PXD027675

PXD027675 is an original dataset announced via ProteomeXchange.

Title	30 synthetic peptide fragments of proteins from the human microbiota
Description	The peptides shown in Table 2 and Supplementary Table S3 were found in MS/MS spectra search against the HuMiProt90 database and validated several times — both in silico and by comparison with the spectra of synthetic peptides. The in silico approach included machine learning used by Scaffold 4 software to validate identifications based on the target-decoy approach (FDR 0.56% by PSM), as well as filtering homologous sequences among known human proteins, taking into account possible single amino acid polymorphism. The key stage of validation was the production of 30 synthetic peptides identified as fragments of proteins from the human microbiota. Identification, de novo or by searching against databases, cannot serve as the ultimate stage of investigation because it contains some deliberately incorrect identifications. Figure 2B demonstrates an example of spectrum comparison for a sequence identified in the plasma/serum and a synthetic peptide. Similar pairs of spectra for all 30 peptides are shown in Supplementary Figures S1. The correlation between the mass spectra of blood plasma/serum samples and the spectra of synthetic peptides is not less than 0.7 (for 23 peptides, the correlation is more than 0.8).
HostingRepository	PRIDE
AnnounceDate	2024-06-14
AnnouncementXML	Submission_2024-06-14_07:26:09.590.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD027675
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Georgij Arapidi
SpeciesList	scientific name: Bacteria; NCBI TaxID: 2;
ModificationList	No PTMs are included in the dataset
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2021-07-30 04:46:10	ID requested
⏵ 1	2024-06-14 07:26:09	announced

10.6019/PXD027675;

submitter keyword: immunomodulatory properties, human microbiota, mass spectrometry,Peptidomics

Georgij Pavlovich Arapidi
contact affiliation	Systems Biology Laboratory, Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency
contact email	arapidi@gmail.com
lab head
Georgij Arapidi
contact affiliation	Federal Research and Clinical Center of Physical-Chemical Medicine of Federal Medical Biological Agency
contact email	arapidi@gmail.com
dataset submitter

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://ftp.pride.ebi.ac.uk/pride/data/archive/2024/06/PXD027675

PRIDE project URI

• PRIDE
  1. PXD027675
     1. Label: PRIDE project
     2. Name: 30 synthetic peptide fragments of proteins from the human microbiota