PXD019848

PXD019848 is an original dataset announced via ProteomeXchange.

Title	Integration of FAIMS on a Q-Exactive HF mass spectrometer
Description	High-field asymmetric waveform ion mobility spectrometry (FAIMS) has gained popularity in the proteomics field for its capability to improve mass spectrometry sensitivity and to decrease peptide co-fragmentation. The recent implementation of FAIMS on Tribrid Orbitrap instruments enhanced proteome coverage and increased the precision of quantitative measurements. However, the FAIMS interface has not been available on older generation Orbitrap mass spectrometers such as the Q-Exactive. Here, we report the integration of the FAIMS-Pro device with embedded electrical and gas connections to a Q-Exactive HF mass spectrometer. Proteomic experiments performed on HeLa tryptic digests with the modified mass spectrometer improved signal to noise and reduced interfering ions resulting in an increase of 42% in peptide identification. FAIMS was also combined with segmented ion fractionation where 150 m/z windows were analyzed in turn to further increase the depth of proteome analysis by reducing the proportion of chimeric MS/MS spectra from 50% to 27%. We also demonstrate the application of FAIMS to improve quantitative measurements when using isobaric peptide labeling.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:19:00.832.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD019848
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Eric Bonneil
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue; deamidated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2020-06-17 15:41:44	ID requested
1	2021-02-16 06:06:55	announced
⏵ 2	2024-10-22 05:19:01	announced	2024-10-22: Updated project metadata.

10.6019/PXD019848;

submitter keyword: gas-phase fractionation, mass spectrometry, tandem mass tags (TMT),High field asymmetric waveform ion mobility (FAIMS), quantitative proteomics

Pierre Thibault
contact affiliation	IRIC-Université de Montréal
contact email	pierre.thibault@umontreal.ca
lab head
Eric Bonneil
contact affiliation	Proteomic Platform
contact email	eric.bonneil@umontreal.ca
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD019848
     1. Label: PRIDE project
     2. Name: Integration of FAIMS on a Q-Exactive HF mass spectrometer