the Interval of the size range if necessary, and then click Apply to apply the setting (Figure 4-4 E). This will help you get more details of the distribution (Shows on the Statistics below).
  • Page 62 The system will generate the corresponding baseline and define the peaks automatically. If you are not satisfied with the results, you can modify them with Parameter functions. Make sure the selected result file window is the one you want to modify.
  • Page 63 Show Best/Ori.View Show the best view of the signal pattern.
  • Page 64 ahange Line Thickness Switch the thickness of the peaks in the chart.

  • Page 65: Comparison

    4.2.3 Comparison Using the aomparison function, it allows user to compare or analyze multiple results. With this function, you can put several charts together to compare the variance in different samples or conditions. Since the aomparison function is used to analyze multiple results in a chart, you need to open several results before performing the aomparison function.

  • Page 66: Real Time

    4.2.4 Real Time The Real Time function provides a real time display of the current and collected data which includes the current and RFU (amplitude of the capillary electrophoresis Qsep signal). *For the , it will show four real time displays at the same page.

  • Page 67: Menu

    4.3 Menu 4.3.1 File File functions are: New Project: Create a new test project. Figure 4-5 New project Project can be used to differentiate several experiment conditions. The test results will be saved in the corresponding “Result” directory. “Project name” is the name of the folder where the result files will be saved. Operating System Default Saving folder Windows 7, 8, 10...
  • Page 68 The results are plotted as RFU (the Y axis) to TIME (the X axis) diagram. The baseline may vary between tests. The Signal Alignment function (Figure 4-6 D) might be utilized to align the baselines to the same level. After the signal alignment is achieved, you can compare the peaks from different results.
  • Page 69 Figure 4-8 Choose the window you want to save Save As: Save the modified results as another files. Save All: Save all modified results. It will save all files open in the operation panel. Save Folder: Save the created or modified Folder. The created or modified Folder can be saved.

  • Page 70: Edit

    4.3.2 Edit Edit functions are: Sample file: Edit the information of each sample. (Figure 4-9) Figure 4-9 Sample file window Click Edit and the Sample loader window will pop-up. Select the sample you want to edit and enter the sample information, such as sample/patient name, ID, date, and description.
  • Page 71 Figure 4-10 Edit Reference Marker Table Load the saved reference marker table (*.rfm) as shown in Figure 4-10. • Time: the migration time of each peak • Peak Area: the measure of area within the peak • bp: the fragment length •...
  • Page 72 Figure 4-11 Parameter settings The system will generate the corresponding baseline and define the peaks automatically. If you are not satisfied with the results, the results can be modified by the Parameter function. Make sure the selected result file window is the one you want to modify.
  • Page 73 *Note: Click Default button to retrieve the original settings. Peak aalling Table: Peak Calling helps user to create the panels for quick scanning. To use peak calling, user needs to set up the Peak Calling Table which including the target peak information.

  • Page 74: Tool

    4.3.3 Tool Tool functions are: aalculate: Use the reference marker table to do the base pairs calling and quantitative analysis of your result (Figure 4-12). Figure 4-12 Calculate workflow By clicking Load, the reference marker table will be imported. After loading, click OK to do the calculation, and the result file will show the corresponding values of bp and concentration.
  • Page 75 Analyze is designed to generate a summary report of Nucleic Acid Amplification Test (NAAT) automatically. To use this function, user need to use the kit for specific applications. Please contact BiOptic Inc. (www.bioptic.com.tw) for more information. *Note: Analyze is used to interpret the multiple Peak aalling results by using...
  • Page 76 Figure 4-14 Analyze function on Toolbar...

  • Page 77: View

    4.3.4 View View functions are: ahart setting: Change the settings of the electropherogram. ahart setting functions is used to set the color of line, Size/Legend, grid, background, data display, and whether to show the peak indicator. Gel view setting: Change the settings of the gel image simulation. Choose to invert the gel image, display the peak line, or adjust the contrast of the gel image.

  • Page 78: Window

    *Note: If you enter the wrong password over 15 times, your software key will be locked. Unblock PIN: If you enter the wrong password over 15 times, your software key will be locked. Please contact with BiOptic Inc. at the official website (www.bioptic.com.tw) or with your local BiOptic representatives to Unblock PIN.

  • Page 79: Language

    *Note: Some preference setting might change the default value of this instrument and affect the result of experiment. It is suggested to change this setting after you have a complete professional training from BiOptic Inc.. Figure 4-18 Preference setting 4.3.7 Language...

  • Page 80: Help

    Qsep You need to connect to ™ series to get the information of the firmware. By clicking Technical Support, you can open a “bioptic” technical support file. Figure 4-19 Version window Qsep Q-Analyzer Help: Provide the information of ™...
  • Page 81 follow the instructions accordingly. The software will remind user to open the sample door and the cartridge door, and then take out the cartridge from instrument. After clicking start, the motors will do all kinds of actions to move the tray holder, and user can observe motor status during each step. aomputer compatibility check is to check the software setting environments, including the hardware and software requirements.

  • Page 82: Control Panel

    4.4 Control Panel Q-Analyzer When you launch ™, it will open the Control Panel automatically. There are four major functions in the Control Panel, which are Main, Method, Direct Control, and Board Setting (shown in Figure 4-20 F). Different level of access to those functions will be given to the user based on which software key the user has.
  • Page 83 choose Auto to let the system to search the port automatically. Qsep Qsep After ™ Series is successfully connected, the picture of ™ Series on the Main Page will turn into color form. aonnect button will become Disconnect for manual disconnection.

  • Page 84: Method

    4.4.2 Method Method tab is for viewing, editing, and creating the method (Figure 4-21). *Note: Only Advanced users can edit and create method. Figure 4-21 Method page Method is the combination of several steps such as Purge, High Voltage Purge, Sample Injection, Marker Injection, Separation &...
  • Page 85 End: Declares the last commend of a Method. Pause: Parks the cartridge at the Park position. Purge aheck: Purge check ensures that the air tube is not clogged before use and clean the gel which was accidentally sucked into the air tube after use. You can create a method by clicking New Method in the Method tab (Figure 4-21).

  • Page 86: Direct Control (Partial Advanced Only)

    4.4.3 Direct Control (Partial Advanced Only) All the actions of the Method can be executed manually and independently under Direct Control. You can also move the 96-well tray holder to the designated position. Figure 4-22 Direct Control page Motor Initialize: initializes the motor position. Position: can move the ideal well below the cartridge tip.

  • Page 87: Board Setting (Advanced Only)

    4.4.4 Board Setting (Advanced Only) Board Setting provides the information of the Instrument ID, Raw aount/aurrent, PMT Voltage, Sample Rate, Light, and Data aollect. The Sampling Rate function can be used to change the frequency of collecting the raw data. The Data aollect function can be used to collect the raw data for an assigned duration.

  • Page 88: Result/Data Analysis

    5. Result/Data Analysis 5.1 Result for Data Display Qsep Using the Result function, you can analyze the data from ™ Series. The Result function can help you to demonstrate the chart or to edit the bp value from the raw data of the capillary electrophoresis.
  • Page 89 Figure 5-1 Result Display There are several tabs in the Result file, which are Signal, aurrent, Information, HV Purge, Sample injection, Marker injection, and Peak calling (Figure 5-1 A). On the right side, there is a peak table that including Time, RFU, Peak Area, bp, aoncentration (ng/ul), nmol/L, Peak Start (sec), Peak End (sec), S/N, FWHM (sec) and Area (%) (Figure 5-1 B).
  • Page 90 Merge peak helps you combine the minor peaks with the major ones. Select those peaks you would like to combine, and right click the selections and select Merge peak. It will add up the peak area of the selected peaks and further define the peak migration time of this merged peak area from the major peak.

  • Page 91: Calculation

    5.1.1 Calculation If you find the size values of the result are wrong or empty, you can utilize the aalculate function on the Toolbar to get the respective value of bp and concentration for each peak in the result. This function can also be used in RNA samples after running the RNA ladder.
  • Page 92 Apply to all selected files in list: if you want to do multiple result files calculation. Save File after aalculation: save the result file after the calculation is complete. Please select this function if you want to see the calculated result every time you open the file.

  • Page 93: Reference Marker Table

    5.1.2 Reference Marker Table areate new Reference Marker Table After executing the test of specific size marker, transfer the identified result as a reference marker table to analyze the size and concentration of the unknown samples. First, remove the redundant peaks using Delete row in the right click function. Select all rows and right click again to copy the modified data with aopy peak Info for areating Reference.
  • Page 94 Renew Reference Marker Table Due to the changes in conditions of each experiment such as test duration, cartridge, temperature, moisture, solutions, and sample nature, the slight differences among the results for the same test sample may occur. In order to maintain an accurate reference marker table file, you may recall the edited file and use aopy peak Info for areating Reference to update the migration time of the peaks and the height of the peaks without entering the data one by one again.

  • Page 95: Improve Calculate Accuracy

    5.1.3 Improve Calculate Accuracy To improve the accuracy for base pair calculation, user can use the areate size marker function to execute a size marker test first and create a reference table for automatic execution. After applying the setting, the following test will be calculated based on a new reference table.

  • Page 96: Comparison

    5.2 Comparison Use aomparison to compare the different result files. Step 1. Open the files you want to compare in Results. Step 2. Click New Folder in Toolbar to create a Folder. Step 3. Drag the files from the Filename panel and drop them into the Folder that you created as shown below: Show the electropherogram or gel image by selecting the tab in Figure 5-3 A.
  • Page 97 Figure 5-3 Data Comparison in Folder Chart...
  • Page 98 Due to variety of the experiment conditions, you may need to normalize your test results by utilizing the Alignment functions (Figure 5-3 D) to align your data. Time alignment uses the Alignment Marker of each file as the mark to scale the data to be aligned with those of the first file (Figure 5-4).
  • Page 99 Figure 5-5 Use Signal Alignment for Baselines Adjustment Figure 5-6 Three Stacked Result Data...
  • Page 100 Figure 5-7 Use Signal Offset for Distance Modification among Each Result Data Figure 5-8 Use Time Alignment for Scaling the Two Peaks as the Same Time Line...
  • Page 101 Figure 5-9 The Gel View Based on Time Alignment for Scaling the Two Peaks as the Same Line Figure 5-10 Use ”Main Panel→View→Gel view setting→Invert” for Inverting the Gel View...
  • Page 102 Figure 5-11 Use “Main Panel→View→Gel view setting→Contrast” for Contrast Adjustment of Gel View Figure 5-12 The Base Pairs of Peaks Appearance when You Move Cursor on Each Line...

  • Page 103: Export The Report Of Compare Result

    5.2.1 Export the Report of Compare Result To save the results of data comparison, user can follow the steps below to export the report of the Folder. After entering the result files into New folder and completing the Q-Analyzer comparison, right click and select Export report (Figure 5-13). ™...
  • Page 104 Figure 5-14 Select the file format, enter the file name, and save the file to the designated folder Figure 5-15 Function of Save Folder...

  • Page 105: Total Rna Quality Analysis

    5.3 Total RNA Quality Analysis To understand the quality of RNA sample, user can assign 18S and 28S in order to obtain the RNA quality number (RQN) by conducting the steps below. The RNA tab will be enabled, unless the result file is generated by RNA application when you use Method Selector in choosing the method (Figure 5-16).
  • Page 106 Step 2. Select Eukaryotic RNA or Prokaryotic RNA (Figure 5-18 A) Step 3. Click Auto assign to assign the orange and green lines for “18S”, “28S” RNA (Eukaryotic) or “16S”, “23S” RNA (Prokaryotic) (Figure 5-18 B). Step 4. If the lines are not properly cover the RNA area, drag the orange and green lines to cover the designated areas.

  • Page 107: Smear Dna Analysis (Gdna Qc For Ngs)

    5.4 Smear DNA Analysis (gDNA QC for NGS) The Smear function can help user to understand the major size and the distribution of the fragmented genomic DNA. To conduct the analysis, do the following steps: Step 1. Click the Smear tab (Figure 5-19 A) (Alternatively, you can select Smear from the Toolbar).
  • Page 108 Figure 5-20 Export the Smear Report...

  • Page 109: Peak Calling Function For Clinical Testing

    5.5 Peak Calling Function for Clinical Testing Peak aalling function allows user to quickly distinguish the target peaks. Q-Analyzer ™ will follow the rules in the Peak aalling table and report “+” when the peaks are found and show “-“ when the peaks are not found. To use the Peak aalling function, do the following steps: Step 1.
  • Page 110 Step4. Return to the page of your result files, calculate the fragment size and select the Peak calling tab. (Alternatively, you can select Peak aalling from the Toolbar or Tool→Peak aalling. Figure 5-22 A-B). Step5. Browse the desired file and load your Peak Calling Table (Figure 5-22 C). Step6.
  • Page 111 Figure 5-23 Loading Panel and Exporting the Report...

  • Page 112: Appendix A-Troubleshooting

    Appendix A-Troubleshooting  Please exclude these issues first … • Insert the pin into the small hole of cartridge cap and press it all the way in. • Every sample and marker should be over 20 µl (using 0.2ml tube). Buffer tray should be loaded with proper volume.

  • Page 113: Q3：What Is The Size Of The Result File

    Q3：What is the size of the result file? A：Each file is 120 KB; 1 GB can store 8,333 files; 8 GB can store 66,664 results. Q4：Do we need to install the software first or connect the cable first? A：*Follow the Quick start of instrument installation and software installation. Step1.

  • Page 114: Q2：How Should We Do When Pc Cannot Detect The Connection Of Qsep

    Step5. If the instrument is online but indicator does not light up, the indicator light is malfunction. Step6. Open the service panel and check the J1 and J6 connector. For the details, please contact your local distributor or BiOptic. Q2：How should we do when Pa cannot detect the connection of Qsep A：...

  • Page 115: Q4：What Does The Light Of Qair Mean

    • See other instruments in WiFi list, but no display in the list after Qsep restart => Report to BiOptic • Check if Qsep is listed on your cell phone WiFi list，but not display on PC/laptop. Reboot the network card or change to another PC/laptop Qsep For details, please follow the “...

  • Page 117: Q6：The Qair Works Frequently, Over 3 Times/Min

    Too tight: The distance between the cartridge cap and the purge piston will be enlarged. Too loose: The distance between the cartridge cap and gel reservoir will be enlarged. Q7：Jet error window pop-out. A：Please send all the files mentioned in the warning window back to the BiOptic.

  • Page 118: Cartridge Issues

    3. aartridge issues 3.1 Before use Q1：HV check failed or Calibration failed. A： HV check • Make sure follow the “unpacking guide” to unpack the new cartridge • New cartridge has an inner cap to prevent gel stock in the cartridge cap, please use a needle to punch a small hole at the inner cap.

  • Page 119: Q2：What's Wrong With The Pop-Out Error Window

    The result needs to have two peaks (more than two or less than two will also failed) and the S/N must be 60 times of noise. Peak time must be within the specified range, cannot be shift too far. • If the calibration failed, user can do it again, and it will extend 10s of the HV purge (10n, n= calibration number) and 30s of separation in next calibration.

  • Page 120: Q4：What If The Cartridge Has Expired, But Still Has Runs Left

    • For the details, please refer to the section 3.5 Capillary Clog Check. Q4：What if the cartridge has expired, but still has runs left? A： • We are not solving the issues from expired cartridge. • About the expired cartridge, user can use them to do the “pre-analysis” or use to test the sample with unknown buffer condition, because sometimes unknown buffer may damage the capillary.

  • Page 121: Q6：Anything Needs To Notice During Insert Or Take Out The Cartridge

    • The solution is that try to “purge 15-30 minutes to recover it”. Sometimes the cartridge will recover. Q6：Anything needs to notice during insert or take out the cartridge? A： • Please stand up and insert the cartridge vertically. • Be careful not to hit the tip of the cartridge. •...

  • Page 122: Storage

    It might damage the anode pin. 3.3 Storage Q7：How to store the cartridge? And relative buffer? A： • For the details, please refer to the document of “Storage Condition of BiOptic’s Products”. Qsep • Cartridge cannot be stored in the ！ Qsep •...

  • Page 123: Questions Of Operation

    4. Questions of operation Q1：How do I place the Qsep Alignment marker and size marker? A： Qsep • Please refer to section 3.1.1 Figure 3-5 or operation Quick Start. ※ Make sure tubes with alignment marker are at the assigned position Q2：How do I prepare the unknown sample before Qsep analysis? A：...

  • Page 124: Q4：The Sample Consumption (Per Run)

    Q4：The sample consumption (per run)? A： • For different cartridges, all the sample consumption is < 0.1 µl per run. Q5：What is the air pressure range of each instrument? A：Please refer to Operation manual- Hardware. Instrument Pressure range Qsep 50 psi ~ 75 psi Qsep 50 psi ~ 65 psi Qsep...

  • Page 125: Q7：Will Dye Or Organic Solvent Influence Cartridge? How To Pretreat The Sample

    • Use separation buffer to dilute sample, current is OK, but pattern becomes weird Q7：Will dye or organic solvent influence cartridge? How to pretreat the sample? A： • Please try the sample dilution or even cleanup will be better. • If the sample is very rare and precious, dilute the sample and use N1 cartridge.

  • Page 126: Q9：What Is The Difference Between Q-Analyzer Tm , Q-Editor Tm And Q-Viewer Tm

    • Board Setting. (Advance key only!) , Q-Editor Q9：What is the difference between Q-Analyzer and Q-viewer A： • Please refer to software operation manual section 2.2 Software Mode.

  • Page 127: Q10：Why Should I Do Recalibration

    Q10：Why should I do recalibration? A： The benefits of Recalibration are: • Check the cartridge is good or not • Recalibrate the lower and upper marker...

  • Page 128: Unexpected Results

    5. Unexpected results Q1：What kind of conditions will cause unstable current? A： • Most of the unstable current issues come from the sample and cartridge. When you encounter some result issues, please check sample and cartridge first. • Please check the current status in every stage and follow the following steps to verify the possible reasons.

  • Page 129: Q3：Identify Wrong Alignment Marker Or Size Marker

    Step3. Check the current in each step is okay or not. • If the current is unstable during one of the steps, please refer to 5-Q1 to resolve the issue. • If the current is stable, it might be the environmental issue, such as temperature.
  • Page 130 • Manually update the lower and upper marker Update the alignment in first run, and the following results will be updated to the factors Step 1. Set as lower marker. Step 2. Update the cartridge factor. Step 3. recalculate and save the result.

  • Page 131: Q4：The Calculated Size Is Wrong

    Q4：The calculated size is wrong A： • Environment may influence the migration time, so use the “create size marker” function (Remember to place the C109200 size marker on MA2). Please refer to 3.1.2 • The specifications of all the same types of instrument on the market are also about 10% deviation.

  • Page 132: Q7：The Current Is Stable, But There Is No Signal Except The Alignment Marker

    (Ex/Em). Please refer to the service manual and check if the J2 (LED) and J3 (PMT) connectors are loose. For further information, please contact local distributor or BiOptic. Q7：The current is stable, but there is no signal except the alignment marker A：...

  • Page 133: Specific Application Issues (Rna, Protein

    the sample volumes are over 20 µl. Step2. Please check the current. Take four 0.2 ml PCR tube and add 100ul separation buffer in each. Place them at A-01, A-04, A-07 and A-10. Extend the sample injection to 60 seconds and do the analysis. Step3.

  • Page 134: Q3：Why The Result Shows "N/A" In Rqn

    Q3：Why the result shows “N/A” in RQN? A： • Did you use lower marker? No lower marker, no information • In the analysis results, the system has been unable to interpret 18S and 28S. The integrity of RNA is very bad.

  • Page 135: P2 Protein Cartridge

    6.2 P2 Protein cartridge Q4：What Protein Alignment marker should I use? A： • It depends on what labeling dye you choose. • For Chromeo P503, you can use the lower marker we provide in cartridge box. • For Alexa488, just define the “Free dye” as lower marker...

  • Page 136: Q5：Which Instrument Can I Use To Analyze Protein Sample? Or What Labeling Dye Should I Choose

    Q5：Which instrument can I use to analyze protein sample? Or what labeling dye should I choose? A： • Basically, we will choose the protein labeling dye according to the Ex/Em range of the machine. • We suggest user using Alexa488 labeling dye and Qsep Qsep Advance,...

  • Page 137: Others

    destroy the color. • Inside of instrument, you can use 70% ethanol to clean it. 8. Others Q1：Should we turn off the instrument and pump every day? A： No need. For the Pump: User might need to remove the condensate in the water cup before running the sample.

  • Page 138: Report To Bioptic

    Report to BiOptic • Fill the “Troubleshooting Form” • Clearly identify the time when issue occurs. • Sample information, include sample type, buffer condition, bp or MW • Describe your problem in detail, including words, figures, video, result files and report (.rar).

This manual is also suitable for:

Qsep100Qsep400Qsep1

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