PXD034354

PXD034354 is an original dataset announced via ProteomeXchange.

Title	Higher Temperature Porous Graphitic Carbon Separations Differentially Impact Distinct Glycopeptide Classes
Description	Mass spectrometry-based discovery glycoproteomics is highly dependent on the use of chromatography paradigms amenable to analyte retention separation. When compared against established stationary phases such as reversed phase and hydrophilic interaction liquid chromatography, reports utilizing porous graphitic carbon (PGC) have detailed its numerous advantages. Recent efforts have detailed the utility in porous graphitic carbon in high throughput glycoproteomics, principally through enhanced profiling depth and liquid phase resolution at higher column temperatures. However, increasing column temperature was shown to impart disparaging effects in glycopeptide identification. Herein we further elucidate this trend, describing qualitative and quantitative effects of increased column temperature on glycopeptide identification rates, signal intensity, resolution, and spectral count linear response. Through analysis of enriched bovine and human glycopeptides, species with high mannose and sialylated glycans were shown to most significantly benefit and suffer from high column temperatures, respectively. These results provide insight as to how porous graphitic carbon separations may be appropriately leveraged for glycopeptide identification while raising concerns over quantitative and pseudo-quantitative label free comparisons as temperature changes.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:35:04.859.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD034354
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Daniel Delafield
SpeciesList	scientific name: Bos taurus (Bovine); NCBI TaxID: 9913; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	amidated residue; acetylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-06 02:19:30	ID requested
1	2023-02-01 15:09:29	announced
⏵ 2	2023-11-14 08:35:05	announced	2023-11-14: Updated project metadata.

10.6019/PXD034354;

Delafield DG, Miles HN, Ricke WA, Li L, Higher Temperature Porous Graphitic Carbon Separations Differentially Impact Distinct Glycopeptide Classes. J Am Soc Mass Spectrom, 34(1):64-74(2023) [pubmed]

submitter keyword: Glycoproteomics, mass spectrometry, porous graphitic carbon, glycopeptide

Lingjun Li
contact affiliation	Department of Chemistry, Pharmaceutical Sciences Division, University of Wisconsin-Madison, Madison, WI
contact email	lingjun.li@wisc.edu
lab head
Daniel Delafield
contact affiliation	University of Wisconsin - Madison
contact email	delafield@wisc.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD034354
     1. Label: PRIDE project
     2. Name: Higher Temperature Porous Graphitic Carbon Separations Differentially Impact Distinct Glycopeptide Classes