PXD010307

PXD010307 is an original dataset announced via ProteomeXchange.

Title	QCMAP Brain proteomics data - QCMAP: An Interactive Web-Tool for Performance Diagnosis and Prediction of LC-MS Systems
Description	we developed a web-based application (QCMAP) for interactive diagnosis and prediction of the per-formance of LC-MS systems across different biological sample types. Leveraging on a standardized HeLa sample run in Sydney MS core facility, we trained predictive models on a panel of commonly used performance factors to pinpoint the precise conditions to a (un)satisfactory performance in three LC-MS systems. Next, we demonstrated that the learned model can be applied to predict LC-MS system performance for brain samples generated from an independent study. By compiling these predictive models into our web-application, QCMAP allows users to supply their own samples to benchmark the performance of their LC-MS systems and identify key factors for instrument opti-misation.. To demonstrate this, we obtained 10 datasets generated on a QECl instrument from mouse brain samples with different levels of quality.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:46:12.415.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Benjamin Parker
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-07-04 08:52:26	ID requested
1	2019-05-06 07:20:13	announced
2	2019-05-21 05:32:46	announced	Updated publication reference for PubMed record(s): 31099962.
⏵ 3	2024-10-22 04:46:18	announced	2024-10-22: Updated project metadata.

10.1002/pmic.201900068;

Kim T, Chen IR, Parker BL, Humphrey SJ, Crossett B, Cordwell SJ, Yang P, Yang JYH, QCMAP: An Interactive Web-Tool for Performance Diagnosis and Prediction of LC-MS Systems. Proteomics, 19(13):e1900068(2019) [pubmed]

ProteomeXchange project tag: Human Brain Proteome Project (HUPO_HBPP) (B/D-HPP)

submitter keyword: proteomics, quality control,brain

Benjamin Parker
contact affiliation	The University of Sydney
contact email	benjamin.parker@sydney.edu.au
lab head
Benjamin Parker
contact affiliation	The University of Melbourne
contact email	ben.parker@unimelb.edu.au
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/2019/05/PXD010307

PRIDE project URI

• PRIDE
  1. PXD010307
     1. Label: PRIDE project
     2. Name: QCMAP Brain proteomics data - QCMAP: An Interactive Web-Tool for Performance Diagnosis and Prediction of LC-MS Systems