PXD037451-2

PXD037451 is an original dataset announced via ProteomeXchange.

Title	Mass-spectrometry proteomics of Calu-3 cell lines infected with SARS-CoV-2, in comparison to non-infected and UV mock-treated cell lines
Description	To identify the proteome alterations in human epithelial cells upon SARS-CoV-2 infection, we performed an in vitro experiment, where we infected lung-adenocarcinoma cultured human airway epithelial cells (Calu-3) with an isolate of the ancestral variant and alpha variant of SARS-CoV-2 in two separate experiments. Samples were then collected 3 hours, 1 day, 3 days, and 7 days post infection. In parallel, for comparison, we collected samples on the same days from non-infected cells and cells treated with SARS-CoV-2 virus (of the corresponding variant) inactivated by ultraviolet radiation. All conditions were performed in biological triplicates and we performed proteomics analysis with high-pH fractionation and LC-MS/MS.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_06:51:26.757.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Haris Babačić
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-10-14 14:45:26	ID requested
1	2023-09-01 08:14:53	announced
⏵ 2	2023-11-14 06:51:27	announced	2023-11-14: Updated project metadata.
3	2024-10-22 06:02:19	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

ProteomeXchange project tag: Sars-cov-2, Covid-19

submitter keyword: COVID-19, proteomics, pH fractionation, human, SARS-CoV-2, Calu-3 cell line, infection, LC-MS/MS

Janne Lehtiö
contact affiliation	Science for Life Laboratory; Department of Oncology Pathology, Karolinska Institute, Stockholm, Sweden
contact email	janne.lehtio@ki.se
lab head
Haris Babačić
contact affiliation	1. Department of Oncology-Pathology, Karolinska Institute, Stockholm; 2. Proteogenomics Facility, Science for Life Laboratory
contact email	haris.babacic@ki.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/2023/09/PXD037451

PRIDE project URI

• PRIDE
  1. PXD037451
     1. Label: PRIDE project
     2. Name: Mass-spectrometry proteomics of Calu-3 cell lines infected with SARS-CoV-2, in comparison to non-infected and UV mock-treated cell lines