PXD019311-1

PXD019311 is an original dataset announced via ProteomeXchange.

Title	Improved Monoisotopic Mass Estimation for Deeper Proteome Coverage
Description	Accurate assignment of monoisotopic peaks is essential for the identification of peptides in bottom-up proteomics. Misassignment or inaccurate attribution of peptidic ions leads to lower sensitivity and fewer total peptide identifications. In the present work we present a performant, open-source, cross-platform algorithm, Monocle, for the rapid reassignment of instrument assigned precursor peaks to monoisotopic peptide assignments. We demonstrate that the present algorithm can be integrated into many common proteomics pipelines and provides rapid conversion from multiple data source types. Finally, we show that our monoisotopic peak assignment results in up to a two-fold increase in total peptide identifications compared to analyses lacking monoisotopic correction and a 44% improvement over previous monoisotopic peak correction algorithms.
HostingRepository	PRIDE
AnnounceDate	2020-11-17
AnnouncementXML	Submission_2020-11-17_09:07:29.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jiaming Li
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2020-05-20 17:22:10	ID requested
⏵ 1	2020-11-17 09:07:30	announced

Rad R, Li J, Mintseris J, O'Connell J, Gygi SP, Schweppe DK, Improved Monoisotopic Mass Estimation for Deeper Proteome Coverage. J Proteome Res, 20(1):591-598(2021) [pubmed]

submitter keyword: Monoisotopic peak, TMT, multiplex proteomics, bottom-up proteomics, FAIMS, APD

Steven Gygi
contact affiliation	Harvard Medical School
contact email	steven_gygi@hms.harvard.edu
lab head
Jiaming Li
contact affiliation	Harvard Medical School
contact email	jiaming_li@hms.harvard.edu
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/2020/11/PXD019311

PRIDE project URI

• PRIDE
  1. PXD019311
     1. Label: PRIDE project
     2. Name: Improved Monoisotopic Mass Estimation for Deeper Proteome Coverage