PXD082278

PXD082278 is an original dataset announced via ProteomeXchange.

Title	SIRT2 deacylase modulators control B cell metabolic reprogramming in EBV infection and mitogenic activation, Luftig Lab
Description	Peptides were enriched using the PTMScan HS Acetyl-Lysine Motif Kit (CST) according to their protocol (see https://media.cellsignal.com/pdf/46784.pdf). After elution, samples were lyophilized to dryness. Samples were resuspended in 200 uL 1% TFA/2% acetonitrile. A study pool QC (SPQC) was created by combining equal volumes of each sample and run periodically throughout the study. Prior to LC-MS analysis, a fluorescent peptide level quantitation assay (Thermo) was performed on the SPQC sample and volumetric loading for all samples was adjusted such that a target 30% of the SPQC was loaded on each EvoTip (EvoSep). Additionally, 50fmol of yeast ADH was loaded on each tip for QC purposes. Quantitative LC/MS/MS was performed using an EvoSep One UPLC coupled to a Thermo Orbitrap Astral high resolution accurate mass tandem mass spectrometer (Thermo). Briefly, each sample loaded EvoTip was eluted onto a 1.5 um EvoSep 150um ID x 15cm performance (EvoSep) column using the SPD30 gradient at 45C. Data collection on the Orbitrap Astral mass spectrometer was performed in a data-independent acquisition (DIA) mode of acquisition with a r=240000 (m/z 200) full MS scan from m/z 380-980 in the OT with a target AGC value of 5000000 ions. Fixed DIA windows of 4 m/z from m/z 380-980 DIA MS/MS scans were acquired in the Astral with a target AGC value of 50000 and max fill time of 6 ms. HCD collision energy setting of 28% was used for all MS2 scans. The total analysis cycle time for each sample injection was approximately 44 min. Following 9 total UPLC-MS/MS analyses, data were imported into Spectronaut (Biognosys) and individual LCMS data files were aligned based on the accurate mass and retention time of detected precursor and fragment ions. Relative peptide abundance was measured based on MS2 fragment ions of selected ion chromatograms of the aligned features across all runs. The MS/MS data was searched against a SwissProt H. sapiens database, a common contaminant/spiked protein database (bovine albumin, bovine casein, yeast ADH, etc.) and an equal number of reversed-sequence "decoys" for false discovery rate determination. A library free Direct DIA+ approach within Spectronaut was used to perform the database searches. Database search parameters included fixed modification on Cys (carbamidomethyl), and variable modifications on: Met (oxidation), N-term (acetylation), and Lysine Acetylation.
HostingRepository	MassIVE
AnnounceDate	2026-08-07
AnnouncementXML	Submission_2026-08-07_11:18:53.741.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Erik Soderblom
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	Acetyl
Instrument	Orbitrap Astral

Revision	Datetime	Status	ChangeLog Entry
0	2026-08-06 09:37:03	ID requested
⏵ 1	2026-08-07 11:18:54	announced

no publication

submitter keyword: acetyl, astral, DatasetType:Proteomics

Micah Luftig
contact affiliation	Duke University
contact email	micah.luftig@duke.edu
lab head
Erik Soderblom
contact affiliation	Duke University
contact email	es114@duke.edu
dataset submitter

MassIVE dataset URI

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive-ftp.ucsd.edu/v14/MSV000102750/