Q: How does mzLogic work on the Orbitrap ID-X Tribrid Mass Spectrometer?

Watch this video . Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center .

Q: What is a "Library Builder" method on the Orbitrap ID-X Tribrid Mass Spectrometer?

To achieve in-depth MS n analysis, this method exhaustively interrogates a precursor using a combination of fragmentation mechanisms, MS n levels, and m/z analyzers. At high MS n levels, the product ion signals can become quite weak. To address this concern, we developed an MS n Quality Trigger, which enables the user to trigger complementary ITMS n scans if the corresponding FTMS n scan S/N drops too low. Mass Frontier 8.0 software can curate MS n library data into MS n tree libraries, and the software can search unknown MS n data against this local library. Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center .

Question 1

What factors impact the speed of AcquireX on Orbitrap Tribrid mass spectrometry instruments?

Accepted Answer

Speed is impacted by the cleanliness and complexity of your samples as well as the processing speed of the computer.

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Question 2

Does the AcquireX data acquisition tool work for direct infusion experiments or for LC experiments on the Orbitrap Tribrid mass spectrometry instruments?

Accepted Answer

AcquireX only works for LC experiments because the algorithm specifically looks for things that elute as peaks.

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Question 3

Does the AcquireX data acquisition tool work for proteomics applications on Orbitrap Tribrid mass spectrometry instruments?

Accepted Answer

No, AcquireX is specifically used for small molecule (ions with a charge state of 2 or less) applications.

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Question 4

Which Thermo Scientific Orbitrap Tribrid mass spectrometry instruments is the AcquireX data acquisition tool available on?

Accepted Answer

AcquireX is available on the Thermo Scientific Orbitrap Fusion Lumos, Orbitrap Fusion, and Orbitrap ID-X Tribrid MS instruments. In regards to the first two instruments, you will need to upgrade to Instrument Control Software Version 3.1 and XCalibur Version 4.2.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Question 5

How does mzLogic work on the Orbitrap ID-X Tribrid Mass Spectrometer?

Accepted Answer

Watch this video.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Question 6

What is a "Library Builder" method on the Orbitrap ID-X Tribrid Mass Spectrometer?

Accepted Answer

To achieve in-depth MSⁿ analysis, this method exhaustively interrogates a precursor using a combination of fragmentation mechanisms, MSⁿ levels, and m/z analyzers. At high MSⁿ levels, the product ion signals can become quite weak. To address this concern, we developed an “MSⁿ Quality Trigger”, which enables the user to trigger complementary ITMSⁿ scans if the corresponding FTMSⁿ scan S/N drops too low. Mass Frontier 8.0 software can curate “MSⁿ library” data into MSⁿ “tree” libraries, and the software can search unknown MSⁿ data against this local library.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Question 7

How does the Assisted Collision Energy (CE) feature work on Orbitrap Tribrid mass spectrometry instruments?

Accepted Answer

The assisted collision energy acquisition strategy uses a series of hidden ion trap scans to determine the optimal CE to use in the subsequent analytical scan. These IT spectra only scan a small mass range around the precursor ion (2 Th) to increase the analysis speed. The TIC of these IT scans is compared to the TIC of an IT scan of 0 collision energy to produce a pseudo-breakdown curve of the precursor. Once the amount of unreacted precursor crosses a user-defined threshold (e.g., 20%), the analytical MS/MS scan uses that 'optimal' collision energy. View images and learn more here.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Question 8

Which Thermo Scientific Orbitrap Tribrid mass spectrometry instruments is the Assisted Collision Energy (CE) feature available on?

Accepted Answer

Assisted collision energy is now an available feature on all Tribrid instruments, software version 3.1. Through the Method Editor GUI, users can select different 'Collision Energy Modes' for both HCD and CID activation types in the 'Scan Properties' panel. View images and learn more here.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Question 9

What is the purpose of the internal instrument calibration on the Orbitrap ID-X Tribrid Mass Spectrometer?

Accepted Answer

Internal calibrant (reference) ions are used for real-time fine adjustment of the instrument's mass-to-charge ratio calibration, enabling a correction for otherwise uncompensated errors that are due to temperature changes scan-to-scan. The purpose of the internal calibration is to ensure high mass measurement accuracy, regardless of the MSⁿ level. This is especially important for low m/z ions over extended periods of time.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Question 10

What is the purpose of each mode offered in the AcquireX data acquisition tool on the Orbitrap ID-X Tribrid Mass Spectrometer?

Accepted Answer

The three modes offered are:

'Background exclusion workflow'
The background exclusion workflow allows users to generate DDMSⁿ data with automatic application of instrument generated background exclusion list. This allows detection of low level analytes in the presence of a complex background.

'Background exclusion and component inclusion workflow'
The background exclusion and component inclusion workflow allows DDMSⁿ data generation with automatic application of instrument generated inclusion and exclusion list. Multiple samples can be submitted in one sequence for their respective inclusion and exclusion list generation followed by one identification experiment using those lists.

'Deep scan workflow'
The deep scan workflow allows the generation of DDMSⁿ data with automatic application of inclusion and exclusion lists followed by automated re-injection of the sample. The inclusion and exclusion lists are updated prior to re-injection by moving triggered targets from the inclusion list to the exclusion list allowing deeper interrogation of complex samples.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Question 11

What is included in the inclusion and exclusion lists generated by the AcquireX data acquisition tool on the Orbitrap ID-X Tribrid Mass Spectrometer?

Accepted Answer

Inclusion and exclusions lists contain m/z values, retention times and intensity threshold.

Find additional tips, troubleshooting help, and resources within our Mass Spectrometry Support Center.

Question 12

How does AcquireX data acquisition tool work on the Orbitrap Tribrid mass spectrometry instruments?

Accepted Answer