PXD001650

PXD001650 is an original dataset announced via ProteomeXchange.

Title	Evaluation of the Effect of Trypsin Digestion Buffers on Artificial Deamidation
Description	This work comprehensively compared 50 mM of ammonium acetate (pH 6), Tris-HCl (pH 8), ABC and TEAB as in-solution trypsin digestion buffers. Both iTRAQ quantification and label-free results indicate that ammonium acetate (pH 6) is more suitable than other buffers for studying endogenous deamidation and N-glycosylation due to the significant decrease of artificial Asn deamidation in comparison to other buffers without affecting protein and peptide identification and Gln deamidation. Determination of the half-life of Asn deamidation in the four buffers further validates the conclusion. Our results also indicate that among the commonly used tryspin digestion buffers, ABC and TEAB are not suitable for studying Asn deamidation and N-glycosylation, but Tris-HCl may be used if trypsin digestion has to be done at around pH 8.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:48:48.838.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Piliang Hao
SpeciesList	scientific name: Rattus norvegicus (Rat); NCBI TaxID: 10116;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2015-01-05 05:36:51	ID requested
1	2022-02-28 02:26:30	announced
⏵ 2	2023-11-14 08:48:49	announced	2023-11-14: Updated project metadata.

Hao P, Ren Y, Datta A, Tam JP, Sze SK, Evaluation of the effect of trypsin digestion buffers on artificial deamidation. J Proteome Res, 14(2):1308-14(2015) [pubmed]

curator keyword: Technical

submitter keyword: Rat, Kidney, artificial deamidation

Siu Kwan Sze
contact affiliation	School of Biological Sciences, Nanyang Technological University
contact email	sksze@ntu.edu.sg
lab head
Piliang Hao
contact affiliation	Nanyang Technological Univeristy
contact email	haop0001@e.ntu.edu.sg
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD001650
     1. Label: PRIDE project
     2. Name: Evaluation of the Effect of Trypsin Digestion Buffers on Artificial Deamidation