PXD053612

PXD053612 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Benchmarking SILAC Proteomics Workflows and Data Analysis Platforms
Description	SILAC proteomics is a powerful metabolic labeling technique that limits experimental variation, while enabling accurate protein quantification. However, multiple isotopic versions (e.g. heavy and light) of the same proteins are generated, increasing spectral complexity and requiring sample deconvolution. Despite the widespread application of SILAC proteomics, various acquisition modes and software have not been comparatively evaluated. Here, we designed a comprehensive benchmarking workflow to systematically compare the performance of several software (e.g. FragPipe, MaxQuant, Proteome Discoverer, DIA-NN and Spectronaut) compatible with SILAC proteomics.
HostingRepository	MassIVE
AnnounceDate	2024-11-02
AnnouncementXML	Submission_2024-11-02_06:34:29.914.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Ling Hao
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	Carbamidomethyl; Oxidation; Acetyl; Label:13C(6)15N(2); Label:13C(6)15N(4)
Instrument	Q Exactive HF-X

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2024-07-03 12:08:33	ID requested
⏵ 1	2024-11-02 06:34:30	announced

Publication List

no publication

no publication

Keyword List

submitter keyword: benchmarking, iPSC, SILAC, Heavy amino acid, Human , Ratio

submitter keyword: benchmarking, iPSC, SILAC, Heavy amino acid, Human , Ratio

Contact List

Ling Hao
contact affiliation	George Washington University
contact email	linghao@gwu.edu
lab head
Ling Hao
contact affiliation	University of Maryland
contact email	haolab.19@gmail.com
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/v08/MSV000095236/

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/v08/MSV000095236/