PXD017345

PXD017345 is an original dataset announced via ProteomeXchange.

Title	SugarPy facilitates the universal, discovery-driven analysis of intact glycopeptides
Description	Protein glycosylation is a complex post-translational modification with crucial cellular functions in all domains of life. Currently, large-scale glycoproteomics approaches rely on glycan database dependent algorithms and are thus unsuitable for discovery-driven analyses of glycoproteomes. Therefore, we devised SugarPy, a glycan database independent Python module, and validated it on the glycoproteome of human breast milk. We further demonstrated its applicability by analyzing glycoproteomes with uncommon glycans stemming from the green algae Chalmydomonas reinhardtii and the archaeon Haloferax volcanii. Finally, SugarPy facilitated the novel characterization of glycoproteins from Cyanidioschyzon merolae.
HostingRepository	PRIDE
AnnounceDate	2021-03-09
AnnouncementXML	Submission_2021-03-09_11:05:13.891.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Stefan Schulze
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606; scientific name: Cyanidioschyzon merolae; NCBI TaxID: 45157; scientific name: Chlamydomonas reinhardtii; NCBI TaxID: 3055; scientific name: Haloferax volcanii; NCBI TaxID: 2246;
ModificationList	monohydroxylated residue; complex glycosylation; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2020-01-31 01:45:44	ID requested
⏵ 1	2021-03-09 11:05:14	announced

Schulze S, Oltmanns A, Fufezan C, Kr, ä, genbring J, Mormann M, Pohlschr, ö, der M, Hippler M, SugarPy facilitates the universal, discovery-driven analysis of intact glycopeptides. Bioinformatics, 36(22-23):5330-5336(2021) [pubmed]

submitter keyword: SugarPy, computational proteomics, glycoproteomics, glycosylation, IS-CID, LC-MS/MS, human breast milk, microalgae, archaea

Michael Hippler
contact affiliation	Institute of Plant Biology and Biotechnology, University of Münster, 48143 Münster, Germany
contact email	mhippler@uni-muenster.de
lab head
Stefan Schulze
contact affiliation	University of Pennsylvania
contact email	sschulze@sas.upenn.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/2021/03/PXD017345

PRIDE project URI

• PRIDE
  1. PXD017345
     1. Label: PRIDE project
     2. Name: SugarPy facilitates the universal, discovery-driven analysis of intact glycopeptides