PXD044576

PXD044576 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	EndoGenius: Optimized neuropeptide identification from mass spectrometry datasets
Description	Neuropeptides represent a unique class of signaling molecules that have garnered much attention but require special consideration when gleaning identifications from mass spectra. With highly variable sequence lengths, neuropeptides must by analyzed in their endogenous state. Further, neuropeptides share great homology within families, differing by as little as a single residue, complicating even routine analyses and necessitating optimized computational strategies for identifications. We present EndoGenius, a database searching strategy designed specifically for elucidating neuropeptide identifications from mass spectra by leveraging optimized peptide-spectrum matching approaches, an expansive motif database, and a novel scoring algorithm to achieve broader representation of the neuropeptidome and minimize re-identification. This work describes an algorithm capable of reporting more neuropeptide identifications at 1% false discovery rate than PEAKS DB in five Callinectes sapidus neuronal tissue types.
HostingRepository	MassIVE
AnnounceDate	2024-02-08
AnnouncementXML	Submission_2024-02-08_11:04:46.458.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Lauren Fields
SpeciesList	scientific name: Callinectes sapidus; common name: blue crab; NCBI TaxID: 6763;
ModificationList	Oxidation; Glu->pyro-Glu; Gln->pyro-Glu; Amidated; sulfo+amino
Instrument	Q Exactive HF

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2023-08-14 16:22:28	ID requested
⏵ 1	2024-02-08 11:04:46	announced

Publication List

no publication

no publication

Keyword List

submitter keyword: neuropeptide, endogenius, homology, peptide, mass spectrometry, database searching, FDR, endogenous, peptidomics, digest-free

submitter keyword: neuropeptide, endogenius, homology, peptide, mass spectrometry, database searching, FDR, endogenous, peptidomics, digest-free

Contact List

Lingjun Li
contact affiliation	University of Wisconsin-Madison
contact email	lingjun.li@wisc.edu
lab head
Lauren Fields
contact affiliation	UW Madison
contact email	lawashburn@wisc.edu
dataset submitter

Full Dataset Link List

MassIVE dataset 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://massive.ucsd.edu/v06/MSV000092654/

MassIVE dataset 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://massive.ucsd.edu/v06/MSV000092654/