PXD016377

PXD016377 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Salmonella Typhimurium SL1344 proteogenomics
Description	We describe how searching chimeric spectra with post-processing including MS²PIP-derived features aids the identification of hypothetical and unannotated proteins. We apply our workflow to the well-characterized human bacterial pathogen Salmonella enterica serovar Typhimurium (S. Typhimurium) and validate novel protein-coding regions with by ribo-seq translation evidence. We further elaborate how riboproteogenomics is instrumental for reannotating ORFs and the discovery of novel ORFs across bacteria.
HostingRepository	PRIDE
AnnounceDate	2020-10-13
AnnouncementXML	Submission_2020-10-13_00:27:14.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD016377
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Patrick Willems
SpeciesList	scientific name: Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344; NCBI TaxID: 216597;
ModificationList	Oxidation
Instrument	Q Exactive

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2019-11-21 01:43:34	ID requested
⏵ 1	2020-10-13 00:27:14	announced

Publication List

Dataset with its publication pending

Dataset with its publication pending

Keyword List

submitter keyword: Salmonella Typhimurium SL1344, ribosome profiling, ribo-seq, proteogenomics, post-processing

submitter keyword: Salmonella Typhimurium SL1344, ribosome profiling, ribo-seq, proteogenomics, post-processing

Contact List

Petra Van Damme
contact affiliation	Faculty of Sciences, Department of Biochemistry and microbiology, Ghent University, Belgium
contact email	Petra.VanDamme@UGent.be
lab head
Patrick Willems
contact affiliation	PSB-VIB
contact email	pawil@psb.ugent.be
dataset submitter

Full Dataset Link List

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/2020/10/PXD016377
PRIDE project URI

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/2020/10/PXD016377

PRIDE project URI

Repository Record List

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