PXD009273-2

PXD009273 is an original dataset announced via ProteomeXchange.

Title	Multi-omic measurements of heterogeneity in HeLa cells across laboratories
Description	We collected 14 stock Hela aliquots from 13 different laboratories across the globe and cultured them in the same conditions. We extensively profiled the genome-wide copy numbers, mRNAs, proteins, protein turnover rates by genomics techniques and the highly reproducible and accurate proteomic method, SWATH mass spectrometry. The cell lines were also phenotyped with respect to the ability of transfected Let7 mimics to modulate Salmonella infection. We discovered significant heterogeneity between Hela variants especially differences between the CCL2 and Kyoto lines collected from different sites. In addition, we observed progressive divergence within a specific cell line over 50 successive passages. By associating proteotype and phenotype we identified molecular patterns that varied between cell lines and explained varying responses to Salmonella infection across the cells. The results furthermore quantify how the cells respond to genomic variability across the transcriptome and proteome.
HostingRepository	PRIDE
AnnounceDate	2019-02-13
AnnouncementXML	Submission_2019-02-20_09:40:21.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yansheng Liu
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2018-03-21 01:09:15	ID requested
1	2019-02-13 04:05:07	announced
⏵ 2	2019-02-20 09:40:22	announced	Updated publication reference for PubMed record(s): 30778230.
3	2024-10-22 04:44:17	announced	2024-10-22: Updated project metadata.

Liu Y, Mi Y, Mueller T, Kreibich S, Williams EG, Van Drogen A, Borel C, Frank M, Germain PL, Bludau I, Mehnert M, Seifert M, Emmenlauer M, Sorg I, Bezrukov F, Bena FS, Zhou H, Dehio C, Testa G, Saez-Rodriguez J, Antonarakis SE, Hardt WD, Aebersold R, Multi-omic measurements of heterogeneity in HeLa cells across laboratories. Nat Biotechnol, 37(3):314-322(2019) [pubmed]

curator keyword: Technical, Biological

submitter keyword: Hela cells, SWATH-MS, Reproducibility

Ruedi Aebersold
contact affiliation	Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland
contact email	aebersold@imsb.biol.ethz.ch
lab head
Yansheng Liu
contact affiliation	Institute of Molecular Systems Biology, ETH Zurich
contact email	liu@imsb.biol.ethz.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/2019/02/PXD009273

PRIDE project URI

• PRIDE
  1. PXD009273
     1. Label: PRIDE project
     2. Name: Multi-omic measurements of heterogeneity in HeLa cells across laboratories