PXD011996-1

PXD011996 is an original dataset announced via ProteomeXchange.

Title	Depletion of high molecular mass proteins for the identification of small proteins and small open reading frame encoded peptides in cellular proteomes
Description	We present an acetonitrile-based precipitation methodology which depletes the majority of proteins above ca. 15 kDa. Parameters such as depletion mixture composition, pH and temperature, were optimized using a model protein mixture and the method was evaluated in comparison to the established differential solubility method. The approach was applied to the analysis of the low molecular weight proteome of the archaea Methanosarcina mazei by means of LC-MS. The data clearly show a beneficial effect of reduction of complexity, especially in terms of the quality of MS/MS based identification of small proteins. This fast, detergent-free method allowed for, with minimal sample manipulation, the successful identification of several not yet identified short open reading frame encoded peptides in M. mazei.
HostingRepository	PRIDE
AnnounceDate	2022-02-28
AnnouncementXML	Submission_2022-02-28_02:51:44.268.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Andreas Tholey
SpeciesList	scientific name: Methanosarcina mazei Go1; NCBI TaxID: 192952;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-12-10 06:22:45	ID requested
⏵ 1	2022-02-28 02:51:44	announced
2	2024-10-22 05:34:04	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

curator keyword: Biological

submitter keyword: Acetonitrile precipitation, Methanosarcina mazei, peptidomics, short open reading frame

Andreas Tholey
contact affiliation	Systematische Proteomforschung & Bioanalytik - Institut für Experimentelle Medizin (IEM) Christian-Albrechts-Universität zu Kiel Niemannsweg 11 (Campus UK-SH, Kiel) 24105 Kiel, Germany
contact email	a.tholey@iem.uni-kiel.de
lab head
Andreas Tholey
contact affiliation	Systematic Proteome Research & Bioanalytics, University of Kiel
contact email	a.tholey@iem.uni-kiel.de
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD011996
     1. Label: PRIDE project
     2. Name: Depletion of high molecular mass proteins for the identification of small proteins and small open reading frame encoded peptides in cellular proteomes