PXD025299

PXD025299 is an original dataset announced via ProteomeXchange.

Title	Semi-automated Glycoproteomic Data Analysis of LC-MS data using GlycopeptideGraphMS in Lead and Process Development of Biologics
Description	The glycosylation of antibody-based proteins is vital in conferring the right therapeutic outcomes of the patient. Despite this, significant infrastructure is required to analyse biologic glycosylation in various unit operations from biologic development, process development to QA/QC in bio-manufacturing. The simplified mass spectrometers offer ease of operation as well as the portability of method development across various operations. Furthermore, data analysis would need to have a degree of automation to relay information back to the manufacturing line. We set out to investigate the applicability of using a semiautomated data analysis workflow to investigate glycosylation in different biologic development test cases. The workflow involves data acquisition using a BioAccord LC-MS system with a data-analytical tool called GlycopeptideGraphMS along with Progenesis QI to semi-automate glycoproteomic characterisation and quantitation in complex LC-MS1 data of a glycoproteomic analysis. Data analysis which involved identifying glycopeptides and their quantitative glycosylation was performed in 30 minutes with minimal user intervention. To demonstrate the effectiveness of the antibody and biologic glycopeptide assignment in various scenarios akin to biologic development activities, we demonstrate the effectiveness in the filtering of IgG1 and IgG2 subclasses from human serum IgG as well as innovator drugs trastuzumab and adalimumab and glycoforms by virtue of their glycosylation pattern. We demonstrate a high correlation between conventional released glycan analysis with fluorescent tagging and glycopeptide assignment derived from GraphMS. GraphMS workflow was then used to monitor the glycoform of our in-house trastuzumab biosimilar produced in fed-batch cultures, and it offers valuable insights into the effect of culture media changes on bioprocess and biologic characterisation. The demonstrated utility of GraphMS to semi-automate quantitation and qualitative identification of glycopeptides proves to be an easy and scalable data analysis method that can complement emerging multi-attribute monitoring (MAM) analytical toolsets in bioprocess environments.
HostingRepository	PRIDE
AnnounceDate	2022-02-17
AnnouncementXML	Submission_2022-02-17_00:34:20.732.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kuin Tian Pang
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	complex glycosylation
Instrument	Waters instrument model

Revision	Datetime	Status	ChangeLog Entry
0	2021-04-09 03:54:31	ID requested
⏵ 1	2022-02-17 00:34:21	announced

Pang KT, Tay SJ, Wan C, Walsh I, Choo MSF, Yang YS, Choo A, Ho YS, Nguyen-Khuong T, Semi-Automated Glycoproteomic Data Analysis of LC-MS Data Using GlycopeptideGraphMS in Process Development of Monoclonal Antibody Biologics. Front Chem, 9():661406(2021) [pubmed]

submitter keyword: GraphMS, BioAccord, IgG, trastuzumab, adalimumab, Glycoproteomic, Process Development, Biologics

Terry Nguyen-Khuong
contact affiliation	GlycoAnalytics Group Bioprocessing Technology Institute Agency for Science, Technology, and Research (A*STAR) Singapore
contact email	terry_nguyen_khuong@bti.a-star.edu.sg
lab head
Kuin Tian Pang
contact affiliation	Bioprocessing Technology Institute, Agency for Science, Technology, and Research (A*STAR)
contact email	zach_pang@bti.a-star.edu.sg
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/2022/02/PXD025299

PRIDE project URI

• PRIDE
  1. PXD025299
     1. Label: PRIDE project
     2. Name: Semi-automated Glycoproteomic Data Analysis of LC-MS data using GlycopeptideGraphMS in Lead and Process Development of Biologics