PXD010871

PXD010871 is an original dataset announced via ProteomeXchange.

Title	Prosit: Proteome-wide prediction of peptide tandem mass spectra by deep learning
Description	In this study, we extended the ProteomeTools peptide library (PROPEL, see PXD004732 and PXD010595) to train a deep neural network resulting in chromatographic retention time and fragment ion intensity predictions for (tryptic) peptides that exceed the quality of the experimental data.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:12:33.370.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tobias Schmidt
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: Caenorhabditis elegans; NCBI TaxID: 6239; scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932; scientific name: Drosophila melanogaster (Fruit fly); NCBI TaxID: 7227;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion ETD

Revision	Datetime	Status	ChangeLog Entry
0	2018-08-27 02:46:11	ID requested
1	2019-05-29 19:55:49	announced
⏵ 2	2024-10-22 04:12:34	announced	2024-10-22: Updated project metadata.

10.1038/s41592-019-0426-7;

Gessulat S, Schmidt T, Zolg DP, Samaras P, Schnatbaum K, Zerweck J, Knaute T, Rechenberger J, Delanghe B, Huhmer A, Reimer U, Ehrlich HC, Aiche S, Kuster B, Wilhelm M, Prosit: proteome-wide prediction of peptide tandem mass spectra by deep learning. Nat Methods, 16(6):509-518(2019) [pubmed]

submitter keyword: DIA, Prosit, retention time, predicted spectra, irt,machine learning, ProteomeTools, spectral library, synthetic peptides, DDA

Bernhard Kuster
contact affiliation	Chair of Proteomics and Bioanalytics, Technical University of Munich, Germany
contact email	kuster@tum.de
lab head
Tobias Schmidt
contact affiliation	Chair of Proteomics and Bioanalytics Technical University of Munich
contact email	tobias.k.schmidt@tum.de
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/2019/05/PXD010871

PRIDE project URI

• PRIDE
  1. PXD010871
     1. Label: PRIDE project
     2. Name: Prosit: Proteome-wide prediction of peptide tandem mass spectra by deep learning