PXD026750

PXD026750 is an original dataset announced via ProteomeXchange.

Title	A reference database of electrophoretic migration patterns for human proteins in a set of cell lines.
Description	Protein denaturing electrophoresis based on sodium dodecyl sulfate (SDS-PAGE) is a technique widely applied for studying proteins, either alone or in combination with specific antibody-based detection. Despite its popularity, SDS-PAGE and western blotting are poorly reproducible and can give different results depending on experimental factors affecting electrophoresis but also on the characteristics of the antibodies used for detection. We reasoned that a reference database of accurately determined migration patterns for human proteins would be very useful for the community. Using mass spectrometry and an internal calibration strategy, we have constructed a database of migration patterns for thousands of proteins in five commonly used human cell lines and one mouse cell line. We show that the electrophoretic molecular weights determined are accurate and, for a large portion of the proteome, highly reproducible across replicates and cell lines. Data exploration highlighted numerous known protein processing events that can be mapped by combining migration patterns and the sequence coverage observed. The information is freely available in a website and should constitute a useful reference for investigators trying to validate western blot results and protein migrations in general.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_07:25:32.650.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Manfredo Quadroni
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2021-06-16 09:36:13	ID requested
1	2023-01-05 21:13:39	announced
⏵ 2	2023-11-14 07:25:33	announced	2023-11-14: Updated project metadata.

Mylonas R, Potts A, Waridel P, Barblan J, Conde Rubio MDC, Widmann C, Quadroni M, A Database of Accurate Electrophoretic Migration Patterns for Human Proteins. J Mol Biol, 435(4):167933(2023) [pubmed]

submitter keyword: geLC-MS, SDS-PAGE, molecular weight,electrophoresis, western blot

Manfredo Quadroni
contact affiliation	Protein Analysis Facility, Faculty of Biology and Medicine, University of Lausanne, Switzerland
contact email	manfredo.quadroni@unil.ch
lab head
Manfredo Quadroni
contact affiliation	University of Lausanne
contact email	manfredo.quadroni@unil.ch
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/2023/01/PXD026750

PRIDE project URI

• PRIDE
  1. PXD026750
     1. Label: PRIDE project
     2. Name: A reference database of electrophoretic migration patterns for human proteins in a set of cell lines.