PXD019267

PXD019267 is an original dataset announced via ProteomeXchange.

Title	Proteome changes in monocytic THP-1 cells induced by 31 engineered nanomaterials
Description	Here, we investigated a panel of 31 engineered nanomaterials (ENMs) with different core chemistries and surface modifications using conventional cytotoxicity assays coupled with omics-based approaches. Proteomics analysis were conducted in order to monitor changes in cells proteome exposed to ENMs. In this standard approach, cells are exposed to various types and amounts of ENMs and proteins are extracted after a given exposure period. For controls, no ENM are applied but the incubation and extraction of proteins is done the same way. Proteome changes are monitored using high-resolution Fourier transform mass spectrometry (Orbitraps) as well as in-house developed label-free software. Similar approaches have been used for quantitative analysis of posttranslational modifications. Proteomics analyses following low-dose exposure of THP-1 cells suggested a non-specific stress response to ENMs while microarray-based profiling revealed significant changes in gene expression as a function of both surface functionalization and core chemistry of the ENMs. Pathway analysis revealed that the most biologically active ENMs displaying cationic surfaces downregulated DNA replication/cell cycle responses and upregulated inflammatory responses. This study shows that surface chemistry is a key determinant of nanomaterial effects on immune cells.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:28:05.050.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jimmy Ytterberg
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2020-05-18 16:55:20	ID requested
1	2021-09-09 00:35:30	announced
⏵ 2	2024-10-22 05:28:13	announced	2024-10-22: Updated project metadata.

Gallud A, Delaval M, Kinaret P, Marwah VS, Fortino V, Ytterberg J, Zubarev R, Skoog T, Kere J, Correia M, Loeschner K, Al-Ahmady Z, Kostarelos K, Ruiz J, Astruc D, Monopoli M, Handy R, Moya S, Savolainen K, Alenius H, Greco D, Fadeel B, Multiparametric Profiling of Engineered Nanomaterials: Unmasking the Surface Coating Effect. Adv Sci (Weinh), 7(22):2002221(2020) [pubmed]

10.1002/advs.202002221;

submitter keyword: immunotoxicology, proteomics, mass spectrometry,Nanomaterials, nanotoxicology

Prof. Roman Zubarev
contact affiliation	Department of Medical Biochemistry and Biophysics, Karolinska Institutet, Stockholm, Sweden
contact email	Roman.zubarev@ki.se
lab head
Jimmy Ytterberg
contact affiliation	ADME of Therapeutics (ADMEoT), Uppsala University Drug Optimization and Pharmaceutical Profiling (UDOPP), SciLifeLab Drug Discovery and Development Platform (DDD), Department of Pharmacy, Uppsala University, Uppsala, Sweden
contact email	jimmy.ytterberg@scilifelab.uu.se
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/2021/09/PXD019267

PRIDE project URI

• PRIDE
  1. PXD019267
     1. Label: PRIDE project
     2. Name: Proteome changes in monocytic THP-1 cells induced by 31 engineered nanomaterials