ナレッジベース資料（FAQ）

How Do I Open a Port in Windows Firewall for the Central Administrator Console (CAC) Software?

This article describes how to open the port for the Central Administrator Console (CAC) server when Windows Defender is used as the Windows firewall software.

Is the Settings File for the Central Administrator Console (CAC) Software Forward Compatible?

Yes, the Central Administrator Console (CAC) software settings are forward compatible with future versions of the CAC for SCIEX OS software. This means that the setting files (.eac files) from older versions of the CAC software can be imported into newer CAC versions (when they become available), and all the information regarding users, workstations, projects and workgroups will be able to imported into a new version or new installation of the CAC software.

Do I Have the Central Administrator Console (CAC) Server Installed for SCIEX OS Software on My PC?

Users can determine if the Central Administrator Console (CAC) server is installed on their PC by checking if the splash screen at startup displays the name SCIEX OS Central Administrator Console or by checking the About menu in the Configuration mode of the software. Also, one of the four workspace tiles on the home screen says Central Administration once the software loads.

Is a Special Administrator Account Required for the Central Administrator Console (CAC) Software?

A special administrator account is not required for the Central Administrator Console (CAC) software. The CAC server uses the standard SCIEX OS software roles to manage CAC administration permissions.

Can I Install the Central Administrator Console (CAC) Software on a Server Also Running a FlexNet Licensing Server?

Yes, the SCIEX OS software Central Administrator Console (CAC) software can reside on the same server as the FlexNet Licensing Server.

How to Export the Settings for the Central Administration Console (CAC) Software

Users can export the security settings from a Central Administration Console (CAC) server used to manage SCIEX OS software users and projects. The settings are exported as an ECAC file and can be imported into another CAC server installation to transfer the security settings. 

How Does a Client PC Connect to the Central Administrator Console (CAC) Server?

The Central Administrator Console (CAC) software client connects to the CAC server using TCP ports 63333 and 44144. Users need to open the Windows firewall port when Windows Defender is used as the default firewall software. If different firewall software is used, then users must follow instructions specific to that software to open these ports.

Where is the Database for the Central Administrator Console (CAC) Software Stored?

Central Administrator Console (CAC) software is used to create and manage projects and users for laboratories using SCIEX OS software on multiple workstations and instruments. The CAC software database is stored in the following location: C:\ProgramData\SCIEX\Clearcore2.Acquisition\CacServerDataBackup

What Are the Hardware Specifications for the Central Administrator Console for SCIEX OS Software?

The hardware recommendations for the Central Administrator Console for SCIEX OS software are for a PC with a minimum of an i5 quad core, a 3 GHz processor or above, a minimum of 20 GB hard drive space, and a minimum of 8 GB RAM.

Where Are the Log Files Located for ProteinPilot™ Software?

The log files are needed for troubleshooting error messages in ProteinPilot™ software and can be located at C:\AB SCIEX\ProteinPilot Data\Temp\ProteinPilot.log.

What Happens to the SCIEX OS Software when the License for the Central Administrator Console (CAC) Software Expires?

If the license expires for the Central Administrator Console (CAC) software, the server data is maintained in the CAC database, but users won’t be able to launch the CAC application. The SCIEX OS software installed on the client workstations will continue to launch and work with last retrieved data while the CAC server is not reachable.

How Many Client Workstations with SCIEX OS Software Does the Central Administrator Console (CAC) Software Support?

The Central Admin Console (CAC) software can support 100 client workstations with the SCIEX OS software installed.

How to Electronically Reset a SCIEX 7500 System

This article describes the steps for resetting the SCIEX 7500 series instruments.

How Can I Get a Biologics Explorer Trial License?

To obtain a Biologics Explorer (BE) 1.x trial license, send an email to biologics.explorer.orders@sciex.com with a request for a 30-day trial.

Can the Lipidyzer™ Platform Be Upgraded to a Windows 10 Compatible Version?

Lipidyzer™ platform 1.0.5 is only Windows 7 compatible, and there are no upgrades available that allow the software to be used on a Windows 10 system.

How to Activate the Molecule Profiler Software Module in SCIEX OS Software

The Molecule Profiler software is a processing-only software module within the SCIEX OS software suite that can identify and characterize parent molecules and their metabolites. Activating the Molecule Profiler software version 1.1 simply requires the installation of an additional license; however, activation of version 1.0.1 requires an additional software download as well as license installation.

What Are the Current Limitations of the SWATH® Variable Window Calculator Tool?

The SWATH® Variable Window Calculator tool can be used with Analyst® TF 1.7 software and SCIEX OS 1.7 software and higher for many QTOF instruments. This article lists the maximum target number of Q1 windows and the maximum upper m/z limit for each QTOF instrument.

Can I Use the SWATH® Variable Window Calculator 1.2 with All SCIEX QTOF Systems?

The SWATH® Variable Window Calculator 1.2 is a new updated calculator that supports all SCIEX QTOF instruments with Analyst® TF and SCIEX OS software versions.

Can Audit Maps Be Easily Transferred from Analyst® Software to SCIEX OS Software?

No, audit maps cannot be directly transferred from Analyst® to SCIEX OS software.

Are There Differences in LIMS Column Headers between Analyst® and SCIEX OS Software?

As users switch from Analyst® to SCIEX OS software, there may be concerns about column header or formatting differences between the two software versions when importing or exporting information using a LIMS. Although similar, there are format and column differences between the SCIEX OS and Analyst software systems, and SCIEX can provide examples for both formats.

Can Analyst® and SCIEX OS Software be Installed on Separate Computers and then Used Alternately for Acquisition?

Switching between Analyst® and SCIEX OS software for acquisition, either on the same or different computers, is not a supported workflow.

Can Both Analyst® Software and SCIEX OS Software be Used for Acquisition on the Same PC?

No, Analyst® and SCIEX OS software cannot be used for acquisition on the same computer. Analyst software will be removed from an acquisition PC if it is upgraded to use SCIEX OS software for acquiring data.

Is the SelexION® Device Compatible for Acquisition with SCIEX OS Software?

No, the SelexION® device is not yet supported in SCIEX OS software.

Does the SCIEX 7500 System with SCIEX OS Software Work with StatusScope® Remote Monitoring Service?

Yes, the SCIEX 7500 System with SCIEX OS Software is compatible with StatusScope® remote monitoring service version 2.0.

Do I Need To Revalidate My Software Workflow after Upgrading from Analyst® to SCIEX OS Software?

Yes, the software workflow will need to be revalidated after upgrading from Analyst® to SCIEX OS software. SCIEX OS software is a completely different software platform than Analyst software, and because even minor changes require revalidation, the switch from Analyst to SCIEX OS software will also require a revalidation.

Are Validation Services Available To Install and Test the SCIEX OS Software in My Lab?

Yes, the SCIEX validation services team has helpful and cost-effective services for SCIEX OS software validation.

Can I Modify or Add an Enzyme in Bio Tool Kit Software?

The Bio Tool Kit software micro-app characterizes biomolecules within SCIEX OS and PeakView® software through features such as intact protein spectral deconvolution and manual sequence tagging. The software does not allow users to add or modify proteolytic enzymes themselves, but there is a workaround that can be used to modify an existing enzyme.

What is the Maximum Sampling Speed of the Echo® MS System?

There are two modes for the Echo® MS system, normal and fast. The normal mode maximum sampling speed is 1 sample/s. In fast mode, the maximum sampling speed is 3 samples/s.

What Sample Plate Formats Are Supported on the Echo® MS System?

The Echo® MS System is only compatible with specialized, acoustically clear microplates that were specifically designed to ensure the optimal and repeatable performance of droplet ejection. These specialized plates are available in both 384- and 1536-well formats.

Setting Up Manual Integration (Percentage Rule) in SCIEX OS Software

To set up the parameter Manual Integration (Percentage Rule) in SCIEX OS software, a results table and peak review will need to be open in Analytics mode. In the peak review pane, select the Peak review display settings button under the Options menu. Then select the Appearance tab. The manual integration percent rule can be set by clicking the drop down arrow as shown below.

What Are the Specifications for Installing SCIEX OS Software 2.2 on an Acquisition PC?｜質量分析計・LC-MS/MSシステムのSCIEX

To install SCIEX OS software version 2.2 on an acquisition workstation, the PC needs to meet specific requirements. The following PCs are supported: 1) SCIEX workstation or workstation+ and 2) SCIEX Alpha workstation 2020.

Is the Database for DiscoveryQuant™ Software Limited to 1 GB?｜質量分析計・LC-MS/MSシステムのSCIEX

Yes, the size of the Microsoft Access database file is limited to 2 GB. However, the reliability of the database degrades before reaching the 2 GB limit, so it is suggested that DiscoveryQuant™ software users create a new database before the database exceeds 1 GB.

Changing the Comparison Sample Assignment in Analytics in SCIEX OS Software｜質量分析計・LC-MS/MSシステムのSCIEX

When reviewing a results table in the Analytics workspace of SCIEX OS software, users can change the comparison sample assignment from the one that was originally included in the processing method by selecting the option, Use the selected sample as the comparison sample.

Is It Possible To Convert an Acquisition Method Built in Analyst® Software to a MS Method for SCIEX OS Software?｜質量分析計・LC-MS/MSシステムのSCIEX

A MS acquisition method built in Analyst® software cannot be opened directly in SCIEX OS software 2.2, but it can be converted to a usable MS method in SCIEX OS software using the Convert file feature in the MS Method workspace.

Is Watson LIMS Software 7.6.1 SP1 Compatible with Analyst® Software 1.7.2 on Windows 10?｜質量分析計・LC-MS/MSシステムのSCIEX

Yes, Watson LIMS software 7.6.1 SP1 is compatible with Analyst® software 1.7.2 on Windows 10. Please run as administer when installing both the Watson and the Analyst software to ensure LIMS integration between the two.

Enabling and Disabling the Data File Checksum Feature in SCIEX OS Software｜質量分析計・LC-MS/MSシステムのSCIEX

To enable or disable the data file checksum feature in SCIEX OS software, navigate to the Configuration workspace in SCIEX OS software. Under the Projects tab under Data File Security, select the checkbox for Enable checksum writing for wiff data creation.

Where Are the SCIEX OS Software Project Audit Trail Archives Stored?｜質量分析計・LC-MS/MSシステムのSCIEX

The audit trail records for a SCIEX OS software project are stored in the Audit Data sub-folder for the project. The audit trail file name is ProjectAuditEvents.atds.

When Does SCIEX OS Sofware Start Archiving Audit Trail Records?｜質量分析計・LC-MS/MSシステムのSCIEX

In SCIEX OS software, the audit trail will be archived when it reaches 20,000 records.

What Normalization Can I Use in MarkerView™ Software 1.3.1 when Processing My Peptide Data?｜質量分析計・LC-MS/MSシステムのSCIEX

MarkerView™ software 1.3.1 software has a new Most Likely Ratio (MLR) normalization algorithm incorporated info this newest version of the software.

Is It Possible To Convert a Shimadzu High-Flow LC to a Microflow LC System?｜質量分析計・LC-MS/MSシステムのSCIEX

In order for a microflow LC system to perform optimally, the correct LC hardware must be installed. For example, a high-flow Shimadzu LC-20AD system cannot simply be converted to a microflow system because the 20AD is not equipped with the correct type of solvent mixer.

Can Wiff1 Files Generated by SCIEX OS Software 2.1 from X500 Series Instruments be Searched with ProteinPilot™ Software?｜質量分析計・LC-MS/MSシステムのSCIEX

X500 series instruments generate wiff2 file formats, but with the newest version of SCIEX OS Software 2.1, they can also generate a .wiff1 file. Only .wiff1 files can be used to perform a ProteinPilot™ software search.

What is the Source of the Atomic Weight Information in BPV Flex Software?｜質量分析計・LC-MS/MSシステムのSCIEX

BPV Flex software uses the same source of atomic weight information as BioPharmaView™ software. The theoretical value required for the intact workflow uses the average molecular weight; the peptide workflow uses the monoisotopic weight.

How Do I Install the Intact Protein Script on the TripleTOF® 5600 and 6600 Systems?｜質量分析計・LC-MS/MSシステムのSCIEX

The Intact Protein script can be installed from the Analyst® TF software directory located at: C:\Program Files (x86)\Analyst\Scripts. The ShowInTuneLayout script must be installed and enabled in order to acquire intact proteins.

Where Can I Download Skyline Unplugged for a Windows 10 64-bit PC?｜質量分析計・LC-MS/MSシステムのSCIEX

Link is provided and installations instructions are described

How Are Peptides Named in BPV Flex Software after in Silico Digestion?｜質量分析計・LC-MS/MSシステムのSCIEX

The general rule for naming peptides in BPV Flex software is: the first peptide resulting from a proteolytic cleavage is named T1 for sequences displayed from the N-terminus to the C-terminus; moving toward the C-terminus, the second proteolytic cleaved peptide is named T2, and so forth.

How to Use the MAM Script in BioPharmaView™ Software 3.0.2 to Transfer Peptide Information to SCIEX OS Software｜質量分析計・LC-MS/MSシステムのSCIEX

BioPharmaView™ software 3.0.2 has improved its multiple attributes monitoring (MAM) workflow, and the software now includes a script, MAM-BPV to Analytics Converter, used to create a quantitative processing method for the Analytics mode of SCIEX OS software.

How Is the Peptide Score Calculated in BPV Flex™ Software 2.1?｜質量分析計・LC-MS/MSシステムのSCIEX

The BPV Flex™ Software 2.1 peptide score indicates the probability that the peaks in a given MS/MS spectrum will match those of the theoretical peptide fragments by random chance. Therefore, the score calculation is derived from observed MS/MS fragments and the corresponding intensities, as well as the number of theoretical MS/MS fragments.

What Value Should Be Used for the XIC Width in My SWATH® Acquisition MicroApp Processing Settings?｜質量分析計・LC-MS/MSシステムのSCIEX

One common error when using the SWATH® Acquisition MicroApp 2.0.1 for processing SWATH data is to relate the XIC width setting in the processing software with the mass accuracy of the instrument, and set the XIC width to a value that is too low. XIC extraction widths should be set to 50 to 75 ppm, regardless of the mass accuracy of the acquired data.

Unable to Open SCIEX Cloud ProteinPilot™ Software Searches with the Desktop Version 5.0.2｜質量分析計・LC-MS/MSシステムのSCIEX

The version of ProteinPilot™ Software in the SCIEX Cloud is version 5.0.3; therefore, group files created in the SCIEX Cloud cannot be downloaded to a desktop and opened in ProteinPilot Software 5.0.2. To download and read a group file on a desktop installation of ProteinPilot Software, the desktop version must be upgraded to version 5.0.3.

Which Glycan Notation Is Used in the BioPharmaView™ Software?｜質量分析計・LC-MS/MSシステムのSCIEX

The glycan notation used in BioPharmaView™ Software is the Oxford style.

Remote Data Access Software Error on MALDI TOF/TOF™ instruments｜質量分析計・LC-MS/MSシステムのSCIEX

When setting up ProteinPilot™ Software or the imaging acquisition software for the MALDI TOF/TOF™ Systems, a RDA (Remote Data Access) software error message is received: "TOF/TOF Imaging Acquisition Software. The client components used to communicate with the instrument are newer than those found on the instrument. Please update the Remote Data Access service on the instrument."

How Inclusion or Exclusion Lists Are Imported into Analyst® TF Software｜質量分析計・LC-MS/MSシステムのSCIEX

This article describes how a text file can be created to import an inclusion or exclusion list into Analyst® TF software when building an IDA method.

Differences between iTRAQ® Reagents Application Kit - Protein (4374321) and iTRAQ® Reagent 4Plex or 8Plex Kits｜質量分析計・LC-MS/MSシステムのSCIEX

This article describes the different workflows for the iTRAQ® Reagents Application Kit - Protein (4374321) and the iTRAQ Reagents - 4plex or 8plex kits.

Why Won't LipidView™ Software Load My Analyst® Software (.wiff) Data Files?｜質量分析計・LC-MS/MSシステムのSCIEX

In order to load Analyst® software data files (.wiff files) into LipidView™ software, either Analyst or Analyst TF software must be installed alongside LipidView.

Accessing ProteinPilot™ Software Searching in the SCIEX Cloud Workspace｜質量分析計・LC-MS/MSシステムのSCIEX

To log into the SCIEX Cloud workspace and access the ProteinPilot™ software searching features with just your CloudConnect license, follow the instructions below.

Missing Columns when Exporting the Protein Summary from ProteinPilot™ Software 5.0.2?｜質量分析計・LC-MS/MSシステムのSCIEX

This is a known issue in the ProteinPilot™ software 5.0.2 and was resolved with a patch.

Is Digital PicoView® Source Windows 10 compatible?｜質量分析計・LC-MS/MSシステムのSCIEX

Digital PicoView® Source is a nano ion source from New Objectives that is Windows 10 compatible and can be used with many SCIEX mass spectrometers.

How to Install Skyline Software on an Off-Line Computer｜質量分析計・LC-MS/MSシステムのSCIEX

To download Skyline software on a computer that is not connected to the internet, use the Unplugged installer or the Administrator installer:

Where Are the Report Templates for BioPharmaView™ Software Stored?｜質量分析計・LC-MS/MSシステムのSCIEX

The file folder locations of the report templates for BioPharmaView™ software are listed in this article.

How To Enable the New Intact Protein Quant Feature in SCIEX OS 1.7 Software｜質量分析計・LC-MS/MSシステムのSCIEX

The Intact Quant feature in Sciex OS 1.7 software platform enables the quantitative processing of intact proteins without sample prep and allows for the complete and compliant intact reconstruction of protein data sets. To activate this feature, an additional, add-on software license, SCIEX OS IntactQuant 1.7 (part number 5078597), must be installed in the C:\ Program Files\SCIEX\SCIEX OS folder.

What Parameters in ProteoWizard Are Needed when Converting .wiff2 Files to mzXML Files?｜質量分析計・LC-MS/MSシステムのSCIEX

The parameter settings, including the PeakPicking value, that are used for converting .wiff2 files to mzXML or mzML files in ProteoWizard, are explained in more detail here.

Does the XCMSPlus Software Use MS/MS Data Matching to Identify Metabolites?｜質量分析計・LC-MS/MSシステムのSCIEX

XCMSplus software does not use MS/MS matching to identify features. Instead, this software identifies features based on the precursor m/z.

What is SimGlycan Software?｜質量分析計・LC-MS/MSシステムのSCIEX

SimGlycan® software is a comprehensive glycan and glycopeptide drawing and structure analysis software.

Does SimGlycan® Software Use .wiff2 File Formats from X500 Series Instruments?｜質量分析計・LC-MS/MSシステムのSCIEX

This article describes the possible file input formats for SimGlycan® software.

Upgrading to Analyst® TF Software 1.8.1: Batch Editor No Longer Displays Autosampler ekspert nanoLC400 as an Option｜質量分析計・LC-MS/MSシステムのSCIEX

After upgrading Analyst® TF software 1.8 to version 1.8.1, the Eksigent control software no longer displayed the option to chose the ekspert™ nanoLC 400 autosampler. To resolve this issue, in the Eksigent control software, the autosampler driver for the nanoLC 400 must be unregistered and then re-registered.

Aliquots of Bulk iTRAQ® Reagent Require Cold Storage Under Inert Gas｜質量分析計・LC-MS/MSシステムのSCIEX

When aliquoting bulk iTRAQ® reagent, vials must be stored at -20 °C under inert gas.

Migrating the SQL Server from DiscoveryQuant™ 2.1 Software to Version 3.0.x｜質量分析計・LC-MS/MSシステムのSCIEX

Instructions are provided here for migrating the SQL server for DiscoveryQuant™ 2.1 to an installation of DiscoveryQuant 3.0.x software.

Does BPV Flex Software Support Multiple Period Experiments?｜質量分析計・LC-MS/MSシステムのSCIEX

BPV Flex can only open the first period of multiple period experiment runs.

Multiple Period Experiments Cannot Be Processed in BioPharmaView™ Software 2.x and 3.x｜質量分析計・LC-MS/MSシステムのSCIEX

Data processing for intact proteins and peptide mapping in BioPharmaView™ software versions higher than 2.x do not allow for multiple period experiments.

Calculating the Theoretical Average Mass for an Intact Protein in BioPharmaView™ Software｜質量分析計・LC-MS/MSシステムのSCIEX

BioPharmaView™ software uses the isotopic masses published by NIST online at: https://physics.nist.gov/cgi-bin/Compositions/stand_alone.pl. Please note that the results generated will be the same throughout all SCIEX software (e.g., PeakView™ and ProteinPilot™ software).

What Is the Organic Solvent Used with iTRAQ® Reagents during Shipment?｜質量分析計・LC-MS/MSシステムのSCIEX

All iTRAQ®, aTRAQ™ and mTRAQ® reagents are shipped in acetonitrile from the factory.

Does ProteinPilot™ Software 5.0.2 Support MALDI TOF/TOF™ Systems?｜質量分析計・LC-MS/MSシステムのSCIEX

Description of which ProteinPilot™ software versions still support 4800 and 5800 MALDI TOF/TOF™ systems.

Can Skyline Version 4.2.1 and Higher Process .wiff2 File Formats?｜質量分析計・LC-MS/MSシステムのSCIEX

Yes , Skyline version 4.2.1 can process .wiff2 files generated using SCIEX OS software.

Compound Parameters Not Loading in Analyze Mode in DiscoveryQuant™ 3.0.1 Software｜質量分析計・LC-MS/MSシステムのSCIEX

Compound parameters could not be uploaded in Analyze mode in DiscoveryQuant™ 3.0.1 software after switching from a local database to SQL database due to issues with the database selected as the review database.

List of CE Capillaries with Pre-burned Detection Windows｜質量分析計・LC-MS/MSシステムのSCIEX

CE capillaries with pre-burned detection windows are available for purchase; the dimensions and coating information for these products are listed here.

What Causes BioPharmaView™ Software To Stall when Processing Data or Running Batches?｜質量分析計・LC-MS/MSシステムのSCIEX

BiopharmaView™ software will stall when processing data when more than one instance of the software is open or if there are some corrupted files in the processing queue folder in the BioPharmaView program files folder.

Changing the Number of Decimals Displayed in Analyst® Software Calibration and Metric Plots｜質量分析計・LC-MS/MSシステムのSCIEX

This is a set of instructions for changing the number of decimals displayed in Analyst® software quantitation metric plots and calibration curves. The default number of decimals leaves the significance so low that you can not reproduce the results shown in the results table. A warning is given to let customers know that Regedit is a dangerous utility.

BioPharmaView™ Software 2.x/3.0.x Cannot Open the Data for Subsequent Samples if the Data for the First Sample Is Corrupted｜質量分析計・LC-MS/MSシステムのSCIEX

BioPharmaView™ software 2.x/3.0.x cannot open the data for subsequent samples if the data for the first sample is corrupted.

Bio Tool Kit Software License iNeeded for SCIEX OS 1.x and PeakView Software.｜質量分析計・LC-MS/MSシステムのSCIEX

The Bio Tool Kit software can be activated within PeakView 2.x and SCIEX OS 1.x software but a separate software license is needed.

What Are the Specifications of the Six-Protein Mixture Supplied with the iTRAQ® Kit?｜質量分析計・LC-MS/MSシステムのSCIEX

Specifications of the six-protein mixture (PN 4348363) supplied with the iTRAQ® kit include the accession numbers of the proteins and their mass per tube (in µg and nmol).

What Are the Peptide Sequences in the Six-Peptide Mixture (PN 4465940)?｜質量分析計・LC-MS/MSシステムのSCIEX

The six-peptide mixture (part number 4465940) is used for the calibration of mass spectrometers. The kit contains the following six peptides and their mono-isotopic masses: bradykinin (2-9 clip) (904.4681), angiotensin I (1296.6853), glu1-fibrinopeptide (1570.6774), ACTH (1-17 clip) (2093.0867), ACTH (18-39 clip) (2465.1989), and ACTH (7-38 clip) (3657.9294).

Nomencature Used by BiopharmaView™ Software for N-Gylcan Names｜質量分析計・LC-MS/MSシステムのSCIEX

BioPharmaView™ software uses predefined N-glycan structures (following the Ludger product names), or software users have the option to build their own custom modifications.

How Are the Samples and Standards for the aTRAQ™ Kit Stored?｜質量分析計・LC-MS/MSシステムのSCIEX

The reagents and samples used for the aTRAQ™ kit labeling experiments should be stored at -20 °C or lower.

How Do You Export a Library in LibraryView™ 1.0.1 Software?｜質量分析計・LC-MS/MSシステムのSCIEX

The export of a library from LibraryView™ 1.0.1 software is described here.

Difference between Rapid and Thorough Searches in ProteinPilot™ Software｜質量分析計・LC-MS/MSシステムのSCIEX

The rapid search and a thorough search settings in ProteinPilot™ software determine which parts of the search algorithm will be invoked and effectively how deep the sample will be searched to find the right answers.

How to adjust, save and export the table settings in an Analyst Quantitation Table｜質量分析計・LC-MS/MSシステムのSCIEX

Instructions how to modify (choose and adjust the visible columns, change the significant figures and notation), save and export an Analyst Quantitation Table.

Will ProteinPilot™ 5.0.2 Software Function on a Windows 7 64-Bit System?｜質量分析計・LC-MS/MSシステムのSCIEX

ProteinPilot™ 5.0.2 software has only been tested on Windows 10 SP1 64-bit with Microsoft Office version 2016.

Using the 25 Micron ESI Electrode with the DuoSpray™ Source?｜質量分析計・LC-MS/MSシステムのSCIEX

A 25 micron ESI electrode can be used with the IonDrive™ Turbo V source and the DuoSpray™ source.

iTRAQ® Reagents: Can Samples Labeled with Both the 4-Plex and 8-Plex Kits Be Mixed?｜質量分析計・LC-MS/MSシステムのSCIEX

The iTRAQ® Reagents chemistry for 4plex versus 8plex kits is described.SCIEX does not recommend mixing samples labeled with the reagents from the two separate iTRAQ® kits, 4plex and 8plex, due to the differences in the reagent chemistry.

Which Amino Acids in the PepCalMix Are Labeled?｜質量分析計・LC-MS/MSシステムのSCIEX

The PepCal Mix (P/N 5045759) contains 20 heavy-labeled peptides, with the heavy isotopes incorporated in the amino acids, K and R.

Keeping a Nano LC/MS System Running after Sample Acquisition Is Completed｜質量分析計・LC-MS/MSシステムのSCIEX

To keep a nano LC/MS system running after sample acquisition has completed, the LC/MS can be configured two different ways, assuming the Nano Eksigent 400 system is used.

Where Can I Find Instructions for the Protein Preparation Kit?｜質量分析計・LC-MS/MSシステムのSCIEX

Protein preparation instructions can be found on the SCIEX website at https://sciex.com/Documents/tech%20notes/Protein-Preparation-Kit-Protocol.pdf or https://sciex.com/products/standards-and-reagents/automated-protein-digestion-solution.

Exporting .T2D Files in Batch Mode from the Raw Data Spotset｜質量分析計・LC-MS/MSシステムのSCIEX

To export .T2D files in batch mode from the raw data spot set on a MALDI plate, locate the Remote Data Access software in the program files and install the T2DExporter.

Setting Up MRM Transitions if Q1 Mass Is Identical to that of a Second Compound｜質量分析計・LC-MS/MSシステムのSCIEX

To set up a MRM transitions where the Q1 mass for one compound is identical to a second compound in Analyst® software, change the Q1 mass of the second compound by 0.1 -0.05 Da. After making this adjustment, the software will accept the duplicate mass for Q1.

Optimal CE Voltages for Peptide Analysis on TripleTOF® Systems｜質量分析計・LC-MS/MSシステムのSCIEX

The collision energy (CE) and the collision energy spread (CES) values needed for peptide analysis (during protein IDA identification and SWATH® acquisition) can be optimized using Information in the rolling CE setting embedded in the Analyst® TF software.

Archiving and Purging MALDI TOF/TOF™ Data and Creating Database Backups｜質量分析計・LC-MS/MSシステムのSCIEX

Described herein is a general procedure on how to archive/purge data from a MALDI TOF/TOF™ system, as well as how to back up data.

Protocols for Protein Precipitation in Samples before Using iTRAQ® Kits｜質量分析計・LC-MS/MSシステムのSCIEX

To prepare samples prior to iTRAQ® reagent labeling, use the following protocols.

ProteinPilot™ 5.x Software: Incorrect Result Output for Instrument Names in the Group File｜質量分析計・LC-MS/MSシステムのSCIEX

ProteinPilot™ software uses the incorrect mass spectrometer name in its group file output file. When a TripleTOF® 5600 system was selected, the group file contains the name QSTAR® Elite instead for system information. This causes the wrong results to be output; if the incorrect instrument name is used, then the incorrect tolerance settings are applied.

ProteinPilot Software Datafile Cannot be Searched because two files are acquired under same file name｜質量分析計・LC-MS/MSシステムのSCIEX

Searching for ProteinPilot software files using Windows Explorer cannot be done because there are two files acquired under the same file name. This is a long known issue for all ProteinPilot versions that only one file per file name can be searched using ProteinPilot software.

How to Generate MRM Ratios in Analyst Software｜質量分析計・LC-MS/MSシステムのSCIEX

This is a known issue in the ProteinPilot™ software 5.0.2 and was resolved with a patch.

BioPharmaview™ Software: Simultaneous Analysis of Disulfide Bridges and Cysteine Modification Not Possible｜質量分析計・LC-MS/MSシステムのSCIEX

Disulfide bond mapping in BioPharmaView™ software is described in the user guide. However, creating a disulfide bridge table in addition to analyzing cysteine modifications simultaneously is not described and cannot be done.

How Many Vials of Each iTRAQ® Reagent Are in the Multiplex Kit?｜質量分析計・LC-MS/MSシステムのSCIEX

Each iTRAQ reagent multiplex kit (PN 4352135) contains 5 vials of of the following iTRAQ reagent labels: 114, 115, 116, and 117.

Separating Concatenated .wiff Files in Analyst® Software｜質量分析計・LC-MS/MSシステムのSCIEX

To separate concatenated .wiff file sets, a script called Make Subset File is used. This script might have limitations for Analyst® and Analyst TF software because it depends on the experiments in the file (i.e., the script does not work for IDA methods). The script is found on the Analyst TF software CD in the folder \Extras\Scripts\Make Subset File.

Which Calibration Standards Can Be Used for Intact Protein Analysis on TripleTOF® and X500 Systemss?｜質量分析計・LC-MS/MSシステムのSCIEX

An APCI calibrant solution for the SCIEX X500B System and a mAb standard from Waters were compared. Results show that the mass to charge ratio for the calibrant solutions remain constant regardless of the charge state. Secondly, for readings over 500 m/z, the calibration is highly linear for the X500B system.

Tips and Tricks for Cation-Exchange Chromatography for the iTRAQ® Protocol｜質量分析計・LC-MS/MSシステムのSCIEX

The manual injection procedure for the iTRAQ® protocol requires a 22-gauge syringe with a 2-inch needle (purchased separately). This article lists some tips and tricks on how to set up the syringe when using cation-exchange columns for samples treated with the iTRAQ reagent.

Where Can I Find a Column Part Number from Eksigent?｜質量分析計・LC-MS/MSシステムのSCIEX

The provided link lists all micro and nano columns including nano chip columns.

How Does the Score in the Peptide Sequencing Section of BioPharmaView™ Software 2.1 Work?｜質量分析計・LC-MS/MSシステムのSCIEX

Each peptide is displayed in a table after processing the peptide digest in BioPharmaView™ software. A score is given to each peptide after it is compared to the theoretical proteolytic digest.

Reasons for Data File Processing Failure with the Data Converter Version 1.3 Beta｜質量分析計・LC-MS/MSシステムのSCIEX

What are the potential issues listed which can cause the SCIEX MS data converter version 1.3 beta to not work correctly?

What Default URL Is Used for Configuring the Mascot Server with ProteinPilot™ Software?｜質量分析計・LC-MS/MSシステムのSCIEX

Configuring the Mascot server from the ProteinPilot™ software requires the default URL to be used.

What Is Skyline Software and What Data Types Does It Work With?｜質量分析計・LC-MS/MSシステムのSCIEX

This article includes a general description of the features of Skyline software and the possible data formats from SCIEX instruments that work with Skyline.

Acetic Acid Is Needed To Prepare the PepCalMix Peptides in the SWATH® Acquisition Performance Kit｜質量分析計・LC-MS/MSシステムのSCIEX

This article describes the experimental issues when formic acid is used to prepare the PepCalMix for the SWATH® Acquisition Performance Kit instead of 5% acetic acid.

Where Can I Download Skyline Software ?｜質量分析計・LC-MS/MSシステムのSCIEX

This article includes the link to a free download of Skyline software.

What Is the Full Amino Acid Sequence of BETA-GALACTOSIDASE in the LC/MS Peptide Calibration Kit?｜質量分析計・LC-MS/MSシステムのSCIEX

The full amino acid sequence for beta-galactosidase is provided in the FASTA file format. The kit (part number 4465938) contains one vial of beta galactosidase digest (625 pmol/vial).

How Is a Hardware Profile Created in Simulation Mode with an Eksigent 4.x and Analyst TF Software?｜質量分析計・LC-MS/MSシステムのSCIEX

Description of the steps to place the Eksigent software in the AAO system of the Analyst® software and how to run it in simulation mode.

How Is the SWATH® Acquisition Variable Window Calculator Excel Sheet Used?｜質量分析計・LC-MS/MSシステムのSCIEX

This article includes step-by-step instructions on how to calculate variable windows for your SWATH® acquisition experiment and how to generate the input and output list.

ProteinPilot™ Software 5.0: What Are the Criteria for Including a Peptide in the Feature Tab?｜質量分析計・LC-MS/MSシステムのSCIEX

The general filters for peptides are listed here. These are applied through the feature tab in ProteinPilot™ software.

Is ProteinPilot™ Software 5.0.1 Compatible with Windows 10?｜質量分析計・LC-MS/MSシステムのSCIEX

Is ProteinPilot™ Software 5.0.1 compatible with Windows10? No, it works only with Windows 7, Service Pack 1, 64-bit.

What Is the Function of the Collision Gas (CAD) on QTRAP® System Instruments?｜質量分析計・LC-MS/MSシステムのSCIEX

The various functions of the CAD gas are described for the QTRAP® System instruments and the different scan types.

What Is a Fraglet.exe Error when Running ProteinPilot™ Software 5.0?｜質量分析計・LC-MS/MSシステムのSCIEX

A "Fraglet-exe-Error" can have many causes within the ProteinPilot™ software. In some cases, this error is caused when installing ProteinPilot on an incompatible operating system.

How Is a ChemSpider Software License Activated within PeakView® Software?｜質量分析計・LC-MS/MSシステムのSCIEX

The software activation procedure is described step-by-step for ChemSpider, which needs to be activated within PeakView® software's FormularFinder feature.

Where Can I Find More Information about Software IQ/OQ Testing Plans?｜質量分析計・LC-MS/MSシステムのSCIEX

More information about software validation services can be found by emailing complianceservices@sciex.com.

Intact protein script for TripleTOF™ instruments｜質量分析計・LC-MS/MSシステムのSCIEX

This knowledge article summarizes when to use the intact protein script in

PA800 How To - Changing Coolant Tubing｜質量分析計・LC-MS/MSシステムのSCIEX

Changing Coolant Tubing on PA800 System

PA800 How To - Trimming a Capillary｜質量分析計・LC-MS/MSシステムのSCIEX

Trimming a Capillary

PA800 How To - Installing the LIF Aperture and Probe Stabilizer｜質量分析計・LC-MS/MSシステムのSCIEX

Installing the LIF Aperture and Probe Stabilizer

PA800 How To - Cartridge Removal｜質量分析計・LC-MS/MSシステムのSCIEX

Video demonstration of Cartridge Removal on the PA800 system

PA800 How To - Capillary Removal｜質量分析計・LC-MS/MSシステムのSCIEX

Capillary Removal

PA800 How To - Capillary Storage｜質量分析計・LC-MS/MSシステムのSCIEX

Capillary Storage Details for PA800 System

PA800 How To - Installing the Cartridge Aperture｜質量分析計・LC-MS/MSシステムのSCIEX

Procedure for Installing the Cartridge Aperture on the PA800 system

PA800 How To - Replacing the Ejector and Electrode｜質量分析計・LC-MS/MSシステムのSCIEX

Replacing the Ejector and Electrode

PA800 How To - Uninstalling the LIF Detector｜質量分析計・LC-MS/MSシステムのSCIEX

Uninstalling the LIF Detector

PA800 How To - Removing the Ejector and Electrode｜質量分析計・LC-MS/MSシステムのSCIEX

Removing the Ejector and Electrode

PA800 How To - Installing the LIF Detector｜質量分析計・LC-MS/MSシステムのSCIEX

Installing the LIF Detector

PA800 How To - Cartridge Removal Rebuild Reinstallation｜質量分析計・LC-MS/MSシステムのSCIEX

Procedure for Cartridge Removal Rebuild Reinstallation on PA800 System

PA800 How To - Changing a Detector｜質量分析計・LC-MS/MSシステムのSCIEX

Changing a Detector

How Are the Method Parameters Chosen for Autocalibration Samples in the X500 Series?｜質量分析計・LC-MS/MSシステムのSCIEX

Method parameters for autocalibrations submitted in SCIEX OS batches are automatically chosen from the sample after the autocalibration.

How do I store iTRAQ® labeled peptides?｜質量分析計・LC-MS/MSシステムのSCIEX

Store iTRAQ® reagent labeled peptides at -20 or -80 degrees Celsius. Avoid having the peptides undergo multiple freeze/thaw cycles. iTRAQ-labeled peptides can degrade over time.

MALDI TOFTOF: Can I calibrate using a linear mode acquisition method in batch mode?｜質量分析計・LC-MS/MSシステムのSCIEX

When calibrating a linear mode acquisition method in batch mode the software reports that a reflector mode acquisition method is required in order to use the batch mode.

Ekspert™ 400 LC system – Change the mobile phase｜質量分析計・LC-MS/MSシステムのSCIEX

How to change mobile phase on Ekspert™ 400 LC system

How to remove unused template definitions from DiscoveryQuant 2.1.x｜質量分析計・LC-MS/MSシステムのSCIEX

This document explains how to remove unused template definitions from the DiscoveryQuant Analyze setup window

Power Down and Power Up the TripleTOF® System｜質量分析計・LC-MS/MSシステムのSCIEX

How to power down and up the TripleTOF systems

TripleTOF® System Vacuum Interface Routine Cleaning｜質量分析計・LC-MS/MSシステムのSCIEX

How to clean the vacuum interface of the TripleTOF instruments

How Do I Install SQL Server 2014 for DiscoveryQuant™ 3.0｜質量分析計・LC-MS/MSシステムのSCIEX

This article describes the process for building a SQL Server for use with DiscoveryQuant 3.0.

How Do I Migrate Data from a DiscoveryQuant™ 2.1 SQL Server to a DiscoveryQuant™ 3.0 SQL Server｜質量分析計・LC-MS/MSシステムのSCIEX

This article describes how to migrate DiscoveryQuant 2.1.x SQL Server Data to a DiscoveryQuant 3.0 SQL Server Installation

DiscoveryQuant Cannot set spectrum for experiment X｜質量分析計・LC-MS/MSシステムのSCIEX

DiscoveryQuant Optimize will not complete optimization with the error message Cannot set spectrum for experiment followed by a number which can be any one of your scan functions.

DiscoveryQuant Quicktune DP 0 DP Scan Problem｜質量分析計・LC-MS/MSシステムのSCIEX

Using DiscoveryQuant 2.1.3 Quick Tune will set the DP value to 0 and then Fine Tune will fail as it has an invalid DP value. The temporary Q3 MI scan method for the quicktune will show the MH ion with 2 DP scans both at 200v though this voltage may vary.