PXD035591 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Structural surfaceomics of Nomo-1 using PhoX cross-linker with timsTOF |
Description | The project aimed to profile the cell surface proteins of Nomo-1 (AML cell line) using structural surfaceomics for identification of protein conformation-based cancer antigens thereby expanding the toolkit for cancer target discovery for immunotherapeutic targeting. To achieve the goal, cell surface capture (CSC) was integrated with cross-linking mass spectrometry (XL-MS). PhoX was used as a cross-linker to freeze the structural conformations of protein in three-dimensional space, followed by biotinylation of cell surface proteins to enable enrichment of cell surface proteins to allow focused XL-MS analysis of those enriched proteins. PhoX having in-built phosphonate-based IMAC handle which allowed additional enrichment of cross-linked peptides. |
HostingRepository | PRIDE |
AnnounceDate | 2023-10-04 |
AnnouncementXML | Submission_2023-10-04_04:34:13.564.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | KamalMandal |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | iodoacetamide derivatized residue |
Instrument | timsTOF Pro |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2022-07-25 11:30:25 | ID requested | |
⏵ 1 | 2023-10-04 04:34:13 | announced | |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: XL-MS, PhoX, cell surfaceome,Nomo-1, AML |
Contact List
Dr. Arun P.Wiita |
contact affiliation | Dept. of Laboratory Medicine University of California, San Francisco, USA |
contact email | arun.wiita@ucsf.edu |
lab head | |
KamalMandal |
contact affiliation | University of California, San Francisco |
contact email | kamal.mandal@ucsf.edu |
dataset submitter | |
Full Dataset Link List
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/2023/10/PXD035591 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD035591
- Label: PRIDE project
- Name: Structural surfaceomics of Nomo-1 using PhoX cross-linker with timsTOF